[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/22552673/LUAD-TP.transferedmergedcluster.txt"
[1] "dfn:"
[1] "/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_Correlate_Genomic_Events_Preprocess/LUAD-TP/22815335/transformed.cor.cli.txt"

nPatients in clinical file=520, in cluster file=533, common to both=481
[1]  90 481
[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] "STK11 MUTATION ANALYSIS"
[1] 3
  STK11 MUTATED STK11 WILD-TYPE 
             77             404 
  STK11 MUTATED STK11 WILD-TYPE 
             77             404 
[1] "RBM10 MUTATION ANALYSIS"
[1] 3
  RBM10 MUTATED RBM10 WILD-TYPE 
             33             448 
  RBM10 MUTATED RBM10 WILD-TYPE 
             33             448 
[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] "SMARCA4 MUTATION ANALYSIS"
[1] 3
  SMARCA4 MUTATED SMARCA4 WILD-TYPE 
               38               443 
  SMARCA4 MUTATED SMARCA4 WILD-TYPE 
               38               443 
[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] "FTSJD1 MUTATION ANALYSIS"
[1] 3
  FTSJD1 MUTATED FTSJD1 WILD-TYPE 
              24              457 
  FTSJD1 MUTATED FTSJD1 WILD-TYPE 
              24              457 
[1] "MET MUTATION ANALYSIS"
[1] 3
  MET MUTATED MET WILD-TYPE 
           21           460 
  MET MUTATED MET WILD-TYPE 
           21           460 
[1] "GAGE2A MUTATION ANALYSIS"
[1] 3
  GAGE2A MUTATED GAGE2A WILD-TYPE 
               8              473 
  GAGE2A MUTATED GAGE2A WILD-TYPE 
               8              473 
[1] "SETD2 MUTATION ANALYSIS"
[1] 3
  SETD2 MUTATED SETD2 WILD-TYPE 
             30             451 
  SETD2 MUTATED SETD2 WILD-TYPE 
             30             451 
[1] "U2AF1 MUTATION ANALYSIS"
[1] 3
  U2AF1 MUTATED U2AF1 WILD-TYPE 
             11             470 
  U2AF1 MUTATED U2AF1 WILD-TYPE 
             11             470 
[1] "ERBB2 MUTATION ANALYSIS"
[1] 3
  ERBB2 MUTATED ERBB2 WILD-TYPE 
             11             470 
  ERBB2 MUTATED ERBB2 WILD-TYPE 
             11             470 
[1] "CDKN2A MUTATION ANALYSIS"
[1] 3
  CDKN2A MUTATED CDKN2A WILD-TYPE 
              16              465 
  CDKN2A MUTATED CDKN2A WILD-TYPE 
              16              465 
[1] "SRPX MUTATION ANALYSIS"
[1] 3
  SRPX MUTATED SRPX WILD-TYPE 
            14            467 
  SRPX MUTATED SRPX WILD-TYPE 
            14            467 
[1] "ATM MUTATION ANALYSIS"
[1] 3
  ATM MUTATED ATM WILD-TYPE 
           42           439 
  ATM MUTATED ATM WILD-TYPE 
           42           439 
[1] "TCEAL5 MUTATION ANALYSIS"
[1] 3
  TCEAL5 MUTATED TCEAL5 WILD-TYPE 
              13              468 
  TCEAL5 MUTATED TCEAL5 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] "APC MUTATION ANALYSIS"
[1] 3
  APC MUTATED APC WILD-TYPE 
           20           461 
  APC MUTATED APC WILD-TYPE 
           20           461 
[1] "ZEB1 MUTATION ANALYSIS"
[1] 3
  ZEB1 MUTATED ZEB1 WILD-TYPE 
            32            449 
  ZEB1 MUTATED ZEB1 WILD-TYPE 
            32            449 
[1] "SIP1 MUTATION ANALYSIS"
[1] 3
  SIP1 MUTATED SIP1 WILD-TYPE 
             4            477 
  SIP1 MUTATED SIP1 WILD-TYPE 
             4            477 
[1] "SLC4A3 MUTATION ANALYSIS"
[1] 3
  SLC4A3 MUTATED SLC4A3 WILD-TYPE 
              18              463 
  SLC4A3 MUTATED SLC4A3 WILD-TYPE 
              18              463 
[1] "STK19 MUTATION ANALYSIS"
[1] 3
  STK19 MUTATED STK19 WILD-TYPE 
              5             476 
  STK19 MUTATED STK19 WILD-TYPE 
              5             476 
[1] "NUDT11 MUTATION ANALYSIS"
[1] 3
  NUDT11 MUTATED NUDT11 WILD-TYPE 
               5              476 
  NUDT11 MUTATED NUDT11 WILD-TYPE 
               5              476 
[1] "SLAMF9 MUTATION ANALYSIS"
[1] 3
  SLAMF9 MUTATED SLAMF9 WILD-TYPE 
              12              469 
  SLAMF9 MUTATED SLAMF9 WILD-TYPE 
              12              469 
[1] "DNMT3A MUTATION ANALYSIS"
[1] 3
  DNMT3A MUTATED DNMT3A WILD-TYPE 
              19              462 
  DNMT3A MUTATED DNMT3A 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] "PTPRU MUTATION ANALYSIS"
[1] 3
  PTPRU MUTATED PTPRU WILD-TYPE 
             18             463 
  PTPRU MUTATED PTPRU WILD-TYPE 
             18             463 
[1] "PIK3CA MUTATION ANALYSIS"
[1] 3
  PIK3CA MUTATED PIK3CA WILD-TYPE 
              28              453 
  PIK3CA MUTATED PIK3CA WILD-TYPE 
              28              453 
[1] "ZNF608 MUTATION ANALYSIS"
[1] 3
  ZNF608 MUTATED ZNF608 WILD-TYPE 
               9              472 
  ZNF608 MUTATED ZNF608 WILD-TYPE 
               9              472 
[1] "STIM1 MUTATION ANALYSIS"
[1] 3
  STIM1 MUTATED STIM1 WILD-TYPE 
              9             472 
  STIM1 MUTATED STIM1 WILD-TYPE 
              9             472 
[1] "EMG1 MUTATION ANALYSIS"
[1] 3
  EMG1 MUTATED EMG1 WILD-TYPE 
             5            476 
  EMG1 MUTATED EMG1 WILD-TYPE 
             5            476 
[1] "PHKA1 MUTATION ANALYSIS"
[1] 3
  PHKA1 MUTATED PHKA1 WILD-TYPE 
             12             469 
  PHKA1 MUTATED PHKA1 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] "NRAS MUTATION ANALYSIS"
[1] 3
  NRAS MUTATED NRAS WILD-TYPE 
             3            478 
  NRAS MUTATED NRAS WILD-TYPE 
             3            478 
[1] "G3BP1 MUTATION ANALYSIS"
[1] 3
  G3BP1 MUTATED G3BP1 WILD-TYPE 
              8             473 
  G3BP1 MUTATED G3BP1 WILD-TYPE 
              8             473 
[1] "TRERF1 MUTATION ANALYSIS"
[1] 3
  TRERF1 MUTATED TRERF1 WILD-TYPE 
              18              463 
  TRERF1 MUTATED TRERF1 WILD-TYPE 
              18              463 
[1] "CACNA1F MUTATION ANALYSIS"
[1] 3
  CACNA1F MUTATED CACNA1F WILD-TYPE 
               27               454 
  CACNA1F MUTATED CACNA1F WILD-TYPE 
               27               454 
[1] "NFE2L2 MUTATION ANALYSIS"
[1] 3
  NFE2L2 MUTATED NFE2L2 WILD-TYPE 
              13              468 
  NFE2L2 MUTATED NFE2L2 WILD-TYPE 
              13              468 
[1] "RPL5 MUTATION ANALYSIS"
[1] 3
  RPL5 MUTATED RPL5 WILD-TYPE 
             8            473 
  RPL5 MUTATED RPL5 WILD-TYPE 
             8            473 
[1] "STRA8 MUTATION ANALYSIS"
[1] 3
  STRA8 MUTATED STRA8 WILD-TYPE 
              8             473 
  STRA8 MUTATED STRA8 WILD-TYPE 
              8             473 
[1] "NLRP6 MUTATION ANALYSIS"
[1] 3
  NLRP6 MUTATED NLRP6 WILD-TYPE 
             10             471 
  NLRP6 MUTATED NLRP6 WILD-TYPE 
             10             471 
[1] "FAM65C MUTATION ANALYSIS"
[1] 3
  FAM65C MUTATED FAM65C WILD-TYPE 
              14              467 
  FAM65C MUTATED FAM65C WILD-TYPE 
              14              467 
[1] "WDR66 MUTATION ANALYSIS"
[1] 3
  WDR66 MUTATED WDR66 WILD-TYPE 
             14             467 
  WDR66 MUTATED WDR66 WILD-TYPE 
             14             467 
[1] "RIT1 MUTATION ANALYSIS"
[1] 3
  RIT1 MUTATED RIT1 WILD-TYPE 
             8            473 
  RIT1 MUTATED RIT1 WILD-TYPE 
             8            473 
[1] "TGFBR3 MUTATION ANALYSIS"
[1] 3
  TGFBR3 MUTATED TGFBR3 WILD-TYPE 
              14              467 
  TGFBR3 MUTATED TGFBR3 WILD-TYPE 
              14              467 
[1] "CXCR7 MUTATION ANALYSIS"
[1] 3
  CXCR7 MUTATED CXCR7 WILD-TYPE 
             10             471 
  CXCR7 MUTATED CXCR7 WILD-TYPE 
             10             471 
[1] "GAN MUTATION ANALYSIS"
[1] 3
  GAN MUTATED GAN WILD-TYPE 
           10           471 
  GAN MUTATED GAN WILD-TYPE 
           10           471 
[1] "TMEM49 MUTATION ANALYSIS"
[1] 3
  TMEM49 MUTATED TMEM49 WILD-TYPE 
               5              476 
  TMEM49 MUTATED TMEM49 WILD-TYPE 
               5              476 
[1] "HSPA8 MUTATION ANALYSIS"
[1] 3
  HSPA8 MUTATED HSPA8 WILD-TYPE 
              9             472 
  HSPA8 MUTATED HSPA8 WILD-TYPE 
              9             472 
[1] "CD244 MUTATION ANALYSIS"
[1] 3
  CD244 MUTATED CD244 WILD-TYPE 
             12             469 
  CD244 MUTATED CD244 WILD-TYPE 
             12             469 
[1] "KIF18B MUTATION ANALYSIS"
[1] 3
  KIF18B MUTATED KIF18B WILD-TYPE 
               4              477 
  KIF18B MUTATED KIF18B WILD-TYPE 
               4              477 
[1] "PDE6A MUTATION ANALYSIS"
[1] 3
  PDE6A MUTATED PDE6A WILD-TYPE 
             16             465 
  PDE6A MUTATED PDE6A WILD-TYPE 
             16             465 
[1] "CHRND MUTATION ANALYSIS"
[1] 3
  CHRND MUTATED CHRND WILD-TYPE 
             16             465 
  CHRND MUTATED CHRND WILD-TYPE 
             16             465 
[1] "KLK1 MUTATION ANALYSIS"
[1] 3
  KLK1 MUTATED KLK1 WILD-TYPE 
             8            473 
  KLK1 MUTATED KLK1 WILD-TYPE 
             8            473 
[1] "KLHL5 MUTATION ANALYSIS"
[1] 3
  KLHL5 MUTATED KLHL5 WILD-TYPE 
             14             467 
  KLHL5 MUTATED KLHL5 WILD-TYPE 
             14             467 
[1] "DSC2 MUTATION ANALYSIS"
[1] 3
  DSC2 MUTATED DSC2 WILD-TYPE 
            20            461 
  DSC2 MUTATED DSC2 WILD-TYPE 
            20            461 
[1] "RNF160 MUTATION ANALYSIS"
[1] 3
  RNF160 MUTATED RNF160 WILD-TYPE 
              15              466 
  RNF160 MUTATED RNF160 WILD-TYPE 
              15              466 
[1] "AIFM1 MUTATION ANALYSIS"
[1] 3
  AIFM1 MUTATED AIFM1 WILD-TYPE 
             12             469 
  AIFM1 MUTATED AIFM1 WILD-TYPE 
             12             469 
[1] "DOT1L MUTATION ANALYSIS"
[1] 3
  DOT1L MUTATED DOT1L WILD-TYPE 
             14             467 
  DOT1L MUTATED DOT1L WILD-TYPE 
             14             467 
[1] "MCM9 MUTATION ANALYSIS"
[1] 3
  MCM9 MUTATED MCM9 WILD-TYPE 
             3            478 
  MCM9 MUTATED MCM9 WILD-TYPE 
             3            478 
[1] "NCKAP1L MUTATION ANALYSIS"
[1] 3
  NCKAP1L MUTATED NCKAP1L WILD-TYPE 
               19               462 
  NCKAP1L MUTATED NCKAP1L WILD-TYPE 
               19               462 
[1] "ESYT3 MUTATION ANALYSIS"
[1] 3
  ESYT3 MUTATED ESYT3 WILD-TYPE 
              8             473 
  ESYT3 MUTATED ESYT3 WILD-TYPE 
              8             473 
[1] "MIA2 MUTATION ANALYSIS"
[1] 3
  MIA2 MUTATED MIA2 WILD-TYPE 
            13            468 
  MIA2 MUTATED MIA2 WILD-TYPE 
            13            468 
[1] "TUBB4 MUTATION ANALYSIS"
[1] 3
  TUBB4 MUTATED TUBB4 WILD-TYPE 
             17             464 
  TUBB4 MUTATED TUBB4 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] "ANTXR1 MUTATION ANALYSIS"
[1] 3
  ANTXR1 MUTATED ANTXR1 WILD-TYPE 
              19              462 
  ANTXR1 MUTATED ANTXR1 WILD-TYPE 
              19              462 
[1] "FLCN MUTATION ANALYSIS"
[1] 3
  FLCN MUTATED FLCN WILD-TYPE 
             9            472 
  FLCN MUTATED FLCN WILD-TYPE 
             9            472 
[1] "ZNF556 MUTATION ANALYSIS"
[1] 3
  ZNF556 MUTATED ZNF556 WILD-TYPE 
              12              469 
  ZNF556 MUTATED ZNF556 WILD-TYPE 
              12              469 
[1] "ASCL3 MUTATION ANALYSIS"
[1] 3
  ASCL3 MUTATED ASCL3 WILD-TYPE 
              7             474 
  ASCL3 MUTATED ASCL3 WILD-TYPE 
              7             474 
[1] "DSG3 MUTATION ANALYSIS"
[1] 3
  DSG3 MUTATED DSG3 WILD-TYPE 
            33            448 
  DSG3 MUTATED DSG3 WILD-TYPE 
            33            448 
[1] "C5AR1 MUTATION ANALYSIS"
[1] 3
  C5AR1 MUTATED C5AR1 WILD-TYPE 
              6             475 
  C5AR1 MUTATED C5AR1 WILD-TYPE 
              6             475 
[1] "ASXL2 MUTATION ANALYSIS"
[1] 3
  ASXL2 MUTATED ASXL2 WILD-TYPE 
             18             463 
  ASXL2 MUTATED ASXL2 WILD-TYPE 
             18             463 
[1] "DLX5 MUTATION ANALYSIS"
[1] 3
  DLX5 MUTATED DLX5 WILD-TYPE 
            13            468 
  DLX5 MUTATED DLX5 WILD-TYPE 
            13            468 
[1] "ATAD2 MUTATION ANALYSIS"
[1] 3
  ATAD2 MUTATED ATAD2 WILD-TYPE 
             14             467 
  ATAD2 MUTATED ATAD2 WILD-TYPE 
             14             467 
[1] "RAF1 MUTATION ANALYSIS"
[1] 3
  RAF1 MUTATED RAF1 WILD-TYPE 
             6            475 
  RAF1 MUTATED RAF1 WILD-TYPE 
             6            475 
[1] "A2M MUTATION ANALYSIS"
[1] 3
  A2M MUTATED A2M WILD-TYPE 
           20           461 
  A2M MUTATED A2M WILD-TYPE 
           20           461 
[1] "SND1 MUTATION ANALYSIS"
[1] 3
  SND1 MUTATED SND1 WILD-TYPE 
            16            465 
  SND1 MUTATED SND1 WILD-TYPE 
            16            465 
[1] "C7ORF36 MUTATION ANALYSIS"
[1] 3
  C7ORF36 MUTATED C7ORF36 WILD-TYPE 
                6               475 
  C7ORF36 MUTATED C7ORF36 WILD-TYPE 
                6               475 
[1] "HTRA1 MUTATION ANALYSIS"
[1] 3
  HTRA1 MUTATED HTRA1 WILD-TYPE 
             10             471 
  HTRA1 MUTATED HTRA1 WILD-TYPE 
             10             471 
[1] "ADAMTS2 MUTATION ANALYSIS"
[1] 3
  ADAMTS2 MUTATED ADAMTS2 WILD-TYPE 
               39               442 
  ADAMTS2 MUTATED ADAMTS2 WILD-TYPE 
               39               442 
[1] "TAF1L MUTATION ANALYSIS"
[1] 3
  TAF1L MUTATED TAF1L WILD-TYPE 
             50             431 
  TAF1L MUTATED TAF1L WILD-TYPE 
             50             431 
[1] "PLEKHB2 MUTATION ANALYSIS"
[1] 3
  PLEKHB2 MUTATED PLEKHB2 WILD-TYPE 
                6               475 
  PLEKHB2 MUTATED PLEKHB2 WILD-TYPE 
                6               475 
[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=3,	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=5,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 6:'RPPA_CHIERARCHICAL':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 7:'MRNASEQ_CNMF':	nDistinctValues=5,	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=6,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 11:'MIRSEQ_MATURE_CNMF':	nDistinctValues=6,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 12:'MIRSEQ_MATURE_CHIERARCHICAL':	nDistinctValues=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=3, 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=5, binary=FALSE, numeric=FALSE
RPPA_CHIERARCHICAL, nv=3, binary=FALSE, numeric=FALSE
MRNASEQ_CNMF, nv=5, binary=FALSE, numeric=FALSE
MRNASEQ_CHIERARCHICAL, nv=7, binary=FALSE, numeric=FALSE
MIRSEQ_CNMF, nv=3, binary=FALSE, numeric=FALSE
MIRSEQ_CHIERARCHICAL, nv=6, binary=FALSE, numeric=FALSE
MIRSEQ_MATURE_CNMF, nv=6, 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
  TP53 MUTATED        1      4      3
  TP53 WILD-TYPE      7      4      1
D1V1, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1            1              7
  CLUS_2            4              4
  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
  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      108     81     28     37
  TP53 WILD-TYPE     50     46     95     33
D1V3, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1          108             50
  CLUS_2           81             46
  CLUS_3           28             95
  CLUS_4           37             33
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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       93     98     43
  TP53 WILD-TYPE     53     69     74
D1V4, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1           93             53
  CLUS_2           98             69
  CLUS_3           43             74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TP53 MUTATED       52     10     18     46     50
  TP53 WILD-TYPE     37     12     41     19     51
D1V5, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1           52             37
  CLUS_2           10             12
  CLUS_3           18             41
  CLUS_4           46             19
  CLUS_5           50             51
[1] 5 2
[1] TRUE
[1] "dimension of contingency table 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       62     86     28
  TP53 WILD-TYPE     94     35     31
D1V6, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1           62             94
  CLUS_2           86             35
  CLUS_3           28             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       98     29     49     53     26
  TP53 WILD-TYPE     29     80     37     52     25
D1V7, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1           98             29
  CLUS_2           29             80
  CLUS_3           49             37
  CLUS_4           53             52
  CLUS_5           26             25
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 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       65    137     51
  TP53 WILD-TYPE    107     68     48
D1V9, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1           65            107
  CLUS_2          137             68
  CLUS_3           51             48
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TP53 MUTATED       22     11     93     56     65      6
  TP53 WILD-TYPE     48     26     42     64     21     22
D1V10, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1           22             48
  CLUS_2           11             26
  CLUS_3           93             42
  CLUS_4           56             64
  CLUS_5           65             21
  CLUS_6            6             22
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TP53 MUTATED       17     48     65     15     34     50
  TP53 WILD-TYPE     38     37     32     27     26     23
D1V11, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1           17             38
  CLUS_2           48             37
  CLUS_3           65             32
  CLUS_4           15             27
  CLUS_5           34             26
  CLUS_6           50             23
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TP53 MUTATED       34    143     52
  TP53 WILD-TYPE     62     79     42
D1V12, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1           34             62
  CLUS_2          143             79
  CLUS_3           52             42
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(2) Variable = KRAS MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  KRAS MUTATED        2      2      1
  KRAS WILD-TYPE      6      6      3
D2V1, multiclass
        clus
vv       KRAS MUTATED KRAS WILD-TYPE
  CLUS_1            2              6
  CLUS_2            2              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
  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       28     43     53     26
  KRAS WILD-TYPE    130     84     70     44
D2V3, multiclass
        clus
vv       KRAS MUTATED KRAS WILD-TYPE
  CLUS_1           28            130
  CLUS_2           43             84
  CLUS_3           53             70
  CLUS_4           26             44
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  KRAS MUTATED       37     68     30
  KRAS WILD-TYPE    109     99     87
D2V4, multiclass
        clus
vv       KRAS MUTATED KRAS WILD-TYPE
  CLUS_1           37            109
  CLUS_2           68             99
  CLUS_3           30             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
  KRAS MUTATED       20      6     22     16     32
  KRAS WILD-TYPE     69     16     37     49     69
D2V5, multiclass
        clus
vv       KRAS MUTATED KRAS WILD-TYPE
  CLUS_1           20             69
  CLUS_2            6             16
  CLUS_3           22             37
  CLUS_4           16             49
  CLUS_5           32             69
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  KRAS MUTATED       48     27     21
  KRAS WILD-TYPE    108     94     38
D2V6, multiclass
        clus
vv       KRAS MUTATED KRAS WILD-TYPE
  CLUS_1           48            108
  CLUS_2           27             94
  CLUS_3           21             38
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KRAS MUTATED       33     34     33     34     15
  KRAS WILD-TYPE     94     75     53     71     36
D2V7, multiclass
        clus
vv       KRAS MUTATED KRAS WILD-TYPE
  CLUS_1           33             94
  CLUS_2           34             75
  CLUS_3           33             53
  CLUS_4           34             71
  CLUS_5           15             36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will 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       67     59     21
  KRAS WILD-TYPE    105    146     78
D2V9, multiclass
        clus
vv       KRAS MUTATED KRAS WILD-TYPE
  CLUS_1           67            105
  CLUS_2           59            146
  CLUS_3           21             78
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  KRAS MUTATED       29     17     42     43     12      4
  KRAS WILD-TYPE     41     20     93     77     74     24
D2V10, multiclass
        clus
vv       KRAS MUTATED KRAS WILD-TYPE
  CLUS_1           29             41
  CLUS_2           17             20
  CLUS_3           42             93
  CLUS_4           43             77
  CLUS_5           12             74
  CLUS_6            4             24
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  KRAS MUTATED       20     31     25     10     20     22
  KRAS WILD-TYPE     35     54     72     32     40     51
D2V11, multiclass
        clus
vv       KRAS MUTATED KRAS WILD-TYPE
  CLUS_1           20             35
  CLUS_2           31             54
  CLUS_3           25             72
  CLUS_4           10             32
  CLUS_5           20             40
  CLUS_6           22             51
[1] 6 2
[1] TRUE
[1] "dimension of contingency table 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       39     64     25
  KRAS WILD-TYPE     57    158     69
D2V12, multiclass
        clus
vv       KRAS MUTATED KRAS WILD-TYPE
  CLUS_1           39             57
  CLUS_2           64            158
  CLUS_3           25             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"

Clustering(3) Variable = KEAP1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KEAP1 MUTATED        0      0      1
  KEAP1 WILD-TYPE      8      8      3
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        9     36     19     20
  KEAP1 WILD-TYPE    149     91    104     50
D3V3, multiclass
        clus
vv       KEAP1 MUTATED KEAP1 WILD-TYPE
  CLUS_1             9             149
  CLUS_2            36              91
  CLUS_3            19             104
  CLUS_4            20              50
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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       53     15      6
  KEAP1 WILD-TYPE     93    152    111
D3V4, multiclass
        clus
vv       KEAP1 MUTATED KEAP1 WILD-TYPE
  CLUS_1            53              93
  CLUS_2            15             152
  CLUS_3             6             111
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KEAP1 MUTATED        6      3     16     20     18
  KEAP1 WILD-TYPE     83     19     43     45     83
D3V5, multiclass
        clus
vv       KEAP1 MUTATED KEAP1 WILD-TYPE
  CLUS_1             6              83
  CLUS_2             3              19
  CLUS_3            16              43
  CLUS_4            20              45
  CLUS_5            18              83
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KEAP1 MUTATED       28     27      8
  KEAP1 WILD-TYPE    128     94     51
D3V6, multiclass
        clus
vv       KEAP1 MUTATED KEAP1 WILD-TYPE
  CLUS_1            28             128
  CLUS_2            27              94
  CLUS_3             8              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
  KEAP1 MUTATED        6     17     26     31      3
  KEAP1 WILD-TYPE    121     92     60     74     48
D3V7, multiclass
        clus
vv       KEAP1 MUTATED KEAP1 WILD-TYPE
  CLUS_1             6             121
  CLUS_2            17              92
  CLUS_3            26              60
  CLUS_4            31              74
  CLUS_5             3              48
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will 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       32     39     10
  KEAP1 WILD-TYPE    140    166     89
D3V9, multiclass
        clus
vv       KEAP1 MUTATED KEAP1 WILD-TYPE
  CLUS_1            32             140
  CLUS_2            39             166
  CLUS_3            10              89
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  KEAP1 MUTATED       20      4     24     11     22      0
  KEAP1 WILD-TYPE     50     33    111    109     64     28
D3V10, multiclass
        clus
vv       KEAP1 MUTATED KEAP1 WILD-TYPE
  CLUS_1            20              50
  CLUS_2             4              33
  CLUS_3            24             111
  CLUS_4            11             109
  CLUS_5            22              64
  CLUS_6             0              28
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  KEAP1 MUTATED        8     22     13      3     10     14
  KEAP1 WILD-TYPE     47     63     84     39     50     59
D3V11, multiclass
        clus
vv       KEAP1 MUTATED KEAP1 WILD-TYPE
  CLUS_1             8              47
  CLUS_2            22              63
  CLUS_3            13              84
  CLUS_4             3              39
  CLUS_5            10              50
  CLUS_6            14              59
[1] 6 2
[1] TRUE
[1] "dimension of contingency table 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     47      7
  KEAP1 WILD-TYPE     80    175     87
D3V12, multiclass
        clus
vv       KEAP1 MUTATED KEAP1 WILD-TYPE
  CLUS_1            16              80
  CLUS_2            47             175
  CLUS_3             7              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"

Clustering(4) Variable = EGFR MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  EGFR MUTATED        2      0      0
  EGFR WILD-TYPE      6      8      4
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       45     10      8      3
  EGFR WILD-TYPE    113    117    115     67
D4V3, multiclass
        clus
vv       EGFR MUTATED EGFR WILD-TYPE
  CLUS_1           45            113
  CLUS_2           10            117
  CLUS_3            8            115
  CLUS_4            3             67
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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     20
  EGFR WILD-TYPE    128    147     97
D4V4, multiclass
        clus
vv       EGFR MUTATED EGFR WILD-TYPE
  CLUS_1           18            128
  CLUS_2           20            147
  CLUS_3           20             97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EGFR MUTATED       18      7     11      3      9
  EGFR WILD-TYPE     71     15     48     62     92
D4V5, multiclass
        clus
vv       EGFR MUTATED EGFR WILD-TYPE
  CLUS_1           18             71
  CLUS_2            7             15
  CLUS_3           11             48
  CLUS_4            3             62
  CLUS_5            9             92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table 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     15      3
  EGFR WILD-TYPE    126    106     56
D4V6, multiclass
        clus
vv       EGFR MUTATED EGFR WILD-TYPE
  CLUS_1           30            126
  CLUS_2           15            106
  CLUS_3            3             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
  EGFR MUTATED       28     17      4      6     12
  EGFR WILD-TYPE     99     92     82     99     39
D4V7, multiclass
        clus
vv       EGFR MUTATED EGFR WILD-TYPE
  CLUS_1           28             99
  CLUS_2           17             92
  CLUS_3            4             82
  CLUS_4            6             99
  CLUS_5           12             39
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will 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       17     28     22
  EGFR WILD-TYPE    155    177     77
D4V9, multiclass
        clus
vv       EGFR MUTATED EGFR WILD-TYPE
  CLUS_1           17            155
  CLUS_2           28            177
  CLUS_3           22             77
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  EGFR MUTATED        4      8     17     16     10     12
  EGFR WILD-TYPE     66     29    118    104     76     16
D4V10, multiclass
        clus
vv       EGFR MUTATED EGFR WILD-TYPE
  CLUS_1            4             66
  CLUS_2            8             29
  CLUS_3           17            118
  CLUS_4           16            104
  CLUS_5           10             76
  CLUS_6           12             16
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  EGFR MUTATED        9      7     12     10      9     10
  EGFR WILD-TYPE     46     78     85     32     51     63
D4V11, multiclass
        clus
vv       EGFR MUTATED EGFR WILD-TYPE
  CLUS_1            9             46
  CLUS_2            7             78
  CLUS_3           12             85
  CLUS_4           10             32
  CLUS_5            9             51
  CLUS_6           10             63
[1] 6 2
[1] TRUE
[1] "dimension of contingency table 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       10     26     21
  EGFR WILD-TYPE     86    196     73
D4V12, multiclass
        clus
vv       EGFR MUTATED EGFR WILD-TYPE
  CLUS_1           10             86
  CLUS_2           26            196
  CLUS_3           21             73
[1] 3 2
[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 = STK11 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  STK11 MUTATED        0      0      0
  STK11 WILD-TYPE      8      8      4
D5V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  STK11 MUTATED        0      0      0
  STK11 WILD-TYPE      7      9      4
D5V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  STK11 MUTATED        5     26     21     25
  STK11 WILD-TYPE    153    101    102     45
D5V3, multiclass
        clus
vv       STK11 MUTATED STK11 WILD-TYPE
  CLUS_1             5             153
  CLUS_2            26             101
  CLUS_3            21             102
  CLUS_4            25              45
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  STK11 MUTATED       36     25      9
  STK11 WILD-TYPE    110    142    108
D5V4, multiclass
        clus
vv       STK11 MUTATED STK11 WILD-TYPE
  CLUS_1            36             110
  CLUS_2            25             142
  CLUS_3             9             108
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  STK11 MUTATED        2      1     19     15     20
  STK11 WILD-TYPE     87     21     40     50     81
D5V5, multiclass
        clus
vv       STK11 MUTATED STK11 WILD-TYPE
  CLUS_1             2              87
  CLUS_2             1              21
  CLUS_3            19              40
  CLUS_4            15              50
  CLUS_5            20              81
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  STK11 MUTATED       27     15     15
  STK11 WILD-TYPE    129    106     44
D5V6, multiclass
        clus
vv       STK11 MUTATED STK11 WILD-TYPE
  CLUS_1            27             129
  CLUS_2            15             106
  CLUS_3            15              44
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  STK11 MUTATED        1     20     18     32      4
  STK11 WILD-TYPE    126     89     68     73     47
D5V7, multiclass
        clus
vv       STK11 MUTATED STK11 WILD-TYPE
  CLUS_1             1             126
  CLUS_2            20              89
  CLUS_3            18              68
  CLUS_4            32              73
  CLUS_5             4              47
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will 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
D5V8, 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     35     14
  STK11 WILD-TYPE    146    170     85
D5V9, multiclass
        clus
vv       STK11 MUTATED STK11 WILD-TYPE
  CLUS_1            26             146
  CLUS_2            35             170
  CLUS_3            14              85
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  STK11 MUTATED       20     11     20      9     15      0
  STK11 WILD-TYPE     50     26    115    111     71     28
D5V10, multiclass
        clus
vv       STK11 MUTATED STK11 WILD-TYPE
  CLUS_1            20              50
  CLUS_2            11              26
  CLUS_3            20             115
  CLUS_4             9             111
  CLUS_5            15              71
  CLUS_6             0              28
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  STK11 MUTATED        8     27     11      9      5      9
  STK11 WILD-TYPE     47     58     86     33     55     64
D5V11, multiclass
        clus
vv       STK11 MUTATED STK11 WILD-TYPE
  CLUS_1             8              47
  CLUS_2            27              58
  CLUS_3            11              86
  CLUS_4             9              33
  CLUS_5             5              55
  CLUS_6             9              64
[1] 6 2
[1] TRUE
[1] "dimension of contingency table 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       17     44      8
  STK11 WILD-TYPE     79    178     86
D5V12, multiclass
        clus
vv       STK11 MUTATED STK11 WILD-TYPE
  CLUS_1            17              79
  CLUS_2            44             178
  CLUS_3             8              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"

Clustering(6) Variable = RBM10 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RBM10 MUTATED        0      1      0
  RBM10 WILD-TYPE      8      7      4
D6V1, 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
D6V2, 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        6     10     14      3
  RBM10 WILD-TYPE    152    117    109     67
D6V3, multiclass
        clus
vv       RBM10 MUTATED RBM10 WILD-TYPE
  CLUS_1             6             152
  CLUS_2            10             117
  CLUS_3            14             109
  CLUS_4             3              67
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        8     16      4
  RBM10 WILD-TYPE    138    151    113
D6V4, multiclass
        clus
vv       RBM10 MUTATED RBM10 WILD-TYPE
  CLUS_1             8             138
  CLUS_2            16             151
  CLUS_3             4             113
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RBM10 MUTATED        3      0      6      2      7
  RBM10 WILD-TYPE     86     22     53     63     94
D6V5, multiclass
        clus
vv       RBM10 MUTATED RBM10 WILD-TYPE
  CLUS_1             3              86
  CLUS_2             0              22
  CLUS_3             6              53
  CLUS_4             2              63
  CLUS_5             7              94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table 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      4      4
  RBM10 WILD-TYPE    146    117     55
D6V6, multiclass
        clus
vv       RBM10 MUTATED RBM10 WILD-TYPE
  CLUS_1            10             146
  CLUS_2             4             117
  CLUS_3             4              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
  RBM10 MUTATED        7      7     11      4      4
  RBM10 WILD-TYPE    120    102     75    101     47
D6V7, multiclass
        clus
vv       RBM10 MUTATED RBM10 WILD-TYPE
  CLUS_1             7             120
  CLUS_2             7             102
  CLUS_3            11              75
  CLUS_4             4             101
  CLUS_5             4              47
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will 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
D6V8, 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       14     13      6
  RBM10 WILD-TYPE    158    192     93
D6V9, multiclass
        clus
vv       RBM10 MUTATED RBM10 WILD-TYPE
  CLUS_1            14             158
  CLUS_2            13             192
  CLUS_3             6              93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  RBM10 MUTATED       10      2      4      7      9      1
  RBM10 WILD-TYPE     60     35    131    113     77     27
D6V10, multiclass
        clus
vv       RBM10 MUTATED RBM10 WILD-TYPE
  CLUS_1            10              60
  CLUS_2             2              35
  CLUS_3             4             131
  CLUS_4             7             113
  CLUS_5             9              77
  CLUS_6             1              27
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  RBM10 MUTATED        3      3      9      3      4      4
  RBM10 WILD-TYPE     52     82     88     39     56     69
D6V11, multiclass
        clus
vv       RBM10 MUTATED RBM10 WILD-TYPE
  CLUS_1             3              52
  CLUS_2             3              82
  CLUS_3             9              88
  CLUS_4             3              39
  CLUS_5             4              56
  CLUS_6             4              69
[1] 6 2
[1] TRUE
[1] "dimension of contingency table 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        5     16      5
  RBM10 WILD-TYPE     91    206     89
D6V12, multiclass
        clus
vv       RBM10 MUTATED RBM10 WILD-TYPE
  CLUS_1             5              91
  CLUS_2            16             206
  CLUS_3             5              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"

Clustering(7) Variable = RB1 MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  RB1 MUTATED        0      0      0
  RB1 WILD-TYPE      8      8      4
D7V1, multiclass
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  RB1 MUTATED        0      0      0
  RB1 WILD-TYPE      7      9      4
D7V2, multiclass
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RB1 MUTATED       14      4      3      5
  RB1 WILD-TYPE    144    123    120     65
D7V3, multiclass
        clus
vv       RB1 MUTATED RB1 WILD-TYPE
  CLUS_1          14           144
  CLUS_2           4           123
  CLUS_3           3           120
  CLUS_4           5            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
  RB1 MUTATED       13      9      3
  RB1 WILD-TYPE    133    158    114
D7V4, multiclass
        clus
vv       RB1 MUTATED RB1 WILD-TYPE
  CLUS_1          13           133
  CLUS_2           9           158
  CLUS_3           3           114
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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        4      2      4      6      2
  RB1 WILD-TYPE     85     20     55     59     99
D7V5, multiclass
        clus
vv       RB1 MUTATED RB1 WILD-TYPE
  CLUS_1           4            85
  CLUS_2           2            20
  CLUS_3           4            55
  CLUS_4           6            59
  CLUS_5           2            99
[1] 5 2
[1] TRUE
[1] "dimension of contingency table 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        6      9      3
  RB1 WILD-TYPE    150    112     56
D7V6, multiclass
        clus
vv       RB1 MUTATED RB1 WILD-TYPE
  CLUS_1           6           150
  CLUS_2           9           112
  CLUS_3           3            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
  RB1 MUTATED        8      6      1      8      3
  RB1 WILD-TYPE    119    103     85     97     48
D7V7, multiclass
        clus
vv       RB1 MUTATED RB1 WILD-TYPE
  CLUS_1           8           119
  CLUS_2           6           103
  CLUS_3           1            85
  CLUS_4           8            97
  CLUS_5           3            48
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will 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
D7V8, 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    167    190     93
D7V9, multiclass
        clus
vv       RB1 MUTATED RB1 WILD-TYPE
  CLUS_1           5           167
  CLUS_2          15           190
  CLUS_3           6            93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  RB1 MUTATED        0      1      7      9      8      1
  RB1 WILD-TYPE     70     36    128    111     78     27
D7V10, multiclass
        clus
vv       RB1 MUTATED RB1 WILD-TYPE
  CLUS_1           0            70
  CLUS_2           1            36
  CLUS_3           7           128
  CLUS_4           9           111
  CLUS_5           8            78
  CLUS_6           1            27
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  RB1 MUTATED        2      9      4      2      5      3
  RB1 WILD-TYPE     53     76     93     40     55     70
D7V11, multiclass
        clus
vv       RB1 MUTATED RB1 WILD-TYPE
  CLUS_1           2            53
  CLUS_2           9            76
  CLUS_3           4            93
  CLUS_4           2            40
  CLUS_5           5            55
  CLUS_6           3            70
[1] 6 2
[1] TRUE
[1] "dimension of contingency table 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     16      4
  RB1 WILD-TYPE     91    206     90
D7V12, multiclass
        clus
vv       RB1 MUTATED RB1 WILD-TYPE
  CLUS_1           5            91
  CLUS_2          16           206
  CLUS_3           4            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"

Clustering(8) Variable = ARID1A MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ARID1A MUTATED        0      0      1
  ARID1A WILD-TYPE      8      8      3
D8V1, 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
D8V2, 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        9      7      9      5
  ARID1A WILD-TYPE    149    120    114     65
D8V3, multiclass
        clus
vv       ARID1A MUTATED ARID1A WILD-TYPE
  CLUS_1              9              149
  CLUS_2              7              120
  CLUS_3              9              114
  CLUS_4              5               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
  ARID1A MUTATED        9     13      6
  ARID1A WILD-TYPE    137    154    111
D8V4, multiclass
        clus
vv       ARID1A MUTATED ARID1A WILD-TYPE
  CLUS_1              9              137
  CLUS_2             13              154
  CLUS_3              6              111
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ARID1A MUTATED        3      0      3      4      9
  ARID1A WILD-TYPE     86     22     56     61     92
D8V5, multiclass
        clus
vv       ARID1A MUTATED ARID1A WILD-TYPE
  CLUS_1              3               86
  CLUS_2              0               22
  CLUS_3              3               56
  CLUS_4              4               61
  CLUS_5              9               92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table 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      8      4
  ARID1A WILD-TYPE    149    113     55
D8V6, multiclass
        clus
vv       ARID1A MUTATED ARID1A WILD-TYPE
  CLUS_1              7              149
  CLUS_2              8              113
  CLUS_3              4               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
  ARID1A MUTATED        8      7      3      7      5
  ARID1A WILD-TYPE    119    102     83     98     46
D8V7, multiclass
        clus
vv       ARID1A MUTATED ARID1A WILD-TYPE
  CLUS_1              8              119
  CLUS_2              7              102
  CLUS_3              3               83
  CLUS_4              7               98
  CLUS_5              5               46
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will 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
D8V8, 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     16      6
  ARID1A WILD-TYPE    164    189     93
D8V9, multiclass
        clus
vv       ARID1A MUTATED ARID1A WILD-TYPE
  CLUS_1              8              164
  CLUS_2             16              189
  CLUS_3              6               93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ARID1A MUTATED        1      1      8      8     11      1
  ARID1A WILD-TYPE     69     36    127    112     75     27
D8V10, multiclass
        clus
vv       ARID1A MUTATED ARID1A WILD-TYPE
  CLUS_1              1               69
  CLUS_2              1               36
  CLUS_3              8              127
  CLUS_4              8              112
  CLUS_5             11               75
  CLUS_6              1               27
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ARID1A MUTATED        2      8      8      1      3      4
  ARID1A WILD-TYPE     53     77     89     41     57     69
D8V11, multiclass
        clus
vv       ARID1A MUTATED ARID1A WILD-TYPE
  CLUS_1              2               53
  CLUS_2              8               77
  CLUS_3              8               89
  CLUS_4              1               41
  CLUS_5              3               57
  CLUS_6              4               69
[1] 6 2
[1] TRUE
[1] "dimension of contingency table 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     17      6
  ARID1A WILD-TYPE     93    205     88
D8V12, multiclass
        clus
vv       ARID1A MUTATED ARID1A WILD-TYPE
  CLUS_1              3               93
  CLUS_2             17              205
  CLUS_3              6               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"

Clustering(9) Variable = NF1 MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  NF1 MUTATED        2      1      1
  NF1 WILD-TYPE      6      7      3
D9V1, multiclass
        clus
vv       NF1 MUTATED NF1 WILD-TYPE
  CLUS_1           2             6
  CLUS_2           1             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
  NF1 MUTATED        2      1      1
  NF1 WILD-TYPE      5      8      3
D9V2, 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       21     20      4     10
  NF1 WILD-TYPE    137    107    119     60
D9V3, multiclass
        clus
vv       NF1 MUTATED NF1 WILD-TYPE
  CLUS_1          21           137
  CLUS_2          20           107
  CLUS_3           4           119
  CLUS_4          10            60
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  NF1 MUTATED       19     22     11
  NF1 WILD-TYPE    127    145    106
D9V4, multiclass
        clus
vv       NF1 MUTATED NF1 WILD-TYPE
  CLUS_1          19           127
  CLUS_2          22           145
  CLUS_3          11           106
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NF1 MUTATED       16      1      2      9     12
  NF1 WILD-TYPE     73     21     57     56     89
D9V5, multiclass
        clus
vv       NF1 MUTATED NF1 WILD-TYPE
  CLUS_1          16            73
  CLUS_2           1            21
  CLUS_3           2            57
  CLUS_4           9            56
  CLUS_5          12            89
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  NF1 MUTATED       15     17      8
  NF1 WILD-TYPE    141    104     51
D9V6, multiclass
        clus
vv       NF1 MUTATED NF1 WILD-TYPE
  CLUS_1          15           141
  CLUS_2          17           104
  CLUS_3           8            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
  NF1 MUTATED       23      6      8     12      5
  NF1 WILD-TYPE    104    103     78     93     46
D9V7, multiclass
        clus
vv       NF1 MUTATED NF1 WILD-TYPE
  CLUS_1          23           104
  CLUS_2           6           103
  CLUS_3           8            78
  CLUS_4          12            93
  CLUS_5           5            46
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will 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
D9V8, 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       14     27     13
  NF1 WILD-TYPE    158    178     86
D9V9, multiclass
        clus
vv       NF1 MUTATED NF1 WILD-TYPE
  CLUS_1          14           158
  CLUS_2          27           178
  CLUS_3          13            86
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  NF1 MUTATED        3      2     21     13     13      2
  NF1 WILD-TYPE     67     35    114    107     73     26
D9V10, multiclass
        clus
vv       NF1 MUTATED NF1 WILD-TYPE
  CLUS_1           3            67
  CLUS_2           2            35
  CLUS_3          21           114
  CLUS_4          13           107
  CLUS_5          13            73
  CLUS_6           2            26
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  NF1 MUTATED        3     12     13      3      4     12
  NF1 WILD-TYPE     52     73     84     39     56     61
D9V11, multiclass
        clus
vv       NF1 MUTATED NF1 WILD-TYPE
  CLUS_1           3            52
  CLUS_2          12            73
  CLUS_3          13            84
  CLUS_4           3            39
  CLUS_5           4            56
  CLUS_6          12            61
[1] 6 2
[1] TRUE
[1] "dimension of contingency table 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        6     30     11
  NF1 WILD-TYPE     90    192     83
D9V12, multiclass
        clus
vv       NF1 MUTATED NF1 WILD-TYPE
  CLUS_1           6            90
  CLUS_2          30           192
  CLUS_3          11            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(10) Variable = SMARCA4 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SMARCA4 MUTATED        1      0      1
  SMARCA4 WILD-TYPE      7      8      3
D10V1, 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
D10V2, 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        9     20      4      5
  SMARCA4 WILD-TYPE    149    107    119     65
D10V3, multiclass
        clus
vv       SMARCA4 MUTATED SMARCA4 WILD-TYPE
  CLUS_1               9               149
  CLUS_2              20               107
  CLUS_3               4               119
  CLUS_4               5                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
  SMARCA4 MUTATED       27      6      3
  SMARCA4 WILD-TYPE    119    161    114
D10V4, multiclass
        clus
vv       SMARCA4 MUTATED SMARCA4 WILD-TYPE
  CLUS_1              27               119
  CLUS_2               6               161
  CLUS_3               3               114
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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        4      2      3      7      9
  SMARCA4 WILD-TYPE     85     20     56     58     92
D10V5, multiclass
        clus
vv       SMARCA4 MUTATED SMARCA4 WILD-TYPE
  CLUS_1               4                85
  CLUS_2               2                20
  CLUS_3               3                56
  CLUS_4               7                58
  CLUS_5               9                92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table 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        8     14      3
  SMARCA4 WILD-TYPE    148    107     56
D10V6, multiclass
        clus
vv       SMARCA4 MUTATED SMARCA4 WILD-TYPE
  CLUS_1               8               148
  CLUS_2              14               107
  CLUS_3               3                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
  SMARCA4 MUTATED        7      2     16     12      1
  SMARCA4 WILD-TYPE    120    107     70     93     50
D10V7, multiclass
        clus
vv       SMARCA4 MUTATED SMARCA4 WILD-TYPE
  CLUS_1               7               120
  CLUS_2               2               107
  CLUS_3              16                70
  CLUS_4              12                93
  CLUS_5               1                50
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will 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
D10V8, 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     25      5
  SMARCA4 WILD-TYPE    165    180     94
D10V9, multiclass
        clus
vv       SMARCA4 MUTATED SMARCA4 WILD-TYPE
  CLUS_1               7               165
  CLUS_2              25               180
  CLUS_3               5                94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SMARCA4 MUTATED        5      0     15      2     13      2
  SMARCA4 WILD-TYPE     65     37    120    118     73     26
D10V10, multiclass
        clus
vv       SMARCA4 MUTATED SMARCA4 WILD-TYPE
  CLUS_1               5                65
  CLUS_2               0                37
  CLUS_3              15               120
  CLUS_4               2               118
  CLUS_5              13                73
  CLUS_6               2                26
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SMARCA4 MUTATED        0      7      9      3      7      8
  SMARCA4 WILD-TYPE     55     78     88     39     53     65
D10V11, multiclass
        clus
vv       SMARCA4 MUTATED SMARCA4 WILD-TYPE
  CLUS_1               0                55
  CLUS_2               7                78
  CLUS_3               9                88
  CLUS_4               3                39
  CLUS_5               7                53
  CLUS_6               8                65
[1] 6 2
[1] TRUE
[1] "dimension of contingency table 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     30      3
  SMARCA4 WILD-TYPE     95    192     91
D10V12, multiclass
        clus
vv       SMARCA4 MUTATED SMARCA4 WILD-TYPE
  CLUS_1               1                95
  CLUS_2              30               192
  CLUS_3               3                91
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(11) Variable = BRAF MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  BRAF MUTATED        1      2      0
  BRAF WILD-TYPE      7      6      4
D11V1, multiclass
        clus
vv       BRAF MUTATED BRAF WILD-TYPE
  CLUS_1            1              7
  CLUS_2            2              6
  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
  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       14      8     10      7
  BRAF WILD-TYPE    144    119    113     63
D11V3, multiclass
        clus
vv       BRAF MUTATED BRAF WILD-TYPE
  CLUS_1           14            144
  CLUS_2            8            119
  CLUS_3           10            113
  CLUS_4            7             63
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        9     21      6
  BRAF WILD-TYPE    137    146    111
D11V4, multiclass
        clus
vv       BRAF MUTATED BRAF WILD-TYPE
  CLUS_1            9            137
  CLUS_2           21            146
  CLUS_3            6            111
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BRAF MUTATED        9      3      5      3      7
  BRAF WILD-TYPE     80     19     54     62     94
D11V5, multiclass
        clus
vv       BRAF MUTATED BRAF WILD-TYPE
  CLUS_1            9             80
  CLUS_2            3             19
  CLUS_3            5             54
  CLUS_4            3             62
  CLUS_5            7             94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table 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       14      9      4
  BRAF WILD-TYPE    142    112     55
D11V6, multiclass
        clus
vv       BRAF MUTATED BRAF WILD-TYPE
  CLUS_1           14            142
  CLUS_2            9            112
  CLUS_3            4             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
  BRAF MUTATED       16      9      4      8      2
  BRAF WILD-TYPE    111    100     82     97     49
D11V7, multiclass
        clus
vv       BRAF MUTATED BRAF WILD-TYPE
  CLUS_1           16            111
  CLUS_2            9            100
  CLUS_3            4             82
  CLUS_4            8             97
  CLUS_5            2             49
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will 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    156    187     94
D11V9, multiclass
        clus
vv       BRAF MUTATED BRAF WILD-TYPE
  CLUS_1           16            156
  CLUS_2           18            187
  CLUS_3            5             94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  BRAF MUTATED       10      2     14      4      5      4
  BRAF WILD-TYPE     60     35    121    116     81     24
D11V10, multiclass
        clus
vv       BRAF MUTATED BRAF WILD-TYPE
  CLUS_1           10             60
  CLUS_2            2             35
  CLUS_3           14            121
  CLUS_4            4            116
  CLUS_5            5             81
  CLUS_6            4             24
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  BRAF MUTATED        3      8      8      4      6      4
  BRAF WILD-TYPE     52     77     89     38     54     69
D11V11, multiclass
        clus
vv       BRAF MUTATED BRAF WILD-TYPE
  CLUS_1            3             52
  CLUS_2            8             77
  CLUS_3            8             89
  CLUS_4            4             38
  CLUS_5            6             54
  CLUS_6            4             69
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  BRAF MUTATED        7     13     13
  BRAF WILD-TYPE     89    209     81
D11V12, multiclass
        clus
vv       BRAF MUTATED BRAF WILD-TYPE
  CLUS_1            7             89
  CLUS_2           13            209
  CLUS_3           13             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(12) Variable = MGA MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  MGA MUTATED        0      0      0
  MGA WILD-TYPE      8      8      4
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       14     11      8      6
  MGA WILD-TYPE    144    116    115     64
D12V3, multiclass
        clus
vv       MGA MUTATED MGA WILD-TYPE
  CLUS_1          14           144
  CLUS_2          11           116
  CLUS_3           8           115
  CLUS_4           6            64
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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       15     16      5
  MGA WILD-TYPE    131    151    112
D12V4, multiclass
        clus
vv       MGA MUTATED MGA WILD-TYPE
  CLUS_1          15           131
  CLUS_2          16           151
  CLUS_3           5           112
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MGA MUTATED        9      1      4      8      7
  MGA WILD-TYPE     80     21     55     57     94
D12V5, multiclass
        clus
vv       MGA MUTATED MGA WILD-TYPE
  CLUS_1           9            80
  CLUS_2           1            21
  CLUS_3           4            55
  CLUS_4           8            57
  CLUS_5           7            94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  MGA MUTATED       10     16      3
  MGA WILD-TYPE    146    105     56
D12V6, multiclass
        clus
vv       MGA MUTATED MGA WILD-TYPE
  CLUS_1          10           146
  CLUS_2          16           105
  CLUS_3           3            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       18      5      6      7      4
  MGA WILD-TYPE    109    104     80     98     47
D12V7, multiclass
        clus
vv       MGA MUTATED MGA WILD-TYPE
  CLUS_1          18           109
  CLUS_2           5           104
  CLUS_3           6            80
  CLUS_4           7            98
  CLUS_5           4            47
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will 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    164    180     93
D12V9, multiclass
        clus
vv       MGA MUTATED MGA WILD-TYPE
  CLUS_1           8           164
  CLUS_2          25           180
  CLUS_3           6            93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MGA MUTATED        5      3     12      4     12      3
  MGA WILD-TYPE     65     34    123    116     74     25
D12V10, multiclass
        clus
vv       MGA MUTATED MGA WILD-TYPE
  CLUS_1           5            65
  CLUS_2           3            34
  CLUS_3          12           123
  CLUS_4           4           116
  CLUS_5          12            74
  CLUS_6           3            25
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MGA MUTATED        2     12      8      3      5      5
  MGA WILD-TYPE     53     73     89     39     55     68
D12V11, multiclass
        clus
vv       MGA MUTATED MGA WILD-TYPE
  CLUS_1           2            53
  CLUS_2          12            73
  CLUS_3           8            89
  CLUS_4           3            39
  CLUS_5           5            55
  CLUS_6           5            68
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  MGA MUTATED        4     21     10
  MGA WILD-TYPE     92    201     84
D12V12, multiclass
        clus
vv       MGA MUTATED MGA WILD-TYPE
  CLUS_1           4            92
  CLUS_2          21           201
  CLUS_3          10            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(13) Variable = FTSJD1 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  FTSJD1 MUTATED        1      1      0
  FTSJD1 WILD-TYPE      7      7      4
D13V1, multiclass
[1] "Remove cluster labels:" "FTSJD1 MUTATED"        
clus
  FTSJD1 MUTATED FTSJD1 WILD-TYPE 
               2               18 
      TCGA-05-4244       TCGA-05-4249       TCGA-05-4250       TCGA-35-4122 
"FTSJD1 WILD-TYPE" "FTSJD1 WILD-TYPE" "FTSJD1 WILD-TYPE" "FTSJD1 WILD-TYPE" 
      TCGA-35-4123       TCGA-44-2656       TCGA-44-2657       TCGA-44-2661 
"FTSJD1 WILD-TYPE" "FTSJD1 WILD-TYPE" "FTSJD1 WILD-TYPE" "FTSJD1 WILD-TYPE" 
      TCGA-44-2665       TCGA-44-3918       TCGA-44-3919       TCGA-55-1592 
"FTSJD1 WILD-TYPE" "FTSJD1 WILD-TYPE" "FTSJD1 WILD-TYPE" "FTSJD1 WILD-TYPE" 
      TCGA-55-1595       TCGA-64-1676       TCGA-64-1677       TCGA-67-3771 
"FTSJD1 WILD-TYPE" "FTSJD1 WILD-TYPE" "FTSJD1 WILD-TYPE" "FTSJD1 WILD-TYPE" 
      TCGA-67-3772       TCGA-67-3773 
"FTSJD1 WILD-TYPE" "FTSJD1 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  FTSJD1 MUTATED        1      1      0
  FTSJD1 WILD-TYPE      6      8      4
D13V2, multiclass
[1] "Remove cluster labels:" "FTSJD1 MUTATED"        
clus
  FTSJD1 MUTATED FTSJD1 WILD-TYPE 
               2               18 
      TCGA-05-4244       TCGA-05-4249       TCGA-05-4250       TCGA-35-4122 
"FTSJD1 WILD-TYPE" "FTSJD1 WILD-TYPE" "FTSJD1 WILD-TYPE" "FTSJD1 WILD-TYPE" 
      TCGA-35-4123       TCGA-44-2656       TCGA-44-2657       TCGA-44-2661 
"FTSJD1 WILD-TYPE" "FTSJD1 WILD-TYPE" "FTSJD1 WILD-TYPE" "FTSJD1 WILD-TYPE" 
      TCGA-44-2665       TCGA-44-3918       TCGA-44-3919       TCGA-55-1592 
"FTSJD1 WILD-TYPE" "FTSJD1 WILD-TYPE" "FTSJD1 WILD-TYPE" "FTSJD1 WILD-TYPE" 
      TCGA-55-1595       TCGA-64-1676       TCGA-64-1677       TCGA-67-3771 
"FTSJD1 WILD-TYPE" "FTSJD1 WILD-TYPE" "FTSJD1 WILD-TYPE" "FTSJD1 WILD-TYPE" 
      TCGA-67-3772       TCGA-67-3773 
"FTSJD1 WILD-TYPE" "FTSJD1 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FTSJD1 MUTATED       12      5      5      2
  FTSJD1 WILD-TYPE    146    122    118     68
D13V3, multiclass
        clus
vv       FTSJD1 MUTATED FTSJD1 WILD-TYPE
  CLUS_1             12              146
  CLUS_2              5              122
  CLUS_3              5              118
  CLUS_4              2               68
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  FTSJD1 MUTATED        7     11      3
  FTSJD1 WILD-TYPE    139    156    114
D13V4, multiclass
        clus
vv       FTSJD1 MUTATED FTSJD1 WILD-TYPE
  CLUS_1              7              139
  CLUS_2             11              156
  CLUS_3              3              114
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FTSJD1 MUTATED        3      1      3      4      6
  FTSJD1 WILD-TYPE     86     21     56     61     95
D13V5, multiclass
        clus
vv       FTSJD1 MUTATED FTSJD1 WILD-TYPE
  CLUS_1              3               86
  CLUS_2              1               21
  CLUS_3              3               56
  CLUS_4              4               61
  CLUS_5              6               95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  FTSJD1 MUTATED        6      9      2
  FTSJD1 WILD-TYPE    150    112     57
D13V6, multiclass
        clus
vv       FTSJD1 MUTATED FTSJD1 WILD-TYPE
  CLUS_1              6              150
  CLUS_2              9              112
  CLUS_3              2               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
  FTSJD1 MUTATED       10      6      4      3      1
  FTSJD1 WILD-TYPE    117    103     82    102     50
D13V7, multiclass
        clus
vv       FTSJD1 MUTATED FTSJD1 WILD-TYPE
  CLUS_1             10              117
  CLUS_2              6              103
  CLUS_3              4               82
  CLUS_4              3              102
  CLUS_5              1               50
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  FTSJD1 MUTATED        2     11      5      2      1      1      2
  FTSJD1 WILD-TYPE     70     98     85     42     48     45     66
D13V8, multiclass
        clus
vv       FTSJD1 MUTATED FTSJD1 WILD-TYPE
  CLUS_1              2               70
  CLUS_2             11               98
  CLUS_3              5               85
  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
  FTSJD1 MUTATED        7     13      4
  FTSJD1 WILD-TYPE    165    192     95
D13V9, multiclass
        clus
vv       FTSJD1 MUTATED FTSJD1 WILD-TYPE
  CLUS_1              7              165
  CLUS_2             13              192
  CLUS_3              4               95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  FTSJD1 MUTATED        4      0     10      4      5      1
  FTSJD1 WILD-TYPE     66     37    125    116     81     27
D13V10, multiclass
        clus
vv       FTSJD1 MUTATED FTSJD1 WILD-TYPE
  CLUS_1              4               66
  CLUS_2              0               37
  CLUS_3             10              125
  CLUS_4              4              116
  CLUS_5              5               81
  CLUS_6              1               27
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  FTSJD1 MUTATED        3      6      2      2      5      1
  FTSJD1 WILD-TYPE     52     79     95     40     55     72
D13V11, multiclass
        clus
vv       FTSJD1 MUTATED FTSJD1 WILD-TYPE
  CLUS_1              3               52
  CLUS_2              6               79
  CLUS_3              2               95
  CLUS_4              2               40
  CLUS_5              5               55
  CLUS_6              1               72
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  FTSJD1 MUTATED        6     12      1
  FTSJD1 WILD-TYPE     90    210     93
D13V12, multiclass
        clus
vv       FTSJD1 MUTATED FTSJD1 WILD-TYPE
  CLUS_1              6               90
  CLUS_2             12              210
  CLUS_3              1               93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(14) Variable = MET MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  MET MUTATED        1      0      0
  MET WILD-TYPE      7      8      4
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       13      3      3      2
  MET WILD-TYPE    145    124    120     68
D14V3, multiclass
        clus
vv       MET MUTATED MET WILD-TYPE
  CLUS_1          13           145
  CLUS_2           3           124
  CLUS_3           3           120
  CLUS_4           2            68
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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      9      5
  MET WILD-TYPE    141    158    112
D14V4, multiclass
        clus
vv       MET MUTATED MET WILD-TYPE
  CLUS_1           5           141
  CLUS_2           9           158
  CLUS_3           5           112
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MET MUTATED        8      0      2      3      4
  MET WILD-TYPE     81     22     57     62     97
D14V5, multiclass
        clus
vv       MET MUTATED MET WILD-TYPE
  CLUS_1           8            81
  CLUS_2           0            22
  CLUS_3           2            57
  CLUS_4           3            62
  CLUS_5           4            97
[1] 5 2
[1] TRUE
[1] "dimension of contingency table 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      9      3
  MET WILD-TYPE    151    112     56
D14V6, multiclass
        clus
vv       MET MUTATED MET WILD-TYPE
  CLUS_1           5           151
  CLUS_2           9           112
  CLUS_3           3            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
  MET MUTATED        8      3      6      1      3
  MET WILD-TYPE    119    106     80    104     48
D14V7, multiclass
        clus
vv       MET MUTATED MET WILD-TYPE
  CLUS_1           8           119
  CLUS_2           3           106
  CLUS_3           6            80
  CLUS_4           1           104
  CLUS_5           3            48
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will 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    163    200     92
D14V9, multiclass
        clus
vv       MET MUTATED MET WILD-TYPE
  CLUS_1           9           163
  CLUS_2           5           200
  CLUS_3           7            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
  MET MUTATED        2      0      9      8      1      1
  MET WILD-TYPE     68     37    126    112     85     27
D14V10, multiclass
        clus
vv       MET MUTATED MET WILD-TYPE
  CLUS_1           2            68
  CLUS_2           0            37
  CLUS_3           9           126
  CLUS_4           8           112
  CLUS_5           1            85
  CLUS_6           1            27
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MET MUTATED        2      2      7      1      3      4
  MET WILD-TYPE     53     83     90     41     57     69
D14V11, multiclass
        clus
vv       MET MUTATED MET WILD-TYPE
  CLUS_1           2            53
  CLUS_2           2            83
  CLUS_3           7            90
  CLUS_4           1            41
  CLUS_5           3            57
  CLUS_6           4            69
[1] 6 2
[1] TRUE
[1] "dimension of contingency table 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      8      8
  MET WILD-TYPE     93    214     86
D14V12, multiclass
        clus
vv       MET MUTATED MET WILD-TYPE
  CLUS_1           3            93
  CLUS_2           8           214
  CLUS_3           8            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"

Clustering(15) Variable = GAGE2A MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GAGE2A MUTATED        0      1      1
  GAGE2A WILD-TYPE      8      7      3
D15V1, multiclass
[1] "Remove cluster labels:" "GAGE2A MUTATED"        
clus
  GAGE2A MUTATED GAGE2A WILD-TYPE 
               2               18 
      TCGA-05-4244       TCGA-05-4249       TCGA-05-4250       TCGA-35-4122 
"GAGE2A WILD-TYPE" "GAGE2A WILD-TYPE" "GAGE2A WILD-TYPE" "GAGE2A WILD-TYPE" 
      TCGA-35-4123       TCGA-44-2656       TCGA-44-2657       TCGA-44-2661 
"GAGE2A WILD-TYPE" "GAGE2A WILD-TYPE" "GAGE2A WILD-TYPE" "GAGE2A WILD-TYPE" 
      TCGA-44-3398       TCGA-44-3918       TCGA-44-3919       TCGA-44-4112 
"GAGE2A WILD-TYPE" "GAGE2A WILD-TYPE" "GAGE2A WILD-TYPE" "GAGE2A WILD-TYPE" 
      TCGA-55-1595       TCGA-64-1676       TCGA-64-1677       TCGA-67-3771 
"GAGE2A WILD-TYPE" "GAGE2A WILD-TYPE" "GAGE2A WILD-TYPE" "GAGE2A WILD-TYPE" 
      TCGA-67-3772       TCGA-67-3773 
"GAGE2A WILD-TYPE" "GAGE2A WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GAGE2A MUTATED        0      1      1
  GAGE2A WILD-TYPE      7      8      3
D15V2, multiclass
[1] "Remove cluster labels:" "GAGE2A MUTATED"        
clus
  GAGE2A MUTATED GAGE2A WILD-TYPE 
               2               18 
      TCGA-05-4244       TCGA-05-4249       TCGA-05-4250       TCGA-35-4122 
"GAGE2A WILD-TYPE" "GAGE2A WILD-TYPE" "GAGE2A WILD-TYPE" "GAGE2A WILD-TYPE" 
      TCGA-35-4123       TCGA-44-2656       TCGA-44-2657       TCGA-44-2661 
"GAGE2A WILD-TYPE" "GAGE2A WILD-TYPE" "GAGE2A WILD-TYPE" "GAGE2A WILD-TYPE" 
      TCGA-44-3398       TCGA-44-3918       TCGA-44-3919       TCGA-44-4112 
"GAGE2A WILD-TYPE" "GAGE2A WILD-TYPE" "GAGE2A WILD-TYPE" "GAGE2A WILD-TYPE" 
      TCGA-55-1595       TCGA-64-1676       TCGA-64-1677       TCGA-67-3771 
"GAGE2A WILD-TYPE" "GAGE2A WILD-TYPE" "GAGE2A WILD-TYPE" "GAGE2A WILD-TYPE" 
      TCGA-67-3772       TCGA-67-3773 
"GAGE2A WILD-TYPE" "GAGE2A WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GAGE2A MUTATED        2      2      4      0
  GAGE2A WILD-TYPE    156    125    119     70
D15V3, multiclass
        clus
vv       GAGE2A MUTATED GAGE2A WILD-TYPE
  CLUS_1              2              156
  CLUS_2              2              125
  CLUS_3              4              119
  CLUS_4              0               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
  GAGE2A MUTATED        1      3      2
  GAGE2A WILD-TYPE    145    164    115
D15V4, multiclass
        clus
vv       GAGE2A MUTATED GAGE2A WILD-TYPE
  CLUS_1              1              145
  CLUS_2              3              164
  CLUS_3              2              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
  GAGE2A MUTATED        3      0      0      1      2
  GAGE2A WILD-TYPE     86     22     59     64     99
D15V5, multiclass
        clus
vv       GAGE2A MUTATED GAGE2A WILD-TYPE
  CLUS_1              3               86
  CLUS_2              0               22
  CLUS_3              0               59
  CLUS_4              1               64
  CLUS_5              2               99
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GAGE2A MUTATED        2      2      2
  GAGE2A WILD-TYPE    154    119     57
D15V6, multiclass
        clus
vv       GAGE2A MUTATED GAGE2A WILD-TYPE
  CLUS_1              2              154
  CLUS_2              2              119
  CLUS_3              2               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
  GAGE2A MUTATED        2      0      3      2      1
  GAGE2A WILD-TYPE    125    109     83    103     50
D15V7, multiclass
        clus
vv       GAGE2A MUTATED GAGE2A WILD-TYPE
  CLUS_1              2              125
  CLUS_2              0              109
  CLUS_3              3               83
  CLUS_4              2              103
  CLUS_5              1               50
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  GAGE2A MUTATED        0      4      1      1      0      1      1
  GAGE2A WILD-TYPE     72    105     89     43     49     45     67
D15V8, multiclass
        clus
vv       GAGE2A MUTATED GAGE2A WILD-TYPE
  CLUS_1              0               72
  CLUS_2              4              105
  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
  GAGE2A MUTATED        1      4      3
  GAGE2A WILD-TYPE    171    201     96
D15V9, multiclass
        clus
vv       GAGE2A MUTATED GAGE2A WILD-TYPE
  CLUS_1              1              171
  CLUS_2              4              201
  CLUS_3              3               96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  GAGE2A MUTATED        0      0      2      2      3      1
  GAGE2A WILD-TYPE     70     37    133    118     83     27
D15V10, multiclass
        clus
vv       GAGE2A MUTATED GAGE2A WILD-TYPE
  CLUS_1              0               70
  CLUS_2              0               37
  CLUS_3              2              133
  CLUS_4              2              118
  CLUS_5              3               83
  CLUS_6              1               27
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  GAGE2A MUTATED        1      1      2      0      0      1
  GAGE2A WILD-TYPE     54     84     95     42     60     72
D15V11, multiclass
        clus
vv       GAGE2A MUTATED GAGE2A WILD-TYPE
  CLUS_1              1               54
  CLUS_2              1               84
  CLUS_3              2               95
  CLUS_4              0               42
  CLUS_5              0               60
  CLUS_6              1               72
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GAGE2A MUTATED        1      2      2
  GAGE2A WILD-TYPE     95    220     92
D15V12, multiclass
        clus
vv       GAGE2A MUTATED GAGE2A WILD-TYPE
  CLUS_1              1               95
  CLUS_2              2              220
  CLUS_3              2               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"

Clustering(16) Variable = SETD2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SETD2 MUTATED        0      0      0
  SETD2 WILD-TYPE      8      8      4
D16V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SETD2 MUTATED        0      0      0
  SETD2 WILD-TYPE      7      9      4
D16V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SETD2 MUTATED        7      9     10      4
  SETD2 WILD-TYPE    151    118    113     66
D16V3, multiclass
        clus
vv       SETD2 MUTATED SETD2 WILD-TYPE
  CLUS_1             7             151
  CLUS_2             9             118
  CLUS_3            10             113
  CLUS_4             4              66
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SETD2 MUTATED        6     13     10
  SETD2 WILD-TYPE    140    154    107
D16V4, multiclass
        clus
vv       SETD2 MUTATED SETD2 WILD-TYPE
  CLUS_1             6             140
  CLUS_2            13             154
  CLUS_3            10             107
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SETD2 MUTATED        5      3      3      4      5
  SETD2 WILD-TYPE     84     19     56     61     96
D16V5, multiclass
        clus
vv       SETD2 MUTATED SETD2 WILD-TYPE
  CLUS_1             5              84
  CLUS_2             3              19
  CLUS_3             3              56
  CLUS_4             4              61
  CLUS_5             5              96
[1] 5 2
[1] TRUE
[1] "dimension of contingency table 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       11      7      2
  SETD2 WILD-TYPE    145    114     57
D16V6, multiclass
        clus
vv       SETD2 MUTATED SETD2 WILD-TYPE
  CLUS_1            11             145
  CLUS_2             7             114
  CLUS_3             2              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
  SETD2 MUTATED        8      8      5      4      5
  SETD2 WILD-TYPE    119    101     81    101     46
D16V7, multiclass
        clus
vv       SETD2 MUTATED SETD2 WILD-TYPE
  CLUS_1             8             119
  CLUS_2             8             101
  CLUS_3             5              81
  CLUS_4             4             101
  CLUS_5             5              46
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will 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
D16V8, 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       12      8      9
  SETD2 WILD-TYPE    160    197     90
D16V9, multiclass
        clus
vv       SETD2 MUTATED SETD2 WILD-TYPE
  CLUS_1            12             160
  CLUS_2             8             197
  CLUS_3             9              90
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SETD2 MUTATED        3      2      5      7      6      6
  SETD2 WILD-TYPE     67     35    130    113     80     22
D16V10, multiclass
        clus
vv       SETD2 MUTATED SETD2 WILD-TYPE
  CLUS_1             3              67
  CLUS_2             2              35
  CLUS_3             5             130
  CLUS_4             7             113
  CLUS_5             6              80
  CLUS_6             6              22
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SETD2 MUTATED        3      2     13      4      4      3
  SETD2 WILD-TYPE     52     83     84     38     56     70
D16V11, multiclass
        clus
vv       SETD2 MUTATED SETD2 WILD-TYPE
  CLUS_1             3              52
  CLUS_2             2              83
  CLUS_3            13              84
  CLUS_4             4              38
  CLUS_5             4              56
  CLUS_6             3              70
[1] 6 2
[1] TRUE
[1] "dimension of contingency table 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        1     15     13
  SETD2 WILD-TYPE     95    207     81
D16V12, multiclass
        clus
vv       SETD2 MUTATED SETD2 WILD-TYPE
  CLUS_1             1              95
  CLUS_2            15             207
  CLUS_3            13              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(17) Variable = U2AF1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  U2AF1 MUTATED        0      0      1
  U2AF1 WILD-TYPE      8      8      3
D17V1, 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
D17V2, 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        6      2      1      2
  U2AF1 WILD-TYPE    152    125    122     68
D17V3, multiclass
        clus
vv       U2AF1 MUTATED U2AF1 WILD-TYPE
  CLUS_1             6             152
  CLUS_2             2             125
  CLUS_3             1             122
  CLUS_4             2              68
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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      4      3
  U2AF1 WILD-TYPE    144    163    114
D17V4, multiclass
        clus
vv       U2AF1 MUTATED U2AF1 WILD-TYPE
  CLUS_1             2             144
  CLUS_2             4             163
  CLUS_3             3             114
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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        3      1      0      3      0
  U2AF1 WILD-TYPE     86     21     59     62    101
D17V5, multiclass
        clus
vv       U2AF1 MUTATED U2AF1 WILD-TYPE
  CLUS_1             3              86
  CLUS_2             1              21
  CLUS_3             0              59
  CLUS_4             3              62
  CLUS_5             0             101
[1] 5 2
[1] TRUE
[1] "dimension of contingency table 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      3      0
  U2AF1 WILD-TYPE    152    118     59
D17V6, multiclass
        clus
vv       U2AF1 MUTATED U2AF1 WILD-TYPE
  CLUS_1             4             152
  CLUS_2             3             118
  CLUS_3             0              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
  U2AF1 MUTATED        7      3      1      0      0
  U2AF1 WILD-TYPE    120    106     85    105     51
D17V7, multiclass
        clus
vv       U2AF1 MUTATED U2AF1 WILD-TYPE
  CLUS_1             7             120
  CLUS_2             3             106
  CLUS_3             1              85
  CLUS_4             0             105
  CLUS_5             0              51
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will 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      1      0      0      0      2
  U2AF1 WILD-TYPE     71    102     89     44     49     46     66
D17V8, multiclass
        clus
vv       U2AF1 MUTATED U2AF1 WILD-TYPE
  CLUS_1             1              71
  CLUS_2             7             102
  CLUS_3             1              89
  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        8      3      0
  U2AF1 WILD-TYPE    164    202     99
D17V9, multiclass
        clus
vv       U2AF1 MUTATED U2AF1 WILD-TYPE
  CLUS_1             8             164
  CLUS_2             3             202
  CLUS_3             0              99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  U2AF1 MUTATED        3      0      4      3      1      0
  U2AF1 WILD-TYPE     67     37    131    117     85     28
D17V10, multiclass
        clus
vv       U2AF1 MUTATED U2AF1 WILD-TYPE
  CLUS_1             3              67
  CLUS_2             0              37
  CLUS_3             4             131
  CLUS_4             3             117
  CLUS_5             1              85
  CLUS_6             0              28
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  U2AF1 MUTATED        1      0      5      0      1      2
  U2AF1 WILD-TYPE     54     85     92     42     59     71
D17V11, multiclass
        clus
vv       U2AF1 MUTATED U2AF1 WILD-TYPE
  CLUS_1             1              54
  CLUS_2             0              85
  CLUS_3             5              92
  CLUS_4             0              42
  CLUS_5             1              59
  CLUS_6             2              71
[1] 6 2
[1] TRUE
[1] "dimension of contingency table 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      3      4
  U2AF1 WILD-TYPE     94    219     90
D17V12, multiclass
        clus
vv       U2AF1 MUTATED U2AF1 WILD-TYPE
  CLUS_1             2              94
  CLUS_2             3             219
  CLUS_3             4              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"

Clustering(18) Variable = ERBB2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ERBB2 MUTATED        2      0      0
  ERBB2 WILD-TYPE      6      8      4
D18V1, 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
D18V2, 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        5      2      4      0
  ERBB2 WILD-TYPE    153    125    119     70
D18V3, multiclass
        clus
vv       ERBB2 MUTATED ERBB2 WILD-TYPE
  CLUS_1             5             153
  CLUS_2             2             125
  CLUS_3             4             119
  CLUS_4             0              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
  ERBB2 MUTATED        2      5      0
  ERBB2 WILD-TYPE    144    162    117
D18V4, multiclass
        clus
vv       ERBB2 MUTATED ERBB2 WILD-TYPE
  CLUS_1             2             144
  CLUS_2             5             162
  CLUS_3             0             117
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ERBB2 MUTATED        3      2      0      3      2
  ERBB2 WILD-TYPE     86     20     59     62     99
D18V5, multiclass
        clus
vv       ERBB2 MUTATED ERBB2 WILD-TYPE
  CLUS_1             3              86
  CLUS_2             2              20
  CLUS_3             0              59
  CLUS_4             3              62
  CLUS_5             2              99
[1] 5 2
[1] TRUE
[1] "dimension of contingency table 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      4      1
  ERBB2 WILD-TYPE    151    117     58
D18V6, multiclass
        clus
vv       ERBB2 MUTATED ERBB2 WILD-TYPE
  CLUS_1             5             151
  CLUS_2             4             117
  CLUS_3             1              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
  ERBB2 MUTATED        6      3      1      1      0
  ERBB2 WILD-TYPE    121    106     85    104     51
D18V7, multiclass
        clus
vv       ERBB2 MUTATED ERBB2 WILD-TYPE
  CLUS_1             6             121
  CLUS_2             3             106
  CLUS_3             1              85
  CLUS_4             1             104
  CLUS_5             0              51
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will 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
D18V8, 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    167    200     98
D18V9, multiclass
        clus
vv       ERBB2 MUTATED ERBB2 WILD-TYPE
  CLUS_1             5             167
  CLUS_2             5             200
  CLUS_3             1              98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ERBB2 MUTATED        4      2      3      1      1      0
  ERBB2 WILD-TYPE     66     35    132    119     85     28
D18V10, multiclass
        clus
vv       ERBB2 MUTATED ERBB2 WILD-TYPE
  CLUS_1             4              66
  CLUS_2             2              35
  CLUS_3             3             132
  CLUS_4             1             119
  CLUS_5             1              85
  CLUS_6             0              28
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ERBB2 MUTATED        1      2      1      0      2      0
  ERBB2 WILD-TYPE     54     83     96     42     58     73
D18V11, multiclass
        clus
vv       ERBB2 MUTATED ERBB2 WILD-TYPE
  CLUS_1             1              54
  CLUS_2             2              83
  CLUS_3             1              96
  CLUS_4             0              42
  CLUS_5             2              58
  CLUS_6             0              73
[1] 6 2
[1] TRUE
[1] "dimension of contingency table 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     93    219     94
D18V12, multiclass
        clus
vv       ERBB2 MUTATED ERBB2 WILD-TYPE
  CLUS_1             3              93
  CLUS_2             3             219
  CLUS_3             0              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"

Clustering(19) Variable = CDKN2A MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CDKN2A MUTATED        0      0      1
  CDKN2A WILD-TYPE      8      8      3
D19V1, 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
D19V2, 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        4      6      2      4
  CDKN2A WILD-TYPE    154    121    121     66
D19V3, multiclass
        clus
vv       CDKN2A MUTATED CDKN2A WILD-TYPE
  CLUS_1              4              154
  CLUS_2              6              121
  CLUS_3              2              121
  CLUS_4              4               66
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        4      6      2
  CDKN2A WILD-TYPE    142    161    115
D19V4, multiclass
        clus
vv       CDKN2A MUTATED CDKN2A WILD-TYPE
  CLUS_1              4              142
  CLUS_2              6              161
  CLUS_3              2              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
  CDKN2A MUTATED        2      0      1      3      4
  CDKN2A WILD-TYPE     87     22     58     62     97
D19V5, multiclass
        clus
vv       CDKN2A MUTATED CDKN2A WILD-TYPE
  CLUS_1              2               87
  CLUS_2              0               22
  CLUS_3              1               58
  CLUS_4              3               62
  CLUS_5              4               97
[1] 5 2
[1] TRUE
[1] "dimension of contingency table 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        4      5      1
  CDKN2A WILD-TYPE    152    116     58
D19V6, multiclass
        clus
vv       CDKN2A MUTATED CDKN2A WILD-TYPE
  CLUS_1              4              152
  CLUS_2              5              116
  CLUS_3              1               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
  CDKN2A MUTATED        4      1      8      2      1
  CDKN2A WILD-TYPE    123    108     78    103     50
D19V7, multiclass
        clus
vv       CDKN2A MUTATED CDKN2A WILD-TYPE
  CLUS_1              4              123
  CLUS_2              1              108
  CLUS_3              8               78
  CLUS_4              2              103
  CLUS_5              1               50
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will 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      4      1      0      3      2
  CDKN2A WILD-TYPE     72    103     86     43     49     43     66
D19V8, multiclass
        clus
vv       CDKN2A MUTATED CDKN2A WILD-TYPE
  CLUS_1              0               72
  CLUS_2              6              103
  CLUS_3              4               86
  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
  CDKN2A MUTATED        6      7      3
  CDKN2A WILD-TYPE    166    198     96
D19V9, multiclass
        clus
vv       CDKN2A MUTATED CDKN2A WILD-TYPE
  CLUS_1              6              166
  CLUS_2              7              198
  CLUS_3              3               96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CDKN2A MUTATED        2      1      5      6      2      0
  CDKN2A WILD-TYPE     68     36    130    114     84     28
D19V10, multiclass
        clus
vv       CDKN2A MUTATED CDKN2A WILD-TYPE
  CLUS_1              2               68
  CLUS_2              1               36
  CLUS_3              5              130
  CLUS_4              6              114
  CLUS_5              2               84
  CLUS_6              0               28
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CDKN2A MUTATED        1      0      4      0      2      4
  CDKN2A WILD-TYPE     54     85     93     42     58     69
D19V11, multiclass
        clus
vv       CDKN2A MUTATED CDKN2A WILD-TYPE
  CLUS_1              1               54
  CLUS_2              0               85
  CLUS_3              4               93
  CLUS_4              0               42
  CLUS_5              2               58
  CLUS_6              4               69
[1] 6 2
[1] TRUE
[1] "dimension of contingency table 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      7      1
  CDKN2A WILD-TYPE     93    215     93
D19V12, multiclass
        clus
vv       CDKN2A MUTATED CDKN2A WILD-TYPE
  CLUS_1              3               93
  CLUS_2              7              215
  CLUS_3              1               93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(20) Variable = SRPX MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SRPX MUTATED        0      1      0
  SRPX WILD-TYPE      8      7      4
D20V1, 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
D20V2, 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        4      3      5      2
  SRPX WILD-TYPE    154    124    118     68
D20V3, multiclass
        clus
vv       SRPX MUTATED SRPX WILD-TYPE
  CLUS_1            4            154
  CLUS_2            3            124
  CLUS_3            5            118
  CLUS_4            2             68
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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      2      5
  SRPX WILD-TYPE    142    165    112
D20V4, multiclass
        clus
vv       SRPX MUTATED SRPX WILD-TYPE
  CLUS_1            4            142
  CLUS_2            2            165
  CLUS_3            5            112
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SRPX MUTATED        2      1      1      1      5
  SRPX WILD-TYPE     87     21     58     64     96
D20V5, multiclass
        clus
vv       SRPX MUTATED SRPX WILD-TYPE
  CLUS_1            2             87
  CLUS_2            1             21
  CLUS_3            1             58
  CLUS_4            1             64
  CLUS_5            5             96
[1] 5 2
[1] TRUE
[1] "dimension of contingency table 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      3      5
  SRPX WILD-TYPE    154    118     54
D20V6, multiclass
        clus
vv       SRPX MUTATED SRPX WILD-TYPE
  CLUS_1            2            154
  CLUS_2            3            118
  CLUS_3            5             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
  SRPX MUTATED        4      2      0      5      3
  SRPX WILD-TYPE    123    107     86    100     48
D20V7, multiclass
        clus
vv       SRPX MUTATED SRPX WILD-TYPE
  CLUS_1            4            123
  CLUS_2            2            107
  CLUS_3            0             86
  CLUS_4            5            100
  CLUS_5            3             48
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will 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      4      2      0      2      1      2
  SRPX WILD-TYPE     69    105     88     44     47     45     66
D20V8, multiclass
        clus
vv       SRPX MUTATED SRPX WILD-TYPE
  CLUS_1            3             69
  CLUS_2            4            105
  CLUS_3            2             88
  CLUS_4            0             44
  CLUS_5            2             47
  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      8      3
  SRPX WILD-TYPE    169    197     96
D20V9, multiclass
        clus
vv       SRPX MUTATED SRPX WILD-TYPE
  CLUS_1            3            169
  CLUS_2            8            197
  CLUS_3            3             96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SRPX MUTATED        2      4      2      2      2      2
  SRPX WILD-TYPE     68     33    133    118     84     26
D20V10, multiclass
        clus
vv       SRPX MUTATED SRPX WILD-TYPE
  CLUS_1            2             68
  CLUS_2            4             33
  CLUS_3            2            133
  CLUS_4            2            118
  CLUS_5            2             84
  CLUS_6            2             26
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SRPX MUTATED        1      3      3      1      2      0
  SRPX WILD-TYPE     54     82     94     41     58     73
D20V11, multiclass
        clus
vv       SRPX MUTATED SRPX WILD-TYPE
  CLUS_1            1             54
  CLUS_2            3             82
  CLUS_3            3             94
  CLUS_4            1             41
  CLUS_5            2             58
  CLUS_6            0             73
[1] 6 2
[1] TRUE
[1] "dimension of contingency table 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      5      4
  SRPX WILD-TYPE     95    217     90
D20V12, multiclass
        clus
vv       SRPX MUTATED SRPX WILD-TYPE
  CLUS_1            1             95
  CLUS_2            5            217
  CLUS_3            4             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"

Clustering(21) Variable = ATM MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  ATM MUTATED        1      0      1
  ATM WILD-TYPE      7      8      3
D21V1, 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
D21V2, 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        5     16     10     11
  ATM WILD-TYPE    153    111    113     59
D21V3, multiclass
        clus
vv       ATM MUTATED ATM WILD-TYPE
  CLUS_1           5           153
  CLUS_2          16           111
  CLUS_3          10           113
  CLUS_4          11            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
  ATM MUTATED       16     17      2
  ATM WILD-TYPE    130    150    115
D21V4, multiclass
        clus
vv       ATM MUTATED ATM WILD-TYPE
  CLUS_1          16           130
  CLUS_2          17           150
  CLUS_3           2           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
  ATM MUTATED        4      1      5      9      9
  ATM WILD-TYPE     85     21     54     56     92
D21V5, multiclass
        clus
vv       ATM MUTATED ATM WILD-TYPE
  CLUS_1           4            85
  CLUS_2           1            21
  CLUS_3           5            54
  CLUS_4           9            56
  CLUS_5           9            92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table 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       13     11      4
  ATM WILD-TYPE    143    110     55
D21V6, multiclass
        clus
vv       ATM MUTATED ATM WILD-TYPE
  CLUS_1          13           143
  CLUS_2          11           110
  CLUS_3           4            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        9      7      7     17      2
  ATM WILD-TYPE    118    102     79     88     49
D21V7, multiclass
        clus
vv       ATM MUTATED ATM WILD-TYPE
  CLUS_1           9           118
  CLUS_2           7           102
  CLUS_3           7            79
  CLUS_4          17            88
  CLUS_5           2            49
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will 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
D21V8, 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       13     20      9
  ATM WILD-TYPE    159    185     90
D21V9, multiclass
        clus
vv       ATM MUTATED ATM WILD-TYPE
  CLUS_1          13           159
  CLUS_2          20           185
  CLUS_3           9            90
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ATM MUTATED        8      8     14      6      4      2
  ATM WILD-TYPE     62     29    121    114     82     26
D21V10, multiclass
        clus
vv       ATM MUTATED ATM WILD-TYPE
  CLUS_1           8            62
  CLUS_2           8            29
  CLUS_3          14           121
  CLUS_4           6           114
  CLUS_5           4            82
  CLUS_6           2            26
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ATM MUTATED        3     12      5      4      8      3
  ATM WILD-TYPE     52     73     92     38     52     70
D21V11, multiclass
        clus
vv       ATM MUTATED ATM WILD-TYPE
  CLUS_1           3            52
  CLUS_2          12            73
  CLUS_3           5            92
  CLUS_4           4            38
  CLUS_5           8            52
  CLUS_6           3            70
[1] 6 2
[1] TRUE
[1] "dimension of contingency table 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     88    201     88
D21V12, multiclass
        clus
vv       ATM MUTATED ATM WILD-TYPE
  CLUS_1           8            88
  CLUS_2          21           201
  CLUS_3           6            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"

Clustering(22) Variable = TCEAL5 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TCEAL5 MUTATED        0      0      0
  TCEAL5 WILD-TYPE      8      8      4
D22V1, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TCEAL5 MUTATED        0      0      0
  TCEAL5 WILD-TYPE      7      9      4
D22V2, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TCEAL5 MUTATED        4      3      3      3
  TCEAL5 WILD-TYPE    154    124    120     67
D22V3, multiclass
        clus
vv       TCEAL5 MUTATED TCEAL5 WILD-TYPE
  CLUS_1              4              154
  CLUS_2              3              124
  CLUS_3              3              120
  CLUS_4              3               67
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        6      3      3
  TCEAL5 WILD-TYPE    140    164    114
D22V4, multiclass
        clus
vv       TCEAL5 MUTATED TCEAL5 WILD-TYPE
  CLUS_1              6              140
  CLUS_2              3              164
  CLUS_3              3              114
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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        2      1      2      5      2
  TCEAL5 WILD-TYPE     87     21     57     60     99
D22V5, multiclass
        clus
vv       TCEAL5 MUTATED TCEAL5 WILD-TYPE
  CLUS_1              2               87
  CLUS_2              1               21
  CLUS_3              2               57
  CLUS_4              5               60
  CLUS_5              2               99
[1] 5 2
[1] TRUE
[1] "dimension of contingency table 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      5      2
  TCEAL5 WILD-TYPE    151    116     57
D22V6, multiclass
        clus
vv       TCEAL5 MUTATED TCEAL5 WILD-TYPE
  CLUS_1              5              151
  CLUS_2              5              116
  CLUS_3              2               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
  TCEAL5 MUTATED        5      3      1      3      0
  TCEAL5 WILD-TYPE    122    106     85    102     51
D22V7, multiclass
        clus
vv       TCEAL5 MUTATED TCEAL5 WILD-TYPE
  CLUS_1              5              122
  CLUS_2              3              106
  CLUS_3              1               85
  CLUS_4              3              102
  CLUS_5              0               51
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will 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
D22V8, 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        3      6      4
  TCEAL5 WILD-TYPE    169    199     95
D22V9, multiclass
        clus
vv       TCEAL5 MUTATED TCEAL5 WILD-TYPE
  CLUS_1              3              169
  CLUS_2              6              199
  CLUS_3              4               95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TCEAL5 MUTATED        1      2      2      4      4      0
  TCEAL5 WILD-TYPE     69     35    133    116     82     28
D22V10, multiclass
        clus
vv       TCEAL5 MUTATED TCEAL5 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              2               35
  CLUS_3              2              133
  CLUS_4              4              116
  CLUS_5              4               82
  CLUS_6              0               28
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TCEAL5 MUTATED        2      2      3      1      2      2
  TCEAL5 WILD-TYPE     53     83     94     41     58     71
D22V11, multiclass
        clus
vv       TCEAL5 MUTATED TCEAL5 WILD-TYPE
  CLUS_1              2               53
  CLUS_2              2               83
  CLUS_3              3               94
  CLUS_4              1               41
  CLUS_5              2               58
  CLUS_6              2               71
[1] 6 2
[1] TRUE
[1] "dimension of contingency table 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      7      3
  TCEAL5 WILD-TYPE     94    215     91
D22V12, multiclass
        clus
vv       TCEAL5 MUTATED TCEAL5 WILD-TYPE
  CLUS_1              2               94
  CLUS_2              7              215
  CLUS_3              3               91
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(23) Variable = PPP3CA MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PPP3CA MUTATED        0      0      0
  PPP3CA WILD-TYPE      8      8      4
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        4      1      5      2
  PPP3CA WILD-TYPE    154    126    118     68
D23V3, multiclass
        clus
vv       PPP3CA MUTATED PPP3CA WILD-TYPE
  CLUS_1              4              154
  CLUS_2              1              126
  CLUS_3              5              118
  CLUS_4              2               68
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        5      5      1
  PPP3CA WILD-TYPE    141    162    116
D23V4, multiclass
        clus
vv       PPP3CA MUTATED PPP3CA WILD-TYPE
  CLUS_1              5              141
  CLUS_2              5              162
  CLUS_3              1              116
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PPP3CA MUTATED        2      1      2      2      1
  PPP3CA WILD-TYPE     87     21     57     63    100
D23V5, multiclass
        clus
vv       PPP3CA MUTATED PPP3CA WILD-TYPE
  CLUS_1              2               87
  CLUS_2              1               21
  CLUS_3              2               57
  CLUS_4              2               63
  CLUS_5              1              100
[1] 5 2
[1] TRUE
[1] "dimension of contingency table 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        5      2      1
  PPP3CA WILD-TYPE    151    119     58
D23V6, multiclass
        clus
vv       PPP3CA MUTATED PPP3CA WILD-TYPE
  CLUS_1              5              151
  CLUS_2              2              119
  CLUS_3              1               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
  PPP3CA MUTATED        2      2      3      5      0
  PPP3CA WILD-TYPE    125    107     83    100     51
D23V7, multiclass
        clus
vv       PPP3CA MUTATED PPP3CA WILD-TYPE
  CLUS_1              2              125
  CLUS_2              2              107
  CLUS_3              3               83
  CLUS_4              5              100
  CLUS_5              0               51
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will 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    170    196     98
D23V9, multiclass
        clus
vv       PPP3CA MUTATED PPP3CA WILD-TYPE
  CLUS_1              2              170
  CLUS_2              9              196
  CLUS_3              1               98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PPP3CA MUTATED        1      0      8      1      2      0
  PPP3CA WILD-TYPE     69     37    127    119     84     28
D23V10, multiclass
        clus
vv       PPP3CA MUTATED PPP3CA WILD-TYPE
  CLUS_1              1               69
  CLUS_2              0               37
  CLUS_3              8              127
  CLUS_4              1              119
  CLUS_5              2               84
  CLUS_6              0               28
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PPP3CA MUTATED        1      3      2      1      1      3
  PPP3CA WILD-TYPE     54     82     95     41     59     70
D23V11, multiclass
        clus
vv       PPP3CA MUTATED PPP3CA WILD-TYPE
  CLUS_1              1               54
  CLUS_2              3               82
  CLUS_3              2               95
  CLUS_4              1               41
  CLUS_5              1               59
  CLUS_6              3               70
[1] 6 2
[1] TRUE
[1] "dimension of contingency table 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     93    215     93
D23V12, multiclass
        clus
vv       PPP3CA MUTATED PPP3CA WILD-TYPE
  CLUS_1              3               93
  CLUS_2              7              215
  CLUS_3              1               93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(24) Variable = FCRLA MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FCRLA MUTATED        1      0      0
  FCRLA WILD-TYPE      7      8      4
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        7      4      1      3
  FCRLA WILD-TYPE    151    123    122     67
D24V3, multiclass
        clus
vv       FCRLA MUTATED FCRLA WILD-TYPE
  CLUS_1             7             151
  CLUS_2             4             123
  CLUS_3             1             122
  CLUS_4             3              67
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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      9      2
  FCRLA WILD-TYPE    142    158    115
D24V4, multiclass
        clus
vv       FCRLA MUTATED FCRLA WILD-TYPE
  CLUS_1             4             142
  CLUS_2             9             158
  CLUS_3             2             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
  FCRLA MUTATED        3      1      1      3      3
  FCRLA WILD-TYPE     86     21     58     62     98
D24V5, multiclass
        clus
vv       FCRLA MUTATED FCRLA WILD-TYPE
  CLUS_1             3              86
  CLUS_2             1              21
  CLUS_3             1              58
  CLUS_4             3              62
  CLUS_5             3              98
[1] 5 2
[1] TRUE
[1] "dimension of contingency table 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        6      5      0
  FCRLA WILD-TYPE    150    116     59
D24V6, multiclass
        clus
vv       FCRLA MUTATED FCRLA WILD-TYPE
  CLUS_1             6             150
  CLUS_2             5             116
  CLUS_3             0              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
  FCRLA MUTATED        5      2      1      4      3
  FCRLA WILD-TYPE    122    107     85    101     48
D24V7, multiclass
        clus
vv       FCRLA MUTATED FCRLA WILD-TYPE
  CLUS_1             5             122
  CLUS_2             2             107
  CLUS_3             1              85
  CLUS_4             4             101
  CLUS_5             3              48
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will 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    167    198     96
D24V9, multiclass
        clus
vv       FCRLA MUTATED FCRLA WILD-TYPE
  CLUS_1             5             167
  CLUS_2             7             198
  CLUS_3             3              96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  FCRLA MUTATED        3      1      6      3      2      0
  FCRLA WILD-TYPE     67     36    129    117     84     28
D24V10, multiclass
        clus
vv       FCRLA MUTATED FCRLA WILD-TYPE
  CLUS_1             3              67
  CLUS_2             1              36
  CLUS_3             6             129
  CLUS_4             3             117
  CLUS_5             2              84
  CLUS_6             0              28
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  FCRLA MUTATED        0      2      6      2      2      2
  FCRLA WILD-TYPE     55     83     91     40     58     71
D24V11, multiclass
        clus
vv       FCRLA MUTATED FCRLA WILD-TYPE
  CLUS_1             0              55
  CLUS_2             2              83
  CLUS_3             6              91
  CLUS_4             2              40
  CLUS_5             2              58
  CLUS_6             2              71
[1] 6 2
[1] TRUE
[1] "dimension of contingency table 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      7      6
  FCRLA WILD-TYPE     95    215     88
D24V12, multiclass
        clus
vv       FCRLA MUTATED FCRLA WILD-TYPE
  CLUS_1             1              95
  CLUS_2             7             215
  CLUS_3             6              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"

Clustering(25) Variable = ARID2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ARID2 MUTATED        2      0      0
  ARID2 WILD-TYPE      6      8      4
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        9      9      2      4
  ARID2 WILD-TYPE    149    118    121     66
D25V3, multiclass
        clus
vv       ARID2 MUTATED ARID2 WILD-TYPE
  CLUS_1             9             149
  CLUS_2             9             118
  CLUS_3             2             121
  CLUS_4             4              66
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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     13      2
  ARID2 WILD-TYPE    140    154    115
D25V4, multiclass
        clus
vv       ARID2 MUTATED ARID2 WILD-TYPE
  CLUS_1             6             140
  CLUS_2            13             154
  CLUS_3             2             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
  ARID2 MUTATED        4      0      4      2      5
  ARID2 WILD-TYPE     85     22     55     63     96
D25V5, multiclass
        clus
vv       ARID2 MUTATED ARID2 WILD-TYPE
  CLUS_1             4              85
  CLUS_2             0              22
  CLUS_3             4              55
  CLUS_4             2              63
  CLUS_5             5              96
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ARID2 MUTATED        7      6      2
  ARID2 WILD-TYPE    149    115     57
D25V6, multiclass
        clus
vv       ARID2 MUTATED ARID2 WILD-TYPE
  CLUS_1             7             149
  CLUS_2             6             115
  CLUS_3             2              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
  ARID2 MUTATED        8      5      4      5      2
  ARID2 WILD-TYPE    119    104     82    100     49
D25V7, multiclass
        clus
vv       ARID2 MUTATED ARID2 WILD-TYPE
  CLUS_1             8             119
  CLUS_2             5             104
  CLUS_3             4              82
  CLUS_4             5             100
  CLUS_5             2              49
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will 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    168    190     94
D25V9, multiclass
        clus
vv       ARID2 MUTATED ARID2 WILD-TYPE
  CLUS_1             4             168
  CLUS_2            15             190
  CLUS_3             5              94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ARID2 MUTATED        3      0     13      3      4      1
  ARID2 WILD-TYPE     67     37    122    117     82     27
D25V10, multiclass
        clus
vv       ARID2 MUTATED ARID2 WILD-TYPE
  CLUS_1             3              67
  CLUS_2             0              37
  CLUS_3            13             122
  CLUS_4             3             117
  CLUS_5             4              82
  CLUS_6             1              27
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ARID2 MUTATED        2      5      2      2      1      7
  ARID2 WILD-TYPE     53     80     95     40     59     66
D25V11, multiclass
        clus
vv       ARID2 MUTATED ARID2 WILD-TYPE
  CLUS_1             2              53
  CLUS_2             5              80
  CLUS_3             2              95
  CLUS_4             2              40
  CLUS_5             1              59
  CLUS_6             7              66
[1] 6 2
[1] TRUE
[1] "dimension of contingency table 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        2     15      2
  ARID2 WILD-TYPE     94    207     92
D25V12, multiclass
        clus
vv       ARID2 MUTATED ARID2 WILD-TYPE
  CLUS_1             2              94
  CLUS_2            15             207
  CLUS_3             2              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"

Clustering(26) Variable = APC MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  APC MUTATED        0      0      0
  APC WILD-TYPE      8      8      4
D26V1, multiclass
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  APC MUTATED        0      0      0
  APC WILD-TYPE      7      9      4
D26V2, multiclass
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  APC MUTATED        5      8      4      3
  APC WILD-TYPE    153    119    119     67
D26V3, multiclass
        clus
vv       APC MUTATED APC WILD-TYPE
  CLUS_1           5           153
  CLUS_2           8           119
  CLUS_3           4           119
  CLUS_4           3            67
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        8      4      3
  APC WILD-TYPE    138    163    114
D26V4, multiclass
        clus
vv       APC MUTATED APC WILD-TYPE
  CLUS_1           8           138
  CLUS_2           4           163
  CLUS_3           3           114
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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        5      1      3      3      3
  APC WILD-TYPE     84     21     56     62     98
D26V5, multiclass
        clus
vv       APC MUTATED APC WILD-TYPE
  CLUS_1           5            84
  CLUS_2           1            21
  CLUS_3           3            56
  CLUS_4           3            62
  CLUS_5           3            98
[1] 5 2
[1] TRUE
[1] "dimension of contingency table 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        8      5      2
  APC WILD-TYPE    148    116     57
D26V6, multiclass
        clus
vv       APC MUTATED APC WILD-TYPE
  CLUS_1           8           148
  CLUS_2           5           116
  CLUS_3           2            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
  APC MUTATED        6      2      5      7      0
  APC WILD-TYPE    121    107     81     98     51
D26V7, multiclass
        clus
vv       APC MUTATED APC WILD-TYPE
  CLUS_1           6           121
  CLUS_2           2           107
  CLUS_3           5            81
  CLUS_4           7            98
  CLUS_5           0            51
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will 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
D26V8, 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    167    191     98
D26V9, multiclass
        clus
vv       APC MUTATED APC WILD-TYPE
  CLUS_1           5           167
  CLUS_2          14           191
  CLUS_3           1            98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  APC MUTATED        0      1     10      3      6      0
  APC WILD-TYPE     70     36    125    117     80     28
D26V10, multiclass
        clus
vv       APC MUTATED APC WILD-TYPE
  CLUS_1           0            70
  CLUS_2           1            36
  CLUS_3          10           125
  CLUS_4           3           117
  CLUS_5           6            80
  CLUS_6           0            28
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  APC MUTATED        2      4      3      0      1      4
  APC WILD-TYPE     53     81     94     42     59     69
D26V11, multiclass
        clus
vv       APC MUTATED APC WILD-TYPE
  CLUS_1           2            53
  CLUS_2           4            81
  CLUS_3           3            94
  CLUS_4           0            42
  CLUS_5           1            59
  CLUS_6           4            69
[1] 6 2
[1] TRUE
[1] "dimension of contingency table 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     94    211     93
D26V12, multiclass
        clus
vv       APC MUTATED APC WILD-TYPE
  CLUS_1           2            94
  CLUS_2          11           211
  CLUS_3           1            93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(27) Variable = ZEB1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ZEB1 MUTATED        1      2      1
  ZEB1 WILD-TYPE      7      6      3
D27V1, multiclass
        clus
vv       ZEB1 MUTATED ZEB1 WILD-TYPE
  CLUS_1            1              7
  CLUS_2            2              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
  ZEB1 MUTATED        1      2      1
  ZEB1 WILD-TYPE      6      7      3
D27V2, 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       14      6      4      8
  ZEB1 WILD-TYPE    144    121    119     62
D27V3, multiclass
        clus
vv       ZEB1 MUTATED ZEB1 WILD-TYPE
  CLUS_1           14            144
  CLUS_2            6            121
  CLUS_3            4            119
  CLUS_4            8             62
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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       12     11      5
  ZEB1 WILD-TYPE    134    156    112
D27V4, multiclass
        clus
vv       ZEB1 MUTATED ZEB1 WILD-TYPE
  CLUS_1           12            134
  CLUS_2           11            156
  CLUS_3            5            112
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZEB1 MUTATED        6      2      3      6      5
  ZEB1 WILD-TYPE     83     20     56     59     96
D27V5, multiclass
        clus
vv       ZEB1 MUTATED ZEB1 WILD-TYPE
  CLUS_1            6             83
  CLUS_2            2             20
  CLUS_3            3             56
  CLUS_4            6             59
  CLUS_5            5             96
[1] 5 2
[1] TRUE
[1] "dimension of contingency table 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       10      9      3
  ZEB1 WILD-TYPE    146    112     56
D27V6, multiclass
        clus
vv       ZEB1 MUTATED ZEB1 WILD-TYPE
  CLUS_1           10            146
  CLUS_2            9            112
  CLUS_3            3             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
  ZEB1 MUTATED        8      6      7      7      3
  ZEB1 WILD-TYPE    119    103     79     98     48
D27V7, multiclass
        clus
vv       ZEB1 MUTATED ZEB1 WILD-TYPE
  CLUS_1            8            119
  CLUS_2            6            103
  CLUS_3            7             79
  CLUS_4            7             98
  CLUS_5            3             48
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will 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
D27V8, 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    163    188     94
D27V9, multiclass
        clus
vv       ZEB1 MUTATED ZEB1 WILD-TYPE
  CLUS_1            9            163
  CLUS_2           17            188
  CLUS_3            5             94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ZEB1 MUTATED        3      1      7      6     11      3
  ZEB1 WILD-TYPE     67     36    128    114     75     25
D27V10, multiclass
        clus
vv       ZEB1 MUTATED ZEB1 WILD-TYPE
  CLUS_1            3             67
  CLUS_2            1             36
  CLUS_3            7            128
  CLUS_4            6            114
  CLUS_5           11             75
  CLUS_6            3             25
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ZEB1 MUTATED        4      4      6      3      5      3
  ZEB1 WILD-TYPE     51     81     91     39     55     70
D27V11, multiclass
        clus
vv       ZEB1 MUTATED ZEB1 WILD-TYPE
  CLUS_1            4             51
  CLUS_2            4             81
  CLUS_3            6             91
  CLUS_4            3             39
  CLUS_5            5             55
  CLUS_6            3             70
[1] 6 2
[1] TRUE
[1] "dimension of contingency table 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     91    209     87
D27V12, multiclass
        clus
vv       ZEB1 MUTATED ZEB1 WILD-TYPE
  CLUS_1            5             91
  CLUS_2           13            209
  CLUS_3            7             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"

Clustering(28) Variable = SIP1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SIP1 MUTATED        1      0      2
  SIP1 WILD-TYPE      7      8      2
D28V1, multiclass
        clus
vv       SIP1 MUTATED SIP1 WILD-TYPE
  CLUS_1            1              7
  CLUS_2            0              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
  SIP1 MUTATED        0      1      2
  SIP1 WILD-TYPE      7      8      2
D28V2, multiclass
        clus
vv       SIP1 MUTATED SIP1 WILD-TYPE
  CLUS_1            0              7
  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
  SIP1 MUTATED        2      2      0      0
  SIP1 WILD-TYPE    156    125    123     70
D28V3, multiclass
        clus
vv       SIP1 MUTATED SIP1 WILD-TYPE
  CLUS_1            2            156
  CLUS_2            2            125
  CLUS_3            0            123
  CLUS_4            0             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
  SIP1 MUTATED        0      1      0
  SIP1 WILD-TYPE    146    166    117
D28V4, multiclass
[1] "Remove cluster labels:" "SIP1 MUTATED"          
clus
  SIP1 MUTATED SIP1 WILD-TYPE 
             1            429 
    TCGA-05-4384     TCGA-05-4390     TCGA-05-4396     TCGA-05-4405 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-05-4410     TCGA-05-4415     TCGA-05-4417     TCGA-05-4424 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-05-4425     TCGA-05-4427     TCGA-05-4433     TCGA-05-5420 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-05-5423     TCGA-05-5425     TCGA-05-5428     TCGA-05-5429 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-05-5715     TCGA-35-5375     TCGA-38-4631     TCGA-38-4632 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-38-6178     TCGA-38-7271     TCGA-38-A44F     TCGA-44-2656 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-44-2665     TCGA-44-3918     TCGA-44-4112     TCGA-44-5643 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-44-5644     TCGA-44-5645     TCGA-44-6144     TCGA-44-6145 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-44-6146     TCGA-44-6147     TCGA-44-6148     TCGA-44-6774 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-44-6775     TCGA-44-6776     TCGA-44-6777     TCGA-44-6778 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-44-6779     TCGA-44-7659     TCGA-44-7660     TCGA-44-7661 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-44-7662     TCGA-44-7667     TCGA-44-7669     TCGA-44-7670 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-44-7671     TCGA-44-7672     TCGA-44-8117     TCGA-44-8119 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-44-8120     TCGA-44-A479     TCGA-44-A47A     TCGA-44-A47B 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-44-A47F     TCGA-44-A47G     TCGA-44-A4SS     TCGA-44-A4SU 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-49-4487     TCGA-49-4488     TCGA-49-4490     TCGA-49-4512 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-49-4514     TCGA-49-6742     TCGA-49-6743     TCGA-49-6744 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-49-6745     TCGA-49-6761     TCGA-49-6767     TCGA-50-5044 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-50-5045     TCGA-50-5049     TCGA-50-5051     TCGA-50-5055 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-50-5066     TCGA-50-5068     TCGA-50-5072     TCGA-50-5930 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-50-5931     TCGA-50-5932     TCGA-50-5933     TCGA-50-5935 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-50-5936     TCGA-50-5939     TCGA-50-5941     TCGA-50-5942 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-50-5944     TCGA-50-5946     TCGA-50-6590     TCGA-50-6591 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-50-6592     TCGA-50-6593     TCGA-50-6594     TCGA-50-6595 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-50-6597     TCGA-50-6673     TCGA-50-7109     TCGA-50-8457 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-50-8459     TCGA-50-8460     TCGA-53-7624     TCGA-53-7626 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-53-7813     TCGA-53-A4EZ     TCGA-55-5899     TCGA-55-6543 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-55-6642     TCGA-55-6712     TCGA-55-6968     TCGA-55-6969 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-55-6970     TCGA-55-6971     TCGA-55-6972     TCGA-55-6975 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-55-6978     TCGA-55-6979     TCGA-55-6980     TCGA-55-6981 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-55-6982     TCGA-55-6983     TCGA-55-6984     TCGA-55-6985 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-55-6986     TCGA-55-6987     TCGA-55-7227     TCGA-55-7281 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-55-7283     TCGA-55-7284     TCGA-55-7570     TCGA-55-7573 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-55-7574     TCGA-55-7576     TCGA-55-7724     TCGA-55-7725 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-55-7726     TCGA-55-7727     TCGA-55-7728     TCGA-55-7815 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-55-7816     TCGA-55-7903     TCGA-55-7907     TCGA-55-7910 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-55-7911     TCGA-55-7913     TCGA-55-7914     TCGA-55-7994 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-55-7995     TCGA-55-8085     TCGA-55-8087     TCGA-55-8089 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-55-8090     TCGA-55-8091     TCGA-55-8092     TCGA-55-8094 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-55-8096     TCGA-55-8097     TCGA-55-8203     TCGA-55-8204 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-55-8205     TCGA-55-8206     TCGA-55-8207     TCGA-55-8208 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-55-8299     TCGA-55-8301     TCGA-55-8302     TCGA-55-8505 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-55-8506     TCGA-55-8507     TCGA-55-8508     TCGA-55-8510 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-55-8511     TCGA-55-8512     TCGA-55-8513     TCGA-55-8514 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-55-8614     TCGA-55-8615     TCGA-55-8616     TCGA-55-8619 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-55-8620     TCGA-55-8621     TCGA-55-A48X     TCGA-55-A48Y 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-55-A48Z     TCGA-55-A490     TCGA-55-A491     TCGA-55-A492 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-55-A493     TCGA-55-A494     TCGA-55-A4DF     TCGA-55-A4DG 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-62-8394     TCGA-62-8395     TCGA-62-8397     TCGA-62-8398 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-62-8399     TCGA-62-8402     TCGA-62-A46O     TCGA-62-A46P 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-62-A46R     TCGA-62-A46S     TCGA-62-A46U     TCGA-62-A46V 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-62-A46Y     TCGA-62-A470     TCGA-62-A471     TCGA-62-A472 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-64-1679     TCGA-64-1681     TCGA-64-5774     TCGA-64-5775 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-64-5778     TCGA-64-5779     TCGA-64-5781     TCGA-64-5815 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-67-4679     TCGA-67-6215     TCGA-67-6216     TCGA-67-6217 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-69-7760     TCGA-69-7761     TCGA-69-7763     TCGA-69-7764 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-69-7765     TCGA-69-7973     TCGA-69-7974     TCGA-69-7978 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-69-7979     TCGA-69-7980     TCGA-69-8253     TCGA-69-8254 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-69-8255     TCGA-69-A59K     TCGA-71-6725     TCGA-71-8520 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-73-4658     TCGA-73-4676     TCGA-73-7498     TCGA-73-7499 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-75-5122     TCGA-75-5125     TCGA-75-5126     TCGA-75-5146 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-75-5147     TCGA-75-6203     TCGA-75-6205     TCGA-75-6206 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-75-6207     TCGA-75-6211     TCGA-75-6212     TCGA-75-6214 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-75-7025     TCGA-75-7027     TCGA-75-7030     TCGA-75-7031 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-78-7143     TCGA-78-7145     TCGA-78-7146     TCGA-78-7147 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-78-7148     TCGA-78-7149     TCGA-78-7150     TCGA-78-7152 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-78-7153     TCGA-78-7154     TCGA-78-7155     TCGA-78-7156 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-78-7158     TCGA-78-7159     TCGA-78-7160     TCGA-78-7161 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-78-7162     TCGA-78-7163     TCGA-78-7166     TCGA-78-7167 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-78-7220     TCGA-78-7535     TCGA-78-7536     TCGA-78-7537 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-78-7539     TCGA-78-7540     TCGA-78-7542     TCGA-78-7633 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-78-8640     TCGA-78-8648     TCGA-78-8655     TCGA-78-8660 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-78-8662     TCGA-80-5607     TCGA-80-5608     TCGA-80-5611 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-83-5908     TCGA-86-6562     TCGA-86-6851     TCGA-86-7701 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-86-7711     TCGA-86-7713     TCGA-86-7714     TCGA-86-7953 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-86-7954     TCGA-86-7955     TCGA-86-8054     TCGA-86-8055 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-86-8056     TCGA-86-8073     TCGA-86-8074     TCGA-86-8075 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-86-8076     TCGA-86-8278     TCGA-86-8279     TCGA-86-8280 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-86-8281     TCGA-86-8358     TCGA-86-8359     TCGA-86-8585 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-86-8668     TCGA-86-8669     TCGA-86-8671     TCGA-86-8672 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-86-8673     TCGA-86-8674     TCGA-86-A456     TCGA-86-A4JF 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-86-A4P7     TCGA-86-A4P8     TCGA-91-6828     TCGA-91-6829 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-91-6830     TCGA-91-6831     TCGA-91-6835     TCGA-91-6836 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-91-6840     TCGA-91-6847     TCGA-91-6848     TCGA-91-6849 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-91-7771     TCGA-91-8496     TCGA-91-8497     TCGA-91-8499 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-91-A4BC     TCGA-91-A4BD     TCGA-93-7347     TCGA-93-7348 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-93-8067     TCGA-93-A4JN     TCGA-93-A4JO     TCGA-93-A4JP 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-93-A4JQ     TCGA-95-7039     TCGA-95-7043     TCGA-95-7562 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-95-7944     TCGA-95-7947     TCGA-95-7948     TCGA-95-8039 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-95-8494     TCGA-95-A4VK     TCGA-95-A4VN     TCGA-95-A4VP 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-97-7546     TCGA-97-7547     TCGA-97-7552     TCGA-97-7553 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-97-7554     TCGA-97-7937     TCGA-97-7938     TCGA-97-7941 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-97-8171     TCGA-97-8172     TCGA-97-8174     TCGA-97-8175 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-97-8176     TCGA-97-8177     TCGA-97-8179     TCGA-97-8547 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-97-8552     TCGA-97-A4LX     TCGA-97-A4M0     TCGA-97-A4M1 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-97-A4M2     TCGA-97-A4M3     TCGA-97-A4M5     TCGA-97-A4M6 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-97-A4M7     TCGA-99-7458     TCGA-99-8025     TCGA-99-8028 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-99-8032     TCGA-99-8033     TCGA-J2-8192     TCGA-J2-8194 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-J2-A4AD     TCGA-J2-A4AE     TCGA-J2-A4AG     TCGA-L4-A4E5 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-L4-A4E6     TCGA-L9-A443     TCGA-L9-A444     TCGA-MN-A4N1 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-MN-A4N4     TCGA-MN-A4N5     TCGA-MP-A4SV     TCGA-MP-A4SW 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-MP-A4SY     TCGA-MP-A4T2     TCGA-MP-A4T4     TCGA-MP-A4T6 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-MP-A4T7     TCGA-MP-A4T8     TCGA-MP-A4T9     TCGA-MP-A4TA 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-MP-A4TC     TCGA-MP-A4TD     TCGA-MP-A4TE     TCGA-MP-A4TF 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-MP-A4TH     TCGA-MP-A4TI     TCGA-MP-A4TK     TCGA-MP-A5C7 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-NJ-A4YF     TCGA-NJ-A4YG     TCGA-NJ-A4YI     TCGA-NJ-A4YP 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-NJ-A4YQ     TCGA-NJ-A55A     TCGA-NJ-A55O     TCGA-NJ-A55R 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-O1-A52J 
"SIP1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SIP1 MUTATED        2      0      0      1      0
  SIP1 WILD-TYPE     87     22     59     64    101
D28V5, multiclass
        clus
vv       SIP1 MUTATED SIP1 WILD-TYPE
  CLUS_1            2             87
  CLUS_2            0             22
  CLUS_3            0             59
  CLUS_4            1             64
  CLUS_5            0            101
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SIP1 MUTATED        2      1      0
  SIP1 WILD-TYPE    154    120     59
D28V6, multiclass
        clus
vv       SIP1 MUTATED SIP1 WILD-TYPE
  CLUS_1            2            154
  CLUS_2            1            120
  CLUS_3            0             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
  SIP1 MUTATED        3      0      0      1      0
  SIP1 WILD-TYPE    124    109     86    104     51
D28V7, multiclass
        clus
vv       SIP1 MUTATED SIP1 WILD-TYPE
  CLUS_1            3            124
  CLUS_2            0            109
  CLUS_3            0             86
  CLUS_4            1            104
  CLUS_5            0             51
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  SIP1 MUTATED        1      2      1      0      0      0      0
  SIP1 WILD-TYPE     71    107     89     44     49     46     68
D28V8, multiclass
        clus
vv       SIP1 MUTATED SIP1 WILD-TYPE
  CLUS_1            1             71
  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
  SIP1 MUTATED        2      2      0
  SIP1 WILD-TYPE    170    203     99
D28V9, multiclass
        clus
vv       SIP1 MUTATED SIP1 WILD-TYPE
  CLUS_1            2            170
  CLUS_2            2            203
  CLUS_3            0             99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SIP1 MUTATED        2      0      1      0      1      0
  SIP1 WILD-TYPE     68     37    134    120     85     28
D28V10, multiclass
        clus
vv       SIP1 MUTATED SIP1 WILD-TYPE
  CLUS_1            2             68
  CLUS_2            0             37
  CLUS_3            1            134
  CLUS_4            0            120
  CLUS_5            1             85
  CLUS_6            0             28
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SIP1 MUTATED        0      0      1      0      0      0
  SIP1 WILD-TYPE     55     85     96     42     60     73
D28V11, multiclass
[1] "Remove cluster labels:" "SIP1 MUTATED"          
clus
  SIP1 MUTATED SIP1 WILD-TYPE 
             1            411 
    TCGA-05-4384     TCGA-05-4390     TCGA-05-4396     TCGA-05-4405 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-05-4410     TCGA-05-4415     TCGA-05-4417     TCGA-05-4424 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-05-4425     TCGA-05-4427     TCGA-05-4433     TCGA-05-5420 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-05-5423     TCGA-05-5425     TCGA-05-5428     TCGA-05-5429 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-05-5715     TCGA-35-5375     TCGA-38-4631     TCGA-38-4632 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-38-6178     TCGA-38-7271     TCGA-38-A44F     TCGA-44-5643 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-44-5644     TCGA-44-5645     TCGA-44-6144     TCGA-44-6145 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-44-6146     TCGA-44-6147     TCGA-44-6148     TCGA-44-6774 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-44-6775     TCGA-44-6776     TCGA-44-6777     TCGA-44-6778 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-44-6779     TCGA-44-7659     TCGA-44-7660     TCGA-44-7661 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-44-7662     TCGA-44-7667     TCGA-44-7669     TCGA-44-7670 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-44-7671     TCGA-44-7672     TCGA-44-8117     TCGA-44-8119 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-44-8120     TCGA-44-A479     TCGA-44-A47B     TCGA-44-A47F 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-44-A47G     TCGA-44-A4SS     TCGA-44-A4SU     TCGA-49-4487 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-49-4488     TCGA-49-4490     TCGA-49-4512     TCGA-49-4514 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-49-6742     TCGA-49-6743     TCGA-49-6744     TCGA-49-6745 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-49-6761     TCGA-49-6767     TCGA-50-5044     TCGA-50-5045 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-50-5049     TCGA-50-5051     TCGA-50-5055     TCGA-50-5066 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-50-5068     TCGA-50-5072     TCGA-50-5930     TCGA-50-5931 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-50-5932     TCGA-50-5933     TCGA-50-5935     TCGA-50-5936 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-50-5939     TCGA-50-5941     TCGA-50-5942     TCGA-50-5944 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-50-5946     TCGA-50-6590     TCGA-50-6591     TCGA-50-6592 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-50-6593     TCGA-50-6594     TCGA-50-6595     TCGA-50-6597 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-50-6673     TCGA-50-7109     TCGA-50-8457     TCGA-50-8459 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-50-8460     TCGA-53-7624     TCGA-53-7626     TCGA-53-7813 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-53-A4EZ     TCGA-55-5899     TCGA-55-6543     TCGA-55-6642 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-55-6712     TCGA-55-6968     TCGA-55-6969     TCGA-55-6970 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-55-6971     TCGA-55-6972     TCGA-55-6978     TCGA-55-6979 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-55-6980     TCGA-55-6981     TCGA-55-6982     TCGA-55-6983 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-55-6984     TCGA-55-6985     TCGA-55-6986     TCGA-55-6987 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-55-7227     TCGA-55-7281     TCGA-55-7283     TCGA-55-7284 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-55-7570     TCGA-55-7573     TCGA-55-7574     TCGA-55-7576 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-55-7724     TCGA-55-7726     TCGA-55-7727     TCGA-55-7728 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-55-7815     TCGA-55-7816     TCGA-55-7903     TCGA-55-7907 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-55-7910     TCGA-55-7911     TCGA-55-7913     TCGA-55-7914 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-55-7994     TCGA-55-8085     TCGA-55-8087     TCGA-55-8089 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-55-8090     TCGA-55-8091     TCGA-55-8092     TCGA-55-8094 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-55-8096     TCGA-55-8203     TCGA-55-8204     TCGA-55-8205 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-55-8206     TCGA-55-8208     TCGA-55-8299     TCGA-55-8301 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-55-8302     TCGA-55-8505     TCGA-55-8506     TCGA-55-8507 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-55-8508     TCGA-55-8510     TCGA-55-8511     TCGA-55-8512 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-55-8513     TCGA-55-8514     TCGA-55-8614     TCGA-55-8615 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-55-8616     TCGA-55-8619     TCGA-55-8620     TCGA-55-8621 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-55-A48X     TCGA-55-A48Y     TCGA-55-A48Z     TCGA-55-A490 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-55-A491     TCGA-55-A492     TCGA-55-A493     TCGA-55-A494 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-55-A4DF     TCGA-55-A4DG     TCGA-62-8394     TCGA-62-8395 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-62-8397     TCGA-62-8398     TCGA-62-8399     TCGA-62-8402 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-62-A46O     TCGA-62-A46P     TCGA-62-A46R     TCGA-62-A46S 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-62-A46U     TCGA-62-A46V     TCGA-62-A46Y     TCGA-62-A470 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-62-A471     TCGA-62-A472     TCGA-64-1679     TCGA-64-1681 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-64-5774     TCGA-64-5775     TCGA-64-5778     TCGA-64-5779 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-64-5781     TCGA-64-5815     TCGA-67-6215     TCGA-67-6216 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-67-6217     TCGA-69-7760     TCGA-69-7765     TCGA-69-7973 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-69-7974     TCGA-69-7978     TCGA-69-7979     TCGA-69-7980 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-69-8253     TCGA-69-8254     TCGA-69-8255     TCGA-69-A59K 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-71-6725     TCGA-71-8520     TCGA-73-4658     TCGA-73-4676 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-73-7498     TCGA-73-7499     TCGA-75-5122     TCGA-75-5125 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-75-5126     TCGA-75-5146     TCGA-75-5147     TCGA-75-6203 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-75-6205     TCGA-75-6206     TCGA-75-6207     TCGA-75-6211 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-75-6212     TCGA-75-6214     TCGA-75-7025     TCGA-75-7027 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-75-7030     TCGA-75-7031     TCGA-78-7143     TCGA-78-7145 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-78-7146     TCGA-78-7147     TCGA-78-7148     TCGA-78-7149 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-78-7150     TCGA-78-7152     TCGA-78-7154     TCGA-78-7155 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-78-7156     TCGA-78-7159     TCGA-78-7160     TCGA-78-7161 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-78-7163     TCGA-78-7166     TCGA-78-7167     TCGA-78-7220 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-78-7535     TCGA-78-7536     TCGA-78-7537     TCGA-78-7539 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-78-7540     TCGA-78-7542     TCGA-78-7633     TCGA-78-8640 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-78-8648     TCGA-78-8655     TCGA-78-8660     TCGA-78-8662 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-80-5607     TCGA-80-5608     TCGA-80-5611     TCGA-83-5908 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-86-6562     TCGA-86-6851     TCGA-86-7701     TCGA-86-7711 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-86-7713     TCGA-86-7714     TCGA-86-7953     TCGA-86-7954 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-86-7955     TCGA-86-8054     TCGA-86-8055     TCGA-86-8056 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-86-8073     TCGA-86-8074     TCGA-86-8075     TCGA-86-8076 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-86-8278     TCGA-86-8279     TCGA-86-8280     TCGA-86-8281 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-86-8358     TCGA-86-8359     TCGA-86-8585     TCGA-86-8668 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-86-8669     TCGA-86-8671     TCGA-86-8672     TCGA-86-8673 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-86-8674     TCGA-86-A456     TCGA-86-A4JF     TCGA-86-A4P7 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-86-A4P8     TCGA-91-6828     TCGA-91-6829     TCGA-91-6830 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-91-6831     TCGA-91-6835     TCGA-91-6836     TCGA-91-6840 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-91-6847     TCGA-91-6848     TCGA-91-6849     TCGA-91-7771 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-91-8496     TCGA-91-8497     TCGA-91-8499     TCGA-91-A4BC 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-91-A4BD     TCGA-93-7347     TCGA-93-7348     TCGA-93-A4JN 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-93-A4JO     TCGA-93-A4JP     TCGA-93-A4JQ     TCGA-95-7039 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-95-7043     TCGA-95-7562     TCGA-95-7944     TCGA-95-7947 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-95-7948     TCGA-95-8039     TCGA-95-8494     TCGA-95-A4VK 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-95-A4VN     TCGA-95-A4VP     TCGA-97-7546     TCGA-97-7547 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-97-7552     TCGA-97-7553     TCGA-97-7554     TCGA-97-7937 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-97-7938     TCGA-97-7941     TCGA-97-8171     TCGA-97-8172 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-97-8174     TCGA-97-8175     TCGA-97-8176     TCGA-97-8177 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-97-8179     TCGA-97-8547     TCGA-97-8552     TCGA-97-A4LX 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-97-A4M0     TCGA-97-A4M1     TCGA-97-A4M2     TCGA-97-A4M3 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-97-A4M5     TCGA-97-A4M6     TCGA-97-A4M7     TCGA-99-7458 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-99-8025     TCGA-99-8028     TCGA-99-8032     TCGA-99-8033 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-J2-8192     TCGA-J2-8194     TCGA-J2-A4AD     TCGA-J2-A4AE 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-J2-A4AG     TCGA-L4-A4E5     TCGA-L4-A4E6     TCGA-L9-A443 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-L9-A444     TCGA-MN-A4N1     TCGA-MN-A4N4     TCGA-MN-A4N5 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-MP-A4SV     TCGA-MP-A4SW     TCGA-MP-A4SY     TCGA-MP-A4T2 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-MP-A4T4     TCGA-MP-A4T6     TCGA-MP-A4T7     TCGA-MP-A4T8 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-MP-A4T9     TCGA-MP-A4TA     TCGA-MP-A4TC     TCGA-MP-A4TD 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-MP-A4TE     TCGA-MP-A4TF     TCGA-MP-A4TH     TCGA-MP-A4TI 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-MP-A4TK     TCGA-MP-A5C7     TCGA-NJ-A4YF     TCGA-NJ-A4YG 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-NJ-A4YI     TCGA-NJ-A4YP     TCGA-NJ-A4YQ     TCGA-NJ-A55A 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-NJ-A55O     TCGA-NJ-A55R     TCGA-O1-A52J 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SIP1 MUTATED        0      1      0
  SIP1 WILD-TYPE     96    221     94
D28V12, multiclass
[1] "Remove cluster labels:" "SIP1 MUTATED"          
clus
  SIP1 MUTATED SIP1 WILD-TYPE 
             1            411 
    TCGA-05-4384     TCGA-05-4390     TCGA-05-4396     TCGA-05-4405 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-05-4410     TCGA-05-4415     TCGA-05-4417     TCGA-05-4424 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-05-4425     TCGA-05-4427     TCGA-05-4433     TCGA-05-5420 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-05-5423     TCGA-05-5425     TCGA-05-5428     TCGA-05-5429 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-05-5715     TCGA-35-5375     TCGA-38-4631     TCGA-38-4632 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-38-6178     TCGA-38-7271     TCGA-38-A44F     TCGA-44-5643 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-44-5644     TCGA-44-5645     TCGA-44-6144     TCGA-44-6145 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-44-6146     TCGA-44-6147     TCGA-44-6148     TCGA-44-6774 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-44-6775     TCGA-44-6776     TCGA-44-6777     TCGA-44-6778 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-44-6779     TCGA-44-7659     TCGA-44-7660     TCGA-44-7661 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-44-7662     TCGA-44-7667     TCGA-44-7669     TCGA-44-7670 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-44-7671     TCGA-44-7672     TCGA-44-8117     TCGA-44-8119 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-44-8120     TCGA-44-A479     TCGA-44-A47B     TCGA-44-A47F 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-44-A47G     TCGA-44-A4SS     TCGA-44-A4SU     TCGA-49-4487 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-49-4488     TCGA-49-4490     TCGA-49-4512     TCGA-49-4514 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-49-6742     TCGA-49-6743     TCGA-49-6744     TCGA-49-6745 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-49-6761     TCGA-49-6767     TCGA-50-5044     TCGA-50-5045 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-50-5049     TCGA-50-5051     TCGA-50-5055     TCGA-50-5066 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-50-5068     TCGA-50-5072     TCGA-50-5930     TCGA-50-5931 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-50-5932     TCGA-50-5933     TCGA-50-5935     TCGA-50-5936 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-50-5939     TCGA-50-5941     TCGA-50-5942     TCGA-50-5944 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-50-5946     TCGA-50-6590     TCGA-50-6591     TCGA-50-6592 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-50-6593     TCGA-50-6594     TCGA-50-6595     TCGA-50-6597 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-50-6673     TCGA-50-7109     TCGA-50-8457     TCGA-50-8459 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-50-8460     TCGA-53-7624     TCGA-53-7626     TCGA-53-7813 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-53-A4EZ     TCGA-55-5899     TCGA-55-6543     TCGA-55-6642 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-55-6712     TCGA-55-6968     TCGA-55-6969     TCGA-55-6970 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-55-6971     TCGA-55-6972     TCGA-55-6978     TCGA-55-6979 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-55-6980     TCGA-55-6981     TCGA-55-6982     TCGA-55-6983 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-55-6984     TCGA-55-6985     TCGA-55-6986     TCGA-55-6987 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-55-7227     TCGA-55-7281     TCGA-55-7283     TCGA-55-7284 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-55-7570     TCGA-55-7573     TCGA-55-7574     TCGA-55-7576 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-55-7724     TCGA-55-7726     TCGA-55-7727     TCGA-55-7728 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-55-7815     TCGA-55-7816     TCGA-55-7903     TCGA-55-7907 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-55-7910     TCGA-55-7911     TCGA-55-7913     TCGA-55-7914 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-55-7994     TCGA-55-8085     TCGA-55-8087     TCGA-55-8089 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-55-8090     TCGA-55-8091     TCGA-55-8092     TCGA-55-8094 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-55-8096     TCGA-55-8203     TCGA-55-8204     TCGA-55-8205 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-55-8206     TCGA-55-8208     TCGA-55-8299     TCGA-55-8301 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-55-8302     TCGA-55-8505     TCGA-55-8506     TCGA-55-8507 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-55-8508     TCGA-55-8510     TCGA-55-8511     TCGA-55-8512 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-55-8513     TCGA-55-8514     TCGA-55-8614     TCGA-55-8615 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-55-8616     TCGA-55-8619     TCGA-55-8620     TCGA-55-8621 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-55-A48X     TCGA-55-A48Y     TCGA-55-A48Z     TCGA-55-A490 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-55-A491     TCGA-55-A492     TCGA-55-A493     TCGA-55-A494 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-55-A4DF     TCGA-55-A4DG     TCGA-62-8394     TCGA-62-8395 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-62-8397     TCGA-62-8398     TCGA-62-8399     TCGA-62-8402 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-62-A46O     TCGA-62-A46P     TCGA-62-A46R     TCGA-62-A46S 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-62-A46U     TCGA-62-A46V     TCGA-62-A46Y     TCGA-62-A470 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-62-A471     TCGA-62-A472     TCGA-64-1679     TCGA-64-1681 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-64-5774     TCGA-64-5775     TCGA-64-5778     TCGA-64-5779 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-64-5781     TCGA-64-5815     TCGA-67-6215     TCGA-67-6216 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-67-6217     TCGA-69-7760     TCGA-69-7765     TCGA-69-7973 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-69-7974     TCGA-69-7978     TCGA-69-7979     TCGA-69-7980 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-69-8253     TCGA-69-8254     TCGA-69-8255     TCGA-69-A59K 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-71-6725     TCGA-71-8520     TCGA-73-4658     TCGA-73-4676 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-73-7498     TCGA-73-7499     TCGA-75-5122     TCGA-75-5125 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-75-5126     TCGA-75-5146     TCGA-75-5147     TCGA-75-6203 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-75-6205     TCGA-75-6206     TCGA-75-6207     TCGA-75-6211 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-75-6212     TCGA-75-6214     TCGA-75-7025     TCGA-75-7027 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-75-7030     TCGA-75-7031     TCGA-78-7143     TCGA-78-7145 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-78-7146     TCGA-78-7147     TCGA-78-7148     TCGA-78-7149 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-78-7150     TCGA-78-7152     TCGA-78-7154     TCGA-78-7155 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-78-7156     TCGA-78-7159     TCGA-78-7160     TCGA-78-7161 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-78-7163     TCGA-78-7166     TCGA-78-7167     TCGA-78-7220 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-78-7535     TCGA-78-7536     TCGA-78-7537     TCGA-78-7539 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-78-7540     TCGA-78-7542     TCGA-78-7633     TCGA-78-8640 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-78-8648     TCGA-78-8655     TCGA-78-8660     TCGA-78-8662 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-80-5607     TCGA-80-5608     TCGA-80-5611     TCGA-83-5908 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-86-6562     TCGA-86-6851     TCGA-86-7701     TCGA-86-7711 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-86-7713     TCGA-86-7714     TCGA-86-7953     TCGA-86-7954 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-86-7955     TCGA-86-8054     TCGA-86-8055     TCGA-86-8056 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-86-8073     TCGA-86-8074     TCGA-86-8075     TCGA-86-8076 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-86-8278     TCGA-86-8279     TCGA-86-8280     TCGA-86-8281 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-86-8358     TCGA-86-8359     TCGA-86-8585     TCGA-86-8668 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-86-8669     TCGA-86-8671     TCGA-86-8672     TCGA-86-8673 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-86-8674     TCGA-86-A456     TCGA-86-A4JF     TCGA-86-A4P7 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-86-A4P8     TCGA-91-6828     TCGA-91-6829     TCGA-91-6830 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-91-6831     TCGA-91-6835     TCGA-91-6836     TCGA-91-6840 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-91-6847     TCGA-91-6848     TCGA-91-6849     TCGA-91-7771 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-91-8496     TCGA-91-8497     TCGA-91-8499     TCGA-91-A4BC 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-91-A4BD     TCGA-93-7347     TCGA-93-7348     TCGA-93-A4JN 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-93-A4JO     TCGA-93-A4JP     TCGA-93-A4JQ     TCGA-95-7039 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-95-7043     TCGA-95-7562     TCGA-95-7944     TCGA-95-7947 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-95-7948     TCGA-95-8039     TCGA-95-8494     TCGA-95-A4VK 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-95-A4VN     TCGA-95-A4VP     TCGA-97-7546     TCGA-97-7547 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-97-7552     TCGA-97-7553     TCGA-97-7554     TCGA-97-7937 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-97-7938     TCGA-97-7941     TCGA-97-8171     TCGA-97-8172 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-97-8174     TCGA-97-8175     TCGA-97-8176     TCGA-97-8177 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-97-8179     TCGA-97-8547     TCGA-97-8552     TCGA-97-A4LX 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-97-A4M0     TCGA-97-A4M1     TCGA-97-A4M2     TCGA-97-A4M3 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-97-A4M5     TCGA-97-A4M6     TCGA-97-A4M7     TCGA-99-7458 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-99-8025     TCGA-99-8028     TCGA-99-8032     TCGA-99-8033 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-J2-8192     TCGA-J2-8194     TCGA-J2-A4AD     TCGA-J2-A4AE 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-J2-A4AG     TCGA-L4-A4E5     TCGA-L4-A4E6     TCGA-L9-A443 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-L9-A444     TCGA-MN-A4N1     TCGA-MN-A4N4     TCGA-MN-A4N5 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-MP-A4SV     TCGA-MP-A4SW     TCGA-MP-A4SY     TCGA-MP-A4T2 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-MP-A4T4     TCGA-MP-A4T6     TCGA-MP-A4T7     TCGA-MP-A4T8 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-MP-A4T9     TCGA-MP-A4TA     TCGA-MP-A4TC     TCGA-MP-A4TD 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-MP-A4TE     TCGA-MP-A4TF     TCGA-MP-A4TH     TCGA-MP-A4TI 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-MP-A4TK     TCGA-MP-A5C7     TCGA-NJ-A4YF     TCGA-NJ-A4YG 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-NJ-A4YI     TCGA-NJ-A4YP     TCGA-NJ-A4YQ     TCGA-NJ-A55A 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 
    TCGA-NJ-A55O     TCGA-NJ-A55R     TCGA-O1-A52J 
"SIP1 WILD-TYPE" "SIP1 WILD-TYPE" "SIP1 WILD-TYPE" 

Clustering(29) Variable = SLC4A3 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SLC4A3 MUTATED        1      0      0
  SLC4A3 WILD-TYPE      7      8      4
D29V1, 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
D29V2, 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        6      8      2      2
  SLC4A3 WILD-TYPE    152    119    121     68
D29V3, multiclass
        clus
vv       SLC4A3 MUTATED SLC4A3 WILD-TYPE
  CLUS_1              6              152
  CLUS_2              8              119
  CLUS_3              2              121
  CLUS_4              2               68
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        8      8      2
  SLC4A3 WILD-TYPE    138    159    115
D29V4, multiclass
        clus
vv       SLC4A3 MUTATED SLC4A3 WILD-TYPE
  CLUS_1              8              138
  CLUS_2              8              159
  CLUS_3              2              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
  SLC4A3 MUTATED        5      1      1      6      2
  SLC4A3 WILD-TYPE     84     21     58     59     99
D29V5, multiclass
        clus
vv       SLC4A3 MUTATED SLC4A3 WILD-TYPE
  CLUS_1              5               84
  CLUS_2              1               21
  CLUS_3              1               58
  CLUS_4              6               59
  CLUS_5              2               99
[1] 5 2
[1] TRUE
[1] "dimension of contingency table 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        6      9      0
  SLC4A3 WILD-TYPE    150    112     59
D29V6, multiclass
        clus
vv       SLC4A3 MUTATED SLC4A3 WILD-TYPE
  CLUS_1              6              150
  CLUS_2              9              112
  CLUS_3              0               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
  SLC4A3 MUTATED       10      1      3      4      0
  SLC4A3 WILD-TYPE    117    108     83    101     51
D29V7, multiclass
        clus
vv       SLC4A3 MUTATED SLC4A3 WILD-TYPE
  CLUS_1             10              117
  CLUS_2              1              108
  CLUS_3              3               83
  CLUS_4              4              101
  CLUS_5              0               51
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will 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
D29V8, 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    167    193     98
D29V9, multiclass
        clus
vv       SLC4A3 MUTATED SLC4A3 WILD-TYPE
  CLUS_1              5              167
  CLUS_2             12              193
  CLUS_3              1               98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SLC4A3 MUTATED        2      0      9      3      3      1
  SLC4A3 WILD-TYPE     68     37    126    117     83     27
D29V10, multiclass
        clus
vv       SLC4A3 MUTATED SLC4A3 WILD-TYPE
  CLUS_1              2               68
  CLUS_2              0               37
  CLUS_3              9              126
  CLUS_4              3              117
  CLUS_5              3               83
  CLUS_6              1               27
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SLC4A3 MUTATED        1      5      1      0      3      7
  SLC4A3 WILD-TYPE     54     80     96     42     57     66
D29V11, multiclass
        clus
vv       SLC4A3 MUTATED SLC4A3 WILD-TYPE
  CLUS_1              1               54
  CLUS_2              5               80
  CLUS_3              1               96
  CLUS_4              0               42
  CLUS_5              3               57
  CLUS_6              7               66
[1] 6 2
[1] TRUE
[1] "dimension of contingency table 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     14      1
  SLC4A3 WILD-TYPE     94    208     93
D29V12, multiclass
        clus
vv       SLC4A3 MUTATED SLC4A3 WILD-TYPE
  CLUS_1              2               94
  CLUS_2             14              208
  CLUS_3              1               93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(30) Variable = STK19 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  STK19 MUTATED        0      0      0
  STK19 WILD-TYPE      8      8      4
D30V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  STK19 MUTATED        0      0      0
  STK19 WILD-TYPE      7      9      4
D30V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  STK19 MUTATED        2      1      1      1
  STK19 WILD-TYPE    156    126    122     69
D30V3, multiclass
        clus
vv       STK19 MUTATED STK19 WILD-TYPE
  CLUS_1             2             156
  CLUS_2             1             126
  CLUS_3             1             122
  CLUS_4             1              69
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        2      2      1
  STK19 WILD-TYPE    144    165    116
D30V4, multiclass
        clus
vv       STK19 MUTATED STK19 WILD-TYPE
  CLUS_1             2             144
  CLUS_2             2             165
  CLUS_3             1             116
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  STK19 MUTATED        1      0      0      0      2
  STK19 WILD-TYPE     88     22     59     65     99
D30V5, multiclass
        clus
vv       STK19 MUTATED STK19 WILD-TYPE
  CLUS_1             1              88
  CLUS_2             0              22
  CLUS_3             0              59
  CLUS_4             0              65
  CLUS_5             2              99
[1] 5 2
[1] TRUE
[1] "dimension of contingency table 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      1      1
  STK19 WILD-TYPE    155    120     58
D30V6, multiclass
        clus
vv       STK19 MUTATED STK19 WILD-TYPE
  CLUS_1             1             155
  CLUS_2             1             120
  CLUS_3             1              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
  STK19 MUTATED        2      1      1      0      1
  STK19 WILD-TYPE    125    108     85    105     50
D30V7, multiclass
        clus
vv       STK19 MUTATED STK19 WILD-TYPE
  CLUS_1             2             125
  CLUS_2             1             108
  CLUS_3             1              85
  CLUS_4             0             105
  CLUS_5             1              50
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will 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
D30V8, 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      2      2
  STK19 WILD-TYPE    171    203     97
D30V9, multiclass
        clus
vv       STK19 MUTATED STK19 WILD-TYPE
  CLUS_1             1             171
  CLUS_2             2             203
  CLUS_3             2              97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  STK19 MUTATED        0      0      3      2      0      0
  STK19 WILD-TYPE     70     37    132    118     86     28
D30V10, multiclass
        clus
vv       STK19 MUTATED STK19 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             0              37
  CLUS_3             3             132
  CLUS_4             2             118
  CLUS_5             0              86
  CLUS_6             0              28
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  STK19 MUTATED        1      2      0      0      0      2
  STK19 WILD-TYPE     54     83     97     42     60     71
D30V11, multiclass
        clus
vv       STK19 MUTATED STK19 WILD-TYPE
  CLUS_1             1              54
  CLUS_2             2              83
  CLUS_3             0              97
  CLUS_4             0              42
  CLUS_5             0              60
  CLUS_6             2              71
[1] 6 2
[1] TRUE
[1] "dimension of contingency table 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     95    218     94
D30V12, multiclass
        clus
vv       STK19 MUTATED STK19 WILD-TYPE
  CLUS_1             1              95
  CLUS_2             4             218
  CLUS_3             0              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"

Clustering(31) Variable = NUDT11 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  NUDT11 MUTATED        0      0      0
  NUDT11 WILD-TYPE      8      8      4
D31V1, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  NUDT11 MUTATED        0      0      0
  NUDT11 WILD-TYPE      7      9      4
D31V2, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NUDT11 MUTATED        1      0      2      2
  NUDT11 WILD-TYPE    157    127    121     68
D31V3, multiclass
        clus
vv       NUDT11 MUTATED NUDT11 WILD-TYPE
  CLUS_1              1              157
  CLUS_2              0              127
  CLUS_3              2              121
  CLUS_4              2               68
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  NUDT11 MUTATED        2      2      1
  NUDT11 WILD-TYPE    144    165    116
D31V4, multiclass
        clus
vv       NUDT11 MUTATED NUDT11 WILD-TYPE
  CLUS_1              2              144
  CLUS_2              2              165
  CLUS_3              1              116
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NUDT11 MUTATED        1      0      2      0      1
  NUDT11 WILD-TYPE     88     22     57     65    100
D31V5, multiclass
        clus
vv       NUDT11 MUTATED NUDT11 WILD-TYPE
  CLUS_1              1               88
  CLUS_2              0               22
  CLUS_3              2               57
  CLUS_4              0               65
  CLUS_5              1              100
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  NUDT11 MUTATED        2      1      1
  NUDT11 WILD-TYPE    154    120     58
D31V6, multiclass
        clus
vv       NUDT11 MUTATED NUDT11 WILD-TYPE
  CLUS_1              2              154
  CLUS_2              1              120
  CLUS_3              1               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
  NUDT11 MUTATED        1      1      0      0      2
  NUDT11 WILD-TYPE    126    108     86    105     49
D31V7, multiclass
        clus
vv       NUDT11 MUTATED NUDT11 WILD-TYPE
  CLUS_1              1              126
  CLUS_2              1              108
  CLUS_3              0               86
  CLUS_4              0              105
  CLUS_5              2               49
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  NUDT11 MUTATED        0      1      0      1      0      0      2
  NUDT11 WILD-TYPE     72    108     90     43     49     46     66
D31V8, multiclass
        clus
vv       NUDT11 MUTATED NUDT11 WILD-TYPE
  CLUS_1              0               72
  CLUS_2              1              108
  CLUS_3              0               90
  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
  NUDT11 MUTATED        4      0      1
  NUDT11 WILD-TYPE    168    205     98
D31V9, multiclass
        clus
vv       NUDT11 MUTATED NUDT11 WILD-TYPE
  CLUS_1              4              168
  CLUS_2              0              205
  CLUS_3              1               98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  NUDT11 MUTATED        2      0      1      2      0      0
  NUDT11 WILD-TYPE     68     37    134    118     86     28
D31V10, multiclass
        clus
vv       NUDT11 MUTATED NUDT11 WILD-TYPE
  CLUS_1              2               68
  CLUS_2              0               37
  CLUS_3              1              134
  CLUS_4              2              118
  CLUS_5              0               86
  CLUS_6              0               28
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  NUDT11 MUTATED        1      0      1      0      1      1
  NUDT11 WILD-TYPE     54     85     96     42     59     72
D31V11, multiclass
        clus
vv       NUDT11 MUTATED NUDT11 WILD-TYPE
  CLUS_1              1               54
  CLUS_2              0               85
  CLUS_3              1               96
  CLUS_4              0               42
  CLUS_5              1               59
  CLUS_6              1               72
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  NUDT11 MUTATED        2      0      2
  NUDT11 WILD-TYPE     94    222     92
D31V12, multiclass
        clus
vv       NUDT11 MUTATED NUDT11 WILD-TYPE
  CLUS_1              2               94
  CLUS_2              0              222
  CLUS_3              2               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"

Clustering(32) Variable = SLAMF9 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SLAMF9 MUTATED        0      1      1
  SLAMF9 WILD-TYPE      8      7      3
D32V1, 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
D32V2, 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        7      3      0      2
  SLAMF9 WILD-TYPE    151    124    123     68
D32V3, multiclass
        clus
vv       SLAMF9 MUTATED SLAMF9 WILD-TYPE
  CLUS_1              7              151
  CLUS_2              3              124
  CLUS_3              0              123
  CLUS_4              2               68
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        6      5      0
  SLAMF9 WILD-TYPE    140    162    117
D32V4, multiclass
        clus
vv       SLAMF9 MUTATED SLAMF9 WILD-TYPE
  CLUS_1              6              140
  CLUS_2              5              162
  CLUS_3              0              117
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLAMF9 MUTATED        4      0      2      3      3
  SLAMF9 WILD-TYPE     85     22     57     62     98
D32V5, multiclass
        clus
vv       SLAMF9 MUTATED SLAMF9 WILD-TYPE
  CLUS_1              4               85
  CLUS_2              0               22
  CLUS_3              2               57
  CLUS_4              3               62
  CLUS_5              3               98
[1] 5 2
[1] TRUE
[1] "dimension of contingency table 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        6      4      2
  SLAMF9 WILD-TYPE    150    117     57
D32V6, multiclass
        clus
vv       SLAMF9 MUTATED SLAMF9 WILD-TYPE
  CLUS_1              6              150
  CLUS_2              4              117
  CLUS_3              2               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
  SLAMF9 MUTATED        6      0      2      4      0
  SLAMF9 WILD-TYPE    121    109     84    101     51
D32V7, multiclass
        clus
vv       SLAMF9 MUTATED SLAMF9 WILD-TYPE
  CLUS_1              6              121
  CLUS_2              0              109
  CLUS_3              2               84
  CLUS_4              4              101
  CLUS_5              0               51
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will 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
D32V8, 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    171    197     96
D32V9, multiclass
        clus
vv       SLAMF9 MUTATED SLAMF9 WILD-TYPE
  CLUS_1              1              171
  CLUS_2              8              197
  CLUS_3              3               96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SLAMF9 MUTATED        0      0      8      0      3      1
  SLAMF9 WILD-TYPE     70     37    127    120     83     27
D32V10, multiclass
        clus
vv       SLAMF9 MUTATED SLAMF9 WILD-TYPE
  CLUS_1              0               70
  CLUS_2              0               37
  CLUS_3              8              127
  CLUS_4              0              120
  CLUS_5              3               83
  CLUS_6              1               27
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SLAMF9 MUTATED        0      4      3      1      1      1
  SLAMF9 WILD-TYPE     55     81     94     41     59     72
D32V11, multiclass
        clus
vv       SLAMF9 MUTATED SLAMF9 WILD-TYPE
  CLUS_1              0               55
  CLUS_2              4               81
  CLUS_3              3               94
  CLUS_4              1               41
  CLUS_5              1               59
  CLUS_6              1               72
[1] 6 2
[1] TRUE
[1] "dimension of contingency table 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     95    215     92
D32V12, multiclass
        clus
vv       SLAMF9 MUTATED SLAMF9 WILD-TYPE
  CLUS_1              1               95
  CLUS_2              7              215
  CLUS_3              2               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"

Clustering(33) Variable = DNMT3A MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  DNMT3A MUTATED        0      0      0
  DNMT3A WILD-TYPE      8      8      4
D33V1, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  DNMT3A MUTATED        0      0      0
  DNMT3A WILD-TYPE      7      9      4
D33V2, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DNMT3A MUTATED        5      9      2      3
  DNMT3A WILD-TYPE    153    118    121     67
D33V3, multiclass
        clus
vv       DNMT3A MUTATED DNMT3A WILD-TYPE
  CLUS_1              5              153
  CLUS_2              9              118
  CLUS_3              2              121
  CLUS_4              3               67
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        9      5      5
  DNMT3A WILD-TYPE    137    162    112
D33V4, multiclass
        clus
vv       DNMT3A MUTATED DNMT3A WILD-TYPE
  CLUS_1              9              137
  CLUS_2              5              162
  CLUS_3              5              112
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DNMT3A MUTATED        3      1      0      2      4
  DNMT3A WILD-TYPE     86     21     59     63     97
D33V5, multiclass
        clus
vv       DNMT3A MUTATED DNMT3A WILD-TYPE
  CLUS_1              3               86
  CLUS_2              1               21
  CLUS_3              0               59
  CLUS_4              2               63
  CLUS_5              4               97
[1] 5 2
[1] TRUE
[1] "dimension of contingency table 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        3      6      1
  DNMT3A WILD-TYPE    153    115     58
D33V6, multiclass
        clus
vv       DNMT3A MUTATED DNMT3A WILD-TYPE
  CLUS_1              3              153
  CLUS_2              6              115
  CLUS_3              1               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
  DNMT3A MUTATED        5      3      7      4      0
  DNMT3A WILD-TYPE    122    106     79    101     51
D33V7, multiclass
        clus
vv       DNMT3A MUTATED DNMT3A WILD-TYPE
  CLUS_1              5              122
  CLUS_2              3              106
  CLUS_3              7               79
  CLUS_4              4              101
  CLUS_5              0               51
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will 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
D33V8, 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    168    194     95
D33V9, multiclass
        clus
vv       DNMT3A MUTATED DNMT3A WILD-TYPE
  CLUS_1              4              168
  CLUS_2             11              194
  CLUS_3              4               95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  DNMT3A MUTATED        2      1      5      4      7      0
  DNMT3A WILD-TYPE     68     36    130    116     79     28
D33V10, multiclass
        clus
vv       DNMT3A MUTATED DNMT3A WILD-TYPE
  CLUS_1              2               68
  CLUS_2              1               36
  CLUS_3              5              130
  CLUS_4              4              116
  CLUS_5              7               79
  CLUS_6              0               28
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  DNMT3A MUTATED        0      5      3      1      3      6
  DNMT3A WILD-TYPE     55     80     94     41     57     67
D33V11, multiclass
        clus
vv       DNMT3A MUTATED DNMT3A WILD-TYPE
  CLUS_1              0               55
  CLUS_2              5               80
  CLUS_3              3               94
  CLUS_4              1               41
  CLUS_5              3               57
  CLUS_6              6               67
[1] 6 2
[1] TRUE
[1] "dimension of contingency table 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     15      2
  DNMT3A WILD-TYPE     95    207     92
D33V12, multiclass
        clus
vv       DNMT3A MUTATED DNMT3A WILD-TYPE
  CLUS_1              1               95
  CLUS_2             15              207
  CLUS_3              2               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"

Clustering(34) Variable = CTNNB1 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CTNNB1 MUTATED        1      0      1
  CTNNB1 WILD-TYPE      7      8      3
D34V1, 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
D34V2, 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        3      2      8      6
  CTNNB1 WILD-TYPE    155    125    115     64
D34V3, multiclass
        clus
vv       CTNNB1 MUTATED CTNNB1 WILD-TYPE
  CLUS_1              3              155
  CLUS_2              2              125
  CLUS_3              8              115
  CLUS_4              6               64
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CTNNB1 MUTATED        7      8      1
  CTNNB1 WILD-TYPE    139    159    116
D34V4, multiclass
        clus
vv       CTNNB1 MUTATED CTNNB1 WILD-TYPE
  CLUS_1              7              139
  CLUS_2              8              159
  CLUS_3              1              116
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CTNNB1 MUTATED        1      1      6      1      2
  CTNNB1 WILD-TYPE     88     21     53     64     99
D34V5, multiclass
        clus
vv       CTNNB1 MUTATED CTNNB1 WILD-TYPE
  CLUS_1              1               88
  CLUS_2              1               21
  CLUS_3              6               53
  CLUS_4              1               64
  CLUS_5              2               99
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CTNNB1 MUTATED        8      2      1
  CTNNB1 WILD-TYPE    148    119     58
D34V6, multiclass
        clus
vv       CTNNB1 MUTATED CTNNB1 WILD-TYPE
  CLUS_1              8              148
  CLUS_2              2              119
  CLUS_3              1               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
  CTNNB1 MUTATED        4      5      1      8      1
  CTNNB1 WILD-TYPE    123    104     85     97     50
D34V7, multiclass
        clus
vv       CTNNB1 MUTATED CTNNB1 WILD-TYPE
  CLUS_1              4              123
  CLUS_2              5              104
  CLUS_3              1               85
  CLUS_4              8               97
  CLUS_5              1               50
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will 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
D34V8, 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        7      9      3
  CTNNB1 WILD-TYPE    165    196     96
D34V9, multiclass
        clus
vv       CTNNB1 MUTATED CTNNB1 WILD-TYPE
  CLUS_1              7              165
  CLUS_2              9              196
  CLUS_3              3               96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CTNNB1 MUTATED        3      0      6      4      5      1
  CTNNB1 WILD-TYPE     67     37    129    116     81     27
D34V10, multiclass
        clus
vv       CTNNB1 MUTATED CTNNB1 WILD-TYPE
  CLUS_1              3               67
  CLUS_2              0               37
  CLUS_3              6              129
  CLUS_4              4              116
  CLUS_5              5               81
  CLUS_6              1               27
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CTNNB1 MUTATED        1      1      1      2      2      4
  CTNNB1 WILD-TYPE     54     84     96     40     58     69
D34V11, multiclass
        clus
vv       CTNNB1 MUTATED CTNNB1 WILD-TYPE
  CLUS_1              1               54
  CLUS_2              1               84
  CLUS_3              1               96
  CLUS_4              2               40
  CLUS_5              2               58
  CLUS_6              4               69
[1] 6 2
[1] TRUE
[1] "dimension of contingency table 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      6      2
  CTNNB1 WILD-TYPE     93    216     92
D34V12, multiclass
        clus
vv       CTNNB1 MUTATED CTNNB1 WILD-TYPE
  CLUS_1              3               93
  CLUS_2              6              216
  CLUS_3              2               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"

Clustering(35) Variable = PTPRU MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PTPRU MUTATED        0      0      1
  PTPRU WILD-TYPE      8      8      3
D35V1, 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
D35V2, 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        9      7      0      2
  PTPRU WILD-TYPE    149    120    123     68
D35V3, multiclass
        clus
vv       PTPRU MUTATED PTPRU WILD-TYPE
  CLUS_1             9             149
  CLUS_2             7             120
  CLUS_3             0             123
  CLUS_4             2              68
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        5      8      1
  PTPRU WILD-TYPE    141    159    116
D35V4, multiclass
        clus
vv       PTPRU MUTATED PTPRU WILD-TYPE
  CLUS_1             5             141
  CLUS_2             8             159
  CLUS_3             1             116
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PTPRU MUTATED        3      3      2      5      2
  PTPRU WILD-TYPE     86     19     57     60     99
D35V5, multiclass
        clus
vv       PTPRU MUTATED PTPRU WILD-TYPE
  CLUS_1             3              86
  CLUS_2             3              19
  CLUS_3             2              57
  CLUS_4             5              60
  CLUS_5             2              99
[1] 5 2
[1] TRUE
[1] "dimension of contingency table 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        5     10      0
  PTPRU WILD-TYPE    151    111     59
D35V6, multiclass
        clus
vv       PTPRU MUTATED PTPRU WILD-TYPE
  CLUS_1             5             151
  CLUS_2            10             111
  CLUS_3             0              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
  PTPRU MUTATED        9      1      1      6      1
  PTPRU WILD-TYPE    118    108     85     99     50
D35V7, multiclass
        clus
vv       PTPRU MUTATED PTPRU WILD-TYPE
  CLUS_1             9             118
  CLUS_2             1             108
  CLUS_3             1              85
  CLUS_4             6              99
  CLUS_5             1              50
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will 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
D35V8, 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    171    191     97
D35V9, multiclass
        clus
vv       PTPRU MUTATED PTPRU WILD-TYPE
  CLUS_1             1             171
  CLUS_2            14             191
  CLUS_3             2              97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PTPRU MUTATED        0      0     11      1      5      0
  PTPRU WILD-TYPE     70     37    124    119     81     28
D35V10, multiclass
        clus
vv       PTPRU MUTATED PTPRU WILD-TYPE
  CLUS_1             0              70
  CLUS_2             0              37
  CLUS_3            11             124
  CLUS_4             1             119
  CLUS_5             5              81
  CLUS_6             0              28
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PTPRU MUTATED        0      5      1      1      2      4
  PTPRU WILD-TYPE     55     80     96     41     58     69
D35V11, multiclass
        clus
vv       PTPRU MUTATED PTPRU WILD-TYPE
  CLUS_1             0              55
  CLUS_2             5              80
  CLUS_3             1              96
  CLUS_4             1              41
  CLUS_5             2              58
  CLUS_6             4              69
[1] 6 2
[1] TRUE
[1] "dimension of contingency table 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     95    211     93
D35V12, multiclass
        clus
vv       PTPRU MUTATED PTPRU WILD-TYPE
  CLUS_1             1              95
  CLUS_2            11             211
  CLUS_3             1              93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(36) Variable = PIK3CA MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PIK3CA MUTATED        0      1      1
  PIK3CA WILD-TYPE      8      7      3
D36V1, 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
D36V2, 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        8     10      8      2
  PIK3CA WILD-TYPE    150    117    115     68
D36V3, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1              8              150
  CLUS_2             10              117
  CLUS_3              8              115
  CLUS_4              2               68
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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      6     10
  PIK3CA WILD-TYPE    137    161    107
D36V4, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1              9              137
  CLUS_2              6              161
  CLUS_3             10              107
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PIK3CA MUTATED        2      2      2      5     10
  PIK3CA WILD-TYPE     87     20     57     60     91
D36V5, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1              2               87
  CLUS_2              2               20
  CLUS_3              2               57
  CLUS_4              5               60
  CLUS_5             10               91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PIK3CA MUTATED        7      7      7
  PIK3CA WILD-TYPE    149    114     52
D36V6, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1              7              149
  CLUS_2              7              114
  CLUS_3              7               52
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PIK3CA MUTATED        4      5     10      3      6
  PIK3CA WILD-TYPE    123    104     76    102     45
D36V7, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1              4              123
  CLUS_2              5              104
  CLUS_3             10               76
  CLUS_4              3              102
  CLUS_5              6               45
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will 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
D36V8, 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     12      7
  PIK3CA WILD-TYPE    163    193     92
D36V9, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1              9              163
  CLUS_2             12              193
  CLUS_3              7               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
  PIK3CA MUTATED        1      0      8      9      6      4
  PIK3CA WILD-TYPE     69     37    127    111     80     24
D36V10, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1              1               69
  CLUS_2              0               37
  CLUS_3              8              127
  CLUS_4              9              111
  CLUS_5              6               80
  CLUS_6              4               24
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PIK3CA MUTATED        2      1     10      3      2      5
  PIK3CA WILD-TYPE     53     84     87     39     58     68
D36V11, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1              2               53
  CLUS_2              1               84
  CLUS_3             10               87
  CLUS_4              3               39
  CLUS_5              2               58
  CLUS_6              5               68
[1] 6 2
[1] TRUE
[1] "dimension of contingency table 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     94    208     87
D36V12, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1              2               94
  CLUS_2             14              208
  CLUS_3              7               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"

Clustering(37) Variable = ZNF608 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF608 MUTATED        0      0      0
  ZNF608 WILD-TYPE      8      8      4
D37V1, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF608 MUTATED        0      0      0
  ZNF608 WILD-TYPE      7      9      4
D37V2, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZNF608 MUTATED        1      3      3      2
  ZNF608 WILD-TYPE    157    124    120     68
D37V3, multiclass
        clus
vv       ZNF608 MUTATED ZNF608 WILD-TYPE
  CLUS_1              1              157
  CLUS_2              3              124
  CLUS_3              3              120
  CLUS_4              2               68
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        4      2      3
  ZNF608 WILD-TYPE    142    165    114
D37V4, multiclass
        clus
vv       ZNF608 MUTATED ZNF608 WILD-TYPE
  CLUS_1              4              142
  CLUS_2              2              165
  CLUS_3              3              114
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF608 MUTATED        0      0      0      1      4
  ZNF608 WILD-TYPE     89     22     59     64     97
D37V5, multiclass
        clus
vv       ZNF608 MUTATED ZNF608 WILD-TYPE
  CLUS_1              0               89
  CLUS_2              0               22
  CLUS_3              0               59
  CLUS_4              1               64
  CLUS_5              4               97
[1] 5 2
[1] TRUE
[1] "dimension of contingency table 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      2      1
  ZNF608 WILD-TYPE    154    119     58
D37V6, multiclass
        clus
vv       ZNF608 MUTATED ZNF608 WILD-TYPE
  CLUS_1              2              154
  CLUS_2              2              119
  CLUS_3              1               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
  ZNF608 MUTATED        1      1      2      4      1
  ZNF608 WILD-TYPE    126    108     84    101     50
D37V7, multiclass
        clus
vv       ZNF608 MUTATED ZNF608 WILD-TYPE
  CLUS_1              1              126
  CLUS_2              1              108
  CLUS_3              2               84
  CLUS_4              4              101
  CLUS_5              1               50
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will 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
D37V8, 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      5      2
  ZNF608 WILD-TYPE    170    200     97
D37V9, multiclass
        clus
vv       ZNF608 MUTATED ZNF608 WILD-TYPE
  CLUS_1              2              170
  CLUS_2              5              200
  CLUS_3              2               97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ZNF608 MUTATED        0      1      3      2      3      0
  ZNF608 WILD-TYPE     70     36    132    118     83     28
D37V10, multiclass
        clus
vv       ZNF608 MUTATED ZNF608 WILD-TYPE
  CLUS_1              0               70
  CLUS_2              1               36
  CLUS_3              3              132
  CLUS_4              2              118
  CLUS_5              3               83
  CLUS_6              0               28
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ZNF608 MUTATED        1      6      0      0      1      1
  ZNF608 WILD-TYPE     54     79     97     42     59     72
D37V11, multiclass
        clus
vv       ZNF608 MUTATED ZNF608 WILD-TYPE
  CLUS_1              1               54
  CLUS_2              6               79
  CLUS_3              0               97
  CLUS_4              0               42
  CLUS_5              1               59
  CLUS_6              1               72
[1] 6 2
[1] TRUE
[1] "dimension of contingency table 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     94    215     94
D37V12, multiclass
        clus
vv       ZNF608 MUTATED ZNF608 WILD-TYPE
  CLUS_1              2               94
  CLUS_2              7              215
  CLUS_3              0               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"

Clustering(38) Variable = STIM1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  STIM1 MUTATED        1      1      0
  STIM1 WILD-TYPE      7      7      4
D38V1, 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
D38V2, 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        4      1      1      3
  STIM1 WILD-TYPE    154    126    122     67
D38V3, multiclass
        clus
vv       STIM1 MUTATED STIM1 WILD-TYPE
  CLUS_1             4             154
  CLUS_2             1             126
  CLUS_3             1             122
  CLUS_4             3              67
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        4      4      0
  STIM1 WILD-TYPE    142    163    117
D38V4, multiclass
        clus
vv       STIM1 MUTATED STIM1 WILD-TYPE
  CLUS_1             4             142
  CLUS_2             4             163
  CLUS_3             0             117
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  STIM1 MUTATED        2      0      1      2      1
  STIM1 WILD-TYPE     87     22     58     63    100
D38V5, multiclass
        clus
vv       STIM1 MUTATED STIM1 WILD-TYPE
  CLUS_1             2              87
  CLUS_2             0              22
  CLUS_3             1              58
  CLUS_4             2              63
  CLUS_5             1             100
[1] 5 2
[1] TRUE
[1] "dimension of contingency table 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      1
  STIM1 WILD-TYPE    154    118     58
D38V6, multiclass
        clus
vv       STIM1 MUTATED STIM1 WILD-TYPE
  CLUS_1             2             154
  CLUS_2             3             118
  CLUS_3             1              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
  STIM1 MUTATED        6      1      0      2      0
  STIM1 WILD-TYPE    121    108     86    103     51
D38V7, multiclass
        clus
vv       STIM1 MUTATED STIM1 WILD-TYPE
  CLUS_1             6             121
  CLUS_2             1             108
  CLUS_3             0              86
  CLUS_4             2             103
  CLUS_5             0              51
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will 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
D38V8, 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        3      6      0
  STIM1 WILD-TYPE    169    199     99
D38V9, multiclass
        clus
vv       STIM1 MUTATED STIM1 WILD-TYPE
  CLUS_1             3             169
  CLUS_2             6             199
  CLUS_3             0              99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  STIM1 MUTATED        2      0      5      0      2      0
  STIM1 WILD-TYPE     68     37    130    120     84     28
D38V10, multiclass
        clus
vv       STIM1 MUTATED STIM1 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             0              37
  CLUS_3             5             130
  CLUS_4             0             120
  CLUS_5             2              84
  CLUS_6             0              28
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  STIM1 MUTATED        0      3      1      0      1      2
  STIM1 WILD-TYPE     55     82     96     42     59     71
D38V11, multiclass
        clus
vv       STIM1 MUTATED STIM1 WILD-TYPE
  CLUS_1             0              55
  CLUS_2             3              82
  CLUS_3             1              96
  CLUS_4             0              42
  CLUS_5             1              59
  CLUS_6             2              71
[1] 6 2
[1] TRUE
[1] "dimension of contingency table 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     95    217     93
D38V12, multiclass
        clus
vv       STIM1 MUTATED STIM1 WILD-TYPE
  CLUS_1             1              95
  CLUS_2             5             217
  CLUS_3             1              93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(39) Variable = EMG1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  EMG1 MUTATED        3      0      0
  EMG1 WILD-TYPE      5      8      4
D39V1, multiclass
        clus
vv       EMG1 MUTATED EMG1 WILD-TYPE
  CLUS_1            3              5
  CLUS_2            0              8
  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
  EMG1 MUTATED        2      1      0
  EMG1 WILD-TYPE      5      8      4
D39V2, multiclass
        clus
vv       EMG1 MUTATED EMG1 WILD-TYPE
  CLUS_1            2              5
  CLUS_2            1              8
  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
  EMG1 MUTATED        2      0      3      0
  EMG1 WILD-TYPE    156    127    120     70
D39V3, multiclass
        clus
vv       EMG1 MUTATED EMG1 WILD-TYPE
  CLUS_1            2            156
  CLUS_2            0            127
  CLUS_3            3            120
  CLUS_4            0             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
  EMG1 MUTATED        0      2      1
  EMG1 WILD-TYPE    146    165    116
D39V4, multiclass
        clus
vv       EMG1 MUTATED EMG1 WILD-TYPE
  CLUS_1            0            146
  CLUS_2            2            165
  CLUS_3            1            116
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EMG1 MUTATED        2      0      0      0      1
  EMG1 WILD-TYPE     87     22     59     65    100
D39V5, multiclass
        clus
vv       EMG1 MUTATED EMG1 WILD-TYPE
  CLUS_1            2             87
  CLUS_2            0             22
  CLUS_3            0             59
  CLUS_4            0             65
  CLUS_5            1            100
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  EMG1 MUTATED        3      0      0
  EMG1 WILD-TYPE    153    121     59
D39V6, multiclass
        clus
vv       EMG1 MUTATED EMG1 WILD-TYPE
  CLUS_1            3            153
  CLUS_2            0            121
  CLUS_3            0             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
  EMG1 MUTATED        2      3      0      0      0
  EMG1 WILD-TYPE    125    106     86    105     51
D39V7, multiclass
        clus
vv       EMG1 MUTATED EMG1 WILD-TYPE
  CLUS_1            2            125
  CLUS_2            3            106
  CLUS_3            0             86
  CLUS_4            0            105
  CLUS_5            0             51
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  EMG1 MUTATED        3      1      0      0      0      0      1
  EMG1 WILD-TYPE     69    108     90     44     49     46     67
D39V8, multiclass
        clus
vv       EMG1 MUTATED EMG1 WILD-TYPE
  CLUS_1            3             69
  CLUS_2            1            108
  CLUS_3            0             90
  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
  EMG1 MUTATED        4      1      0
  EMG1 WILD-TYPE    168    204     99
D39V9, multiclass
        clus
vv       EMG1 MUTATED EMG1 WILD-TYPE
  CLUS_1            4            168
  CLUS_2            1            204
  CLUS_3            0             99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  EMG1 MUTATED        2      0      1      1      0      1
  EMG1 WILD-TYPE     68     37    134    119     86     27
D39V10, multiclass
        clus
vv       EMG1 MUTATED EMG1 WILD-TYPE
  CLUS_1            2             68
  CLUS_2            0             37
  CLUS_3            1            134
  CLUS_4            1            119
  CLUS_5            0             86
  CLUS_6            1             27
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  EMG1 MUTATED        1      0      0      1      0      0
  EMG1 WILD-TYPE     54     85     97     41     60     73
D39V11, multiclass
[1] "Remove cluster labels:" "EMG1 MUTATED"          
clus
  EMG1 MUTATED EMG1 WILD-TYPE 
             2            410 
    TCGA-05-4384     TCGA-05-4390     TCGA-05-4396     TCGA-05-4405 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-05-4410     TCGA-05-4415     TCGA-05-4417     TCGA-05-4424 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-05-4425     TCGA-05-4427     TCGA-05-4433     TCGA-05-5420 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-05-5423     TCGA-05-5425     TCGA-05-5428     TCGA-05-5429 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-05-5715     TCGA-35-5375     TCGA-38-4631     TCGA-38-4632 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-38-6178     TCGA-38-7271     TCGA-38-A44F     TCGA-44-5643 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-44-5644     TCGA-44-5645     TCGA-44-6144     TCGA-44-6145 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-44-6146     TCGA-44-6147     TCGA-44-6148     TCGA-44-6774 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-44-6775     TCGA-44-6776     TCGA-44-6777     TCGA-44-6778 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-44-6779     TCGA-44-7659     TCGA-44-7660     TCGA-44-7661 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-44-7662     TCGA-44-7667     TCGA-44-7669     TCGA-44-7670 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-44-7671     TCGA-44-7672     TCGA-44-8117     TCGA-44-8119 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-44-8120     TCGA-44-A479     TCGA-44-A47B     TCGA-44-A47F 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-44-A47G     TCGA-44-A4SS     TCGA-44-A4SU     TCGA-49-4487 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-49-4488     TCGA-49-4490     TCGA-49-4512     TCGA-49-4514 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-49-6742     TCGA-49-6743     TCGA-49-6744     TCGA-49-6745 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-49-6761     TCGA-49-6767     TCGA-50-5044     TCGA-50-5045 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-50-5049     TCGA-50-5051     TCGA-50-5055     TCGA-50-5066 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-50-5068     TCGA-50-5072     TCGA-50-5930     TCGA-50-5931 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-50-5932     TCGA-50-5933     TCGA-50-5935     TCGA-50-5936 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-50-5939     TCGA-50-5941     TCGA-50-5942     TCGA-50-5944 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-50-5946     TCGA-50-6590     TCGA-50-6591     TCGA-50-6592 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-50-6593     TCGA-50-6594     TCGA-50-6595     TCGA-50-6597 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-50-6673     TCGA-50-7109     TCGA-50-8457     TCGA-50-8459 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-50-8460     TCGA-53-7624     TCGA-53-7626     TCGA-53-7813 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-53-A4EZ     TCGA-55-5899     TCGA-55-6543     TCGA-55-6642 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-55-6712     TCGA-55-6968     TCGA-55-6969     TCGA-55-6970 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-55-6971     TCGA-55-6972     TCGA-55-6978     TCGA-55-6979 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-55-6980     TCGA-55-6981     TCGA-55-6982     TCGA-55-6983 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-55-6984     TCGA-55-6985     TCGA-55-6986     TCGA-55-6987 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-55-7227     TCGA-55-7281     TCGA-55-7283     TCGA-55-7284 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-55-7570     TCGA-55-7573     TCGA-55-7574     TCGA-55-7576 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-55-7724     TCGA-55-7726     TCGA-55-7727     TCGA-55-7728 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-55-7815     TCGA-55-7816     TCGA-55-7903     TCGA-55-7907 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-55-7910     TCGA-55-7911     TCGA-55-7913     TCGA-55-7914 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-55-7994     TCGA-55-8085     TCGA-55-8087     TCGA-55-8089 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-55-8090     TCGA-55-8091     TCGA-55-8092     TCGA-55-8094 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-55-8096     TCGA-55-8203     TCGA-55-8204     TCGA-55-8205 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-55-8206     TCGA-55-8208     TCGA-55-8299     TCGA-55-8301 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-55-8302     TCGA-55-8505     TCGA-55-8506     TCGA-55-8507 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-55-8508     TCGA-55-8510     TCGA-55-8511     TCGA-55-8512 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-55-8513     TCGA-55-8514     TCGA-55-8614     TCGA-55-8615 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-55-8616     TCGA-55-8619     TCGA-55-8620     TCGA-55-8621 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-55-A48X     TCGA-55-A48Y     TCGA-55-A48Z     TCGA-55-A490 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-55-A491     TCGA-55-A492     TCGA-55-A493     TCGA-55-A494 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-55-A4DF     TCGA-55-A4DG     TCGA-62-8394     TCGA-62-8395 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-62-8397     TCGA-62-8398     TCGA-62-8399     TCGA-62-8402 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-62-A46O     TCGA-62-A46P     TCGA-62-A46R     TCGA-62-A46S 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-62-A46U     TCGA-62-A46V     TCGA-62-A46Y     TCGA-62-A470 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-62-A471     TCGA-62-A472     TCGA-64-1679     TCGA-64-1681 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-64-5774     TCGA-64-5775     TCGA-64-5778     TCGA-64-5779 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-64-5781     TCGA-64-5815     TCGA-67-6215     TCGA-67-6216 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-67-6217     TCGA-69-7760     TCGA-69-7765     TCGA-69-7973 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-69-7974     TCGA-69-7978     TCGA-69-7979     TCGA-69-7980 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-69-8253     TCGA-69-8255     TCGA-69-A59K     TCGA-71-6725 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-71-8520     TCGA-73-4658     TCGA-73-4676     TCGA-73-7498 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-73-7499     TCGA-75-5122     TCGA-75-5125     TCGA-75-5126 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-75-5146     TCGA-75-5147     TCGA-75-6203     TCGA-75-6205 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-75-6206     TCGA-75-6207     TCGA-75-6211     TCGA-75-6212 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-75-6214     TCGA-75-7025     TCGA-75-7027     TCGA-75-7030 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-75-7031     TCGA-78-7143     TCGA-78-7145     TCGA-78-7146 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-78-7147     TCGA-78-7148     TCGA-78-7149     TCGA-78-7150 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-78-7152     TCGA-78-7154     TCGA-78-7155     TCGA-78-7156 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-78-7159     TCGA-78-7160     TCGA-78-7161     TCGA-78-7163 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-78-7166     TCGA-78-7167     TCGA-78-7220     TCGA-78-7535 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-78-7536     TCGA-78-7537     TCGA-78-7539     TCGA-78-7540 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-78-7542     TCGA-78-7633     TCGA-78-8640     TCGA-78-8648 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-78-8655     TCGA-78-8660     TCGA-78-8662     TCGA-80-5608 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-80-5611     TCGA-83-5908     TCGA-86-6562     TCGA-86-6851 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-86-7701     TCGA-86-7711     TCGA-86-7713     TCGA-86-7714 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-86-7953     TCGA-86-7954     TCGA-86-7955     TCGA-86-8054 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-86-8055     TCGA-86-8056     TCGA-86-8073     TCGA-86-8074 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-86-8075     TCGA-86-8076     TCGA-86-8278     TCGA-86-8279 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-86-8280     TCGA-86-8281     TCGA-86-8358     TCGA-86-8359 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-86-8585     TCGA-86-8668     TCGA-86-8669     TCGA-86-8671 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-86-8672     TCGA-86-8673     TCGA-86-8674     TCGA-86-A456 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-86-A4JF     TCGA-86-A4P7     TCGA-86-A4P8     TCGA-91-6828 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-91-6829     TCGA-91-6830     TCGA-91-6831     TCGA-91-6835 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-91-6836     TCGA-91-6840     TCGA-91-6847     TCGA-91-6848 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-91-6849     TCGA-91-7771     TCGA-91-8496     TCGA-91-8497 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-91-8499     TCGA-91-A4BC     TCGA-91-A4BD     TCGA-93-7347 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-93-7348     TCGA-93-A4JN     TCGA-93-A4JO     TCGA-93-A4JP 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-93-A4JQ     TCGA-95-7039     TCGA-95-7043     TCGA-95-7562 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-95-7567     TCGA-95-7944     TCGA-95-7947     TCGA-95-7948 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-95-8039     TCGA-95-8494     TCGA-95-A4VK     TCGA-95-A4VN 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-95-A4VP     TCGA-97-7546     TCGA-97-7547     TCGA-97-7552 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-97-7553     TCGA-97-7554     TCGA-97-7937     TCGA-97-7938 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-97-7941     TCGA-97-8171     TCGA-97-8172     TCGA-97-8174 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-97-8175     TCGA-97-8176     TCGA-97-8177     TCGA-97-8179 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-97-8547     TCGA-97-8552     TCGA-97-A4LX     TCGA-97-A4M0 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-97-A4M1     TCGA-97-A4M2     TCGA-97-A4M3     TCGA-97-A4M5 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-97-A4M6     TCGA-97-A4M7     TCGA-99-7458     TCGA-99-8025 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-99-8028     TCGA-99-8032     TCGA-99-8033     TCGA-J2-8192 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-J2-8194     TCGA-J2-A4AD     TCGA-J2-A4AE     TCGA-J2-A4AG 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-L4-A4E5     TCGA-L4-A4E6     TCGA-L9-A443     TCGA-L9-A444 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-MN-A4N1     TCGA-MN-A4N4     TCGA-MN-A4N5     TCGA-MP-A4SV 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-MP-A4SW     TCGA-MP-A4SY     TCGA-MP-A4T2     TCGA-MP-A4T4 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-MP-A4T6     TCGA-MP-A4T7     TCGA-MP-A4T8     TCGA-MP-A4T9 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-MP-A4TA     TCGA-MP-A4TC     TCGA-MP-A4TD     TCGA-MP-A4TE 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-MP-A4TF     TCGA-MP-A4TH     TCGA-MP-A4TI     TCGA-MP-A4TK 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-MP-A5C7     TCGA-NJ-A4YF     TCGA-NJ-A4YG     TCGA-NJ-A4YI 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-NJ-A4YP     TCGA-NJ-A4YQ     TCGA-NJ-A55A     TCGA-NJ-A55O 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-NJ-A55R     TCGA-O1-A52J 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  EMG1 MUTATED        1      0      1
  EMG1 WILD-TYPE     95    222     93
D39V12, multiclass
[1] "Remove cluster labels:" "EMG1 MUTATED"          
clus
  EMG1 MUTATED EMG1 WILD-TYPE 
             2            410 
    TCGA-05-4384     TCGA-05-4390     TCGA-05-4396     TCGA-05-4405 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-05-4410     TCGA-05-4415     TCGA-05-4417     TCGA-05-4424 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-05-4425     TCGA-05-4427     TCGA-05-4433     TCGA-05-5420 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-05-5423     TCGA-05-5425     TCGA-05-5428     TCGA-05-5429 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-05-5715     TCGA-35-5375     TCGA-38-4631     TCGA-38-4632 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-38-6178     TCGA-38-7271     TCGA-38-A44F     TCGA-44-5643 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-44-5644     TCGA-44-5645     TCGA-44-6144     TCGA-44-6145 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-44-6146     TCGA-44-6147     TCGA-44-6148     TCGA-44-6774 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-44-6775     TCGA-44-6776     TCGA-44-6777     TCGA-44-6778 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-44-6779     TCGA-44-7659     TCGA-44-7660     TCGA-44-7661 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-44-7662     TCGA-44-7667     TCGA-44-7669     TCGA-44-7670 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-44-7671     TCGA-44-7672     TCGA-44-8117     TCGA-44-8119 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-44-8120     TCGA-44-A479     TCGA-44-A47B     TCGA-44-A47F 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-44-A47G     TCGA-44-A4SS     TCGA-44-A4SU     TCGA-49-4487 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-49-4488     TCGA-49-4490     TCGA-49-4512     TCGA-49-4514 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-49-6742     TCGA-49-6743     TCGA-49-6744     TCGA-49-6745 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-49-6761     TCGA-49-6767     TCGA-50-5044     TCGA-50-5045 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-50-5049     TCGA-50-5051     TCGA-50-5055     TCGA-50-5066 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-50-5068     TCGA-50-5072     TCGA-50-5930     TCGA-50-5931 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-50-5932     TCGA-50-5933     TCGA-50-5935     TCGA-50-5936 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-50-5939     TCGA-50-5941     TCGA-50-5942     TCGA-50-5944 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-50-5946     TCGA-50-6590     TCGA-50-6591     TCGA-50-6592 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-50-6593     TCGA-50-6594     TCGA-50-6595     TCGA-50-6597 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-50-6673     TCGA-50-7109     TCGA-50-8457     TCGA-50-8459 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-50-8460     TCGA-53-7624     TCGA-53-7626     TCGA-53-7813 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-53-A4EZ     TCGA-55-5899     TCGA-55-6543     TCGA-55-6642 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-55-6712     TCGA-55-6968     TCGA-55-6969     TCGA-55-6970 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-55-6971     TCGA-55-6972     TCGA-55-6978     TCGA-55-6979 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-55-6980     TCGA-55-6981     TCGA-55-6982     TCGA-55-6983 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-55-6984     TCGA-55-6985     TCGA-55-6986     TCGA-55-6987 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-55-7227     TCGA-55-7281     TCGA-55-7283     TCGA-55-7284 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-55-7570     TCGA-55-7573     TCGA-55-7574     TCGA-55-7576 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-55-7724     TCGA-55-7726     TCGA-55-7727     TCGA-55-7728 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-55-7815     TCGA-55-7816     TCGA-55-7903     TCGA-55-7907 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-55-7910     TCGA-55-7911     TCGA-55-7913     TCGA-55-7914 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-55-7994     TCGA-55-8085     TCGA-55-8087     TCGA-55-8089 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-55-8090     TCGA-55-8091     TCGA-55-8092     TCGA-55-8094 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-55-8096     TCGA-55-8203     TCGA-55-8204     TCGA-55-8205 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-55-8206     TCGA-55-8208     TCGA-55-8299     TCGA-55-8301 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-55-8302     TCGA-55-8505     TCGA-55-8506     TCGA-55-8507 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-55-8508     TCGA-55-8510     TCGA-55-8511     TCGA-55-8512 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-55-8513     TCGA-55-8514     TCGA-55-8614     TCGA-55-8615 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-55-8616     TCGA-55-8619     TCGA-55-8620     TCGA-55-8621 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-55-A48X     TCGA-55-A48Y     TCGA-55-A48Z     TCGA-55-A490 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-55-A491     TCGA-55-A492     TCGA-55-A493     TCGA-55-A494 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-55-A4DF     TCGA-55-A4DG     TCGA-62-8394     TCGA-62-8395 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-62-8397     TCGA-62-8398     TCGA-62-8399     TCGA-62-8402 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-62-A46O     TCGA-62-A46P     TCGA-62-A46R     TCGA-62-A46S 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-62-A46U     TCGA-62-A46V     TCGA-62-A46Y     TCGA-62-A470 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-62-A471     TCGA-62-A472     TCGA-64-1679     TCGA-64-1681 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-64-5774     TCGA-64-5775     TCGA-64-5778     TCGA-64-5779 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-64-5781     TCGA-64-5815     TCGA-67-6215     TCGA-67-6216 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-67-6217     TCGA-69-7760     TCGA-69-7765     TCGA-69-7973 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-69-7974     TCGA-69-7978     TCGA-69-7979     TCGA-69-7980 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-69-8253     TCGA-69-8255     TCGA-69-A59K     TCGA-71-6725 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-71-8520     TCGA-73-4658     TCGA-73-4676     TCGA-73-7498 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-73-7499     TCGA-75-5122     TCGA-75-5125     TCGA-75-5126 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-75-5146     TCGA-75-5147     TCGA-75-6203     TCGA-75-6205 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-75-6206     TCGA-75-6207     TCGA-75-6211     TCGA-75-6212 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-75-6214     TCGA-75-7025     TCGA-75-7027     TCGA-75-7030 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-75-7031     TCGA-78-7143     TCGA-78-7145     TCGA-78-7146 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-78-7147     TCGA-78-7148     TCGA-78-7149     TCGA-78-7150 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-78-7152     TCGA-78-7154     TCGA-78-7155     TCGA-78-7156 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-78-7159     TCGA-78-7160     TCGA-78-7161     TCGA-78-7163 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-78-7166     TCGA-78-7167     TCGA-78-7220     TCGA-78-7535 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-78-7536     TCGA-78-7537     TCGA-78-7539     TCGA-78-7540 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-78-7542     TCGA-78-7633     TCGA-78-8640     TCGA-78-8648 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-78-8655     TCGA-78-8660     TCGA-78-8662     TCGA-80-5608 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-80-5611     TCGA-83-5908     TCGA-86-6562     TCGA-86-6851 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-86-7701     TCGA-86-7711     TCGA-86-7713     TCGA-86-7714 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-86-7953     TCGA-86-7954     TCGA-86-7955     TCGA-86-8054 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-86-8055     TCGA-86-8056     TCGA-86-8073     TCGA-86-8074 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-86-8075     TCGA-86-8076     TCGA-86-8278     TCGA-86-8279 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-86-8280     TCGA-86-8281     TCGA-86-8358     TCGA-86-8359 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-86-8585     TCGA-86-8668     TCGA-86-8669     TCGA-86-8671 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-86-8672     TCGA-86-8673     TCGA-86-8674     TCGA-86-A456 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-86-A4JF     TCGA-86-A4P7     TCGA-86-A4P8     TCGA-91-6828 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-91-6829     TCGA-91-6830     TCGA-91-6831     TCGA-91-6835 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-91-6836     TCGA-91-6840     TCGA-91-6847     TCGA-91-6848 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-91-6849     TCGA-91-7771     TCGA-91-8496     TCGA-91-8497 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-91-8499     TCGA-91-A4BC     TCGA-91-A4BD     TCGA-93-7347 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-93-7348     TCGA-93-A4JN     TCGA-93-A4JO     TCGA-93-A4JP 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-93-A4JQ     TCGA-95-7039     TCGA-95-7043     TCGA-95-7562 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-95-7567     TCGA-95-7944     TCGA-95-7947     TCGA-95-7948 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-95-8039     TCGA-95-8494     TCGA-95-A4VK     TCGA-95-A4VN 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-95-A4VP     TCGA-97-7546     TCGA-97-7547     TCGA-97-7552 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-97-7553     TCGA-97-7554     TCGA-97-7937     TCGA-97-7938 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-97-7941     TCGA-97-8171     TCGA-97-8172     TCGA-97-8174 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-97-8175     TCGA-97-8176     TCGA-97-8177     TCGA-97-8179 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-97-8547     TCGA-97-8552     TCGA-97-A4LX     TCGA-97-A4M0 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-97-A4M1     TCGA-97-A4M2     TCGA-97-A4M3     TCGA-97-A4M5 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-97-A4M6     TCGA-97-A4M7     TCGA-99-7458     TCGA-99-8025 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-99-8028     TCGA-99-8032     TCGA-99-8033     TCGA-J2-8192 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-J2-8194     TCGA-J2-A4AD     TCGA-J2-A4AE     TCGA-J2-A4AG 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-L4-A4E5     TCGA-L4-A4E6     TCGA-L9-A443     TCGA-L9-A444 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-MN-A4N1     TCGA-MN-A4N4     TCGA-MN-A4N5     TCGA-MP-A4SV 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-MP-A4SW     TCGA-MP-A4SY     TCGA-MP-A4T2     TCGA-MP-A4T4 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-MP-A4T6     TCGA-MP-A4T7     TCGA-MP-A4T8     TCGA-MP-A4T9 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-MP-A4TA     TCGA-MP-A4TC     TCGA-MP-A4TD     TCGA-MP-A4TE 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-MP-A4TF     TCGA-MP-A4TH     TCGA-MP-A4TI     TCGA-MP-A4TK 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-MP-A5C7     TCGA-NJ-A4YF     TCGA-NJ-A4YG     TCGA-NJ-A4YI 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-NJ-A4YP     TCGA-NJ-A4YQ     TCGA-NJ-A55A     TCGA-NJ-A55O 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-NJ-A55R     TCGA-O1-A52J 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 

Clustering(40) Variable = PHKA1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PHKA1 MUTATED        0      0      1
  PHKA1 WILD-TYPE      8      8      3
D40V1, 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
D40V2, 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        8      2      0      2
  PHKA1 WILD-TYPE    150    125    123     68
D40V3, multiclass
        clus
vv       PHKA1 MUTATED PHKA1 WILD-TYPE
  CLUS_1             8             150
  CLUS_2             2             125
  CLUS_3             0             123
  CLUS_4             2              68
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        7      3      1
  PHKA1 WILD-TYPE    139    164    116
D40V4, multiclass
        clus
vv       PHKA1 MUTATED PHKA1 WILD-TYPE
  CLUS_1             7             139
  CLUS_2             3             164
  CLUS_3             1             116
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PHKA1 MUTATED        2      1      2      1      5
  PHKA1 WILD-TYPE     87     21     57     64     96
D40V5, multiclass
        clus
vv       PHKA1 MUTATED PHKA1 WILD-TYPE
  CLUS_1             2              87
  CLUS_2             1              21
  CLUS_3             2              57
  CLUS_4             1              64
  CLUS_5             5              96
[1] 5 2
[1] TRUE
[1] "dimension of contingency table 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        5      5      1
  PHKA1 WILD-TYPE    151    116     58
D40V6, multiclass
        clus
vv       PHKA1 MUTATED PHKA1 WILD-TYPE
  CLUS_1             5             151
  CLUS_2             5             116
  CLUS_3             1              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
  PHKA1 MUTATED        5      3      0      4      0
  PHKA1 WILD-TYPE    122    106     86    101     51
D40V7, multiclass
        clus
vv       PHKA1 MUTATED PHKA1 WILD-TYPE
  CLUS_1             5             122
  CLUS_2             3             106
  CLUS_3             0              86
  CLUS_4             4             101
  CLUS_5             0              51
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will 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
D40V8, 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    169    197     98
D40V9, multiclass
        clus
vv       PHKA1 MUTATED PHKA1 WILD-TYPE
  CLUS_1             3             169
  CLUS_2             8             197
  CLUS_3             1              98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PHKA1 MUTATED        1      2      4      1      4      0
  PHKA1 WILD-TYPE     69     35    131    119     82     28
D40V10, multiclass
        clus
vv       PHKA1 MUTATED PHKA1 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             2              35
  CLUS_3             4             131
  CLUS_4             1             119
  CLUS_5             4              82
  CLUS_6             0              28
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PHKA1 MUTATED        0      4      3      0      1      3
  PHKA1 WILD-TYPE     55     81     94     42     59     70
D40V11, multiclass
        clus
vv       PHKA1 MUTATED PHKA1 WILD-TYPE
  CLUS_1             0              55
  CLUS_2             4              81
  CLUS_3             3              94
  CLUS_4             0              42
  CLUS_5             1              59
  CLUS_6             3              70
[1] 6 2
[1] TRUE
[1] "dimension of contingency table 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      9      2
  PHKA1 WILD-TYPE     96    213     92
D40V12, multiclass
        clus
vv       PHKA1 MUTATED PHKA1 WILD-TYPE
  CLUS_1             0              96
  CLUS_2             9             213
  CLUS_3             2              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"

Clustering(41) Variable = PAK1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PAK1 MUTATED        0      0      0
  PAK1 WILD-TYPE      8      8      4
D41V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PAK1 MUTATED        0      0      0
  PAK1 WILD-TYPE      7      9      4
D41V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PAK1 MUTATED        3      3      2      1
  PAK1 WILD-TYPE    155    124    121     69
D41V3, multiclass
        clus
vv       PAK1 MUTATED PAK1 WILD-TYPE
  CLUS_1            3            155
  CLUS_2            3            124
  CLUS_3            2            121
  CLUS_4            1             69
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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      2      3
  PAK1 WILD-TYPE    142    165    114
D41V4, multiclass
        clus
vv       PAK1 MUTATED PAK1 WILD-TYPE
  CLUS_1            4            142
  CLUS_2            2            165
  CLUS_3            3            114
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PAK1 MUTATED        1      1      3      1      1
  PAK1 WILD-TYPE     88     21     56     64    100
D41V5, multiclass
        clus
vv       PAK1 MUTATED PAK1 WILD-TYPE
  CLUS_1            1             88
  CLUS_2            1             21
  CLUS_3            3             56
  CLUS_4            1             64
  CLUS_5            1            100
[1] 5 2
[1] TRUE
[1] "dimension of contingency table 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      2      1
  PAK1 WILD-TYPE    152    119     58
D41V6, multiclass
        clus
vv       PAK1 MUTATED PAK1 WILD-TYPE
  CLUS_1            4            152
  CLUS_2            2            119
  CLUS_3            1             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
  PAK1 MUTATED        1      4      3      1      0
  PAK1 WILD-TYPE    126    105     83    104     51
D41V7, multiclass
        clus
vv       PAK1 MUTATED PAK1 WILD-TYPE
  CLUS_1            1            126
  CLUS_2            4            105
  CLUS_3            3             83
  CLUS_4            1            104
  CLUS_5            0             51
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will 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
D41V8, 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    168    201     98
D41V9, multiclass
        clus
vv       PAK1 MUTATED PAK1 WILD-TYPE
  CLUS_1            4            168
  CLUS_2            4            201
  CLUS_3            1             98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PAK1 MUTATED        2      0      3      2      2      0
  PAK1 WILD-TYPE     68     37    132    118     84     28
D41V10, multiclass
        clus
vv       PAK1 MUTATED PAK1 WILD-TYPE
  CLUS_1            2             68
  CLUS_2            0             37
  CLUS_3            3            132
  CLUS_4            2            118
  CLUS_5            2             84
  CLUS_6            0             28
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PAK1 MUTATED        1      2      3      1      0      2
  PAK1 WILD-TYPE     54     83     94     41     60     71
D41V11, multiclass
        clus
vv       PAK1 MUTATED PAK1 WILD-TYPE
  CLUS_1            1             54
  CLUS_2            2             83
  CLUS_3            3             94
  CLUS_4            1             41
  CLUS_5            0             60
  CLUS_6            2             71
[1] 6 2
[1] TRUE
[1] "dimension of contingency table 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     94    217     92
D41V12, multiclass
        clus
vv       PAK1 MUTATED PAK1 WILD-TYPE
  CLUS_1            2             94
  CLUS_2            5            217
  CLUS_3            2             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"

Clustering(42) Variable = NRAS MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NRAS MUTATED        0      1      0
  NRAS WILD-TYPE      8      7      4
D42V1, 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
D42V2, 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        1      1      0      1
  NRAS WILD-TYPE    157    126    123     69
D42V3, multiclass
        clus
vv       NRAS MUTATED NRAS WILD-TYPE
  CLUS_1            1            157
  CLUS_2            1            126
  CLUS_3            0            123
  CLUS_4            1             69
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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    145    166    117
D42V4, 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 CLUS_4 CLUS_5
  NRAS MUTATED        1      0      0      0      0
  NRAS WILD-TYPE     88     22     59     65    101
D42V5, multiclass
[1] "Remove cluster labels:" "NRAS MUTATED"          
clus
  NRAS MUTATED NRAS WILD-TYPE 
             1            335 
    TCGA-05-4244     TCGA-05-4249     TCGA-05-4250     TCGA-05-4384 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-05-4396     TCGA-05-4397     TCGA-05-4398     TCGA-05-4402 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-05-4405     TCGA-05-4410     TCGA-05-4417     TCGA-05-4418 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-05-4420     TCGA-05-4422     TCGA-05-4426     TCGA-05-4427 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-05-4430     TCGA-05-4434     TCGA-05-5420     TCGA-05-5423 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-05-5425     TCGA-05-5429     TCGA-05-5715     TCGA-35-4122 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-35-5375     TCGA-38-4625     TCGA-38-4626     TCGA-38-4627 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-38-4629     TCGA-38-6178     TCGA-38-A44F     TCGA-44-2656 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-44-2657     TCGA-44-2661     TCGA-44-2665     TCGA-44-3396 
"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-44-5643     TCGA-44-5644     TCGA-44-5645     TCGA-44-6144 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-44-6145     TCGA-44-6146     TCGA-44-6147     TCGA-44-6148 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-44-6774     TCGA-44-6775     TCGA-44-6776     TCGA-44-6777 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-44-6778     TCGA-44-6779     TCGA-44-7659     TCGA-44-7660 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-44-7661     TCGA-44-7662     TCGA-44-7667     TCGA-44-7669 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-44-7670     TCGA-44-7671     TCGA-44-7672     TCGA-44-8117 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-44-8119     TCGA-44-A479     TCGA-44-A47A     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-49-4486 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-49-4487     TCGA-49-4488     TCGA-49-4494     TCGA-49-4501 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-49-4505     TCGA-49-4506     TCGA-49-4507     TCGA-49-4510 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-49-4512     TCGA-49-4514     TCGA-49-6742     TCGA-49-6743 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-49-6744     TCGA-49-6745     TCGA-49-6761     TCGA-49-6767 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-50-5044     TCGA-50-5045     TCGA-50-5049     TCGA-50-5051 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-50-5066     TCGA-50-5068     TCGA-50-5072     TCGA-50-5930 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-50-5931     TCGA-50-5932     TCGA-50-5933     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-55-1592     TCGA-55-5899     TCGA-55-6543 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-55-6712     TCGA-55-6969     TCGA-55-6970     TCGA-55-6971 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-55-6978     TCGA-55-6979     TCGA-55-6981     TCGA-55-6982 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-55-7573     TCGA-55-7574     TCGA-55-7728     TCGA-55-7815 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-55-7910     TCGA-55-7911     TCGA-55-8505     TCGA-55-8506 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-55-8507     TCGA-55-8620     TCGA-55-A494     TCGA-62-8394 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-62-8395     TCGA-62-8398     TCGA-62-A46O     TCGA-62-A46P 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-62-A46R     TCGA-62-A46S     TCGA-62-A46V     TCGA-62-A471 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-64-1676     TCGA-64-1677     TCGA-64-1679     TCGA-64-1681 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-64-5774     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-67-3771     TCGA-67-6215     TCGA-67-6216 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-67-6217     TCGA-69-7760     TCGA-69-7761     TCGA-69-7763 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-69-7764     TCGA-69-7765     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-73-4659 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-73-4670     TCGA-73-4675     TCGA-73-4676     TCGA-73-7498 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-73-7499     TCGA-75-5122     TCGA-75-5125     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-75-7027     TCGA-75-7030 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-75-7031     TCGA-78-7143     TCGA-78-7145     TCGA-78-7146 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-78-7147     TCGA-78-7148     TCGA-78-7149     TCGA-78-7150 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-78-7152     TCGA-78-7153     TCGA-78-7154     TCGA-78-7155 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-78-7156     TCGA-78-7158     TCGA-78-7159     TCGA-78-7160 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-78-7161     TCGA-78-7162     TCGA-78-7163     TCGA-78-7166 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-78-7167     TCGA-78-7535     TCGA-78-7536     TCGA-78-7537 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-78-7539     TCGA-78-7540     TCGA-78-7542     TCGA-78-7633 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-78-8662     TCGA-80-5607     TCGA-80-5608     TCGA-80-5611 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-83-5908     TCGA-86-6562     TCGA-86-6851     TCGA-86-7701 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-86-7711     TCGA-86-7713     TCGA-86-7953     TCGA-86-7954 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-86-7955     TCGA-86-8054     TCGA-86-8055     TCGA-86-8056 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-86-8073     TCGA-86-8074     TCGA-86-8075     TCGA-86-8076 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-86-8278     TCGA-86-8279     TCGA-86-8280     TCGA-86-8281 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-86-8358     TCGA-86-8359     TCGA-86-8585     TCGA-86-8668 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-86-8669     TCGA-86-8671     TCGA-86-8673     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-93-7348 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-93-A4JN     TCGA-93-A4JO     TCGA-93-A4JP     TCGA-93-A4JQ 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-95-7039     TCGA-95-7043     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-A4VK     TCGA-95-A4VN 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-95-A4VP     TCGA-97-7546     TCGA-97-7552     TCGA-97-7553 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-97-7554     TCGA-97-7937     TCGA-97-7938     TCGA-97-7941 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-97-8179     TCGA-97-A4M0     TCGA-97-A4M2     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-99-8028 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-J2-8192     TCGA-J2-8194     TCGA-J2-A4AD     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-MP-A4SV     TCGA-MP-A4SW 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-MP-A4SY     TCGA-MP-A4T2     TCGA-MP-A4T4     TCGA-MP-A4T6 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-MP-A4T7     TCGA-MP-A4T8     TCGA-MP-A4T9     TCGA-MP-A4TA 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-MP-A4TC     TCGA-MP-A4TD     TCGA-MP-A4TE     TCGA-MP-A4TF 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-MP-A4TH     TCGA-MP-A4TI     TCGA-MP-A4TK     TCGA-MP-A5C7 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-NJ-A4YF     TCGA-NJ-A4YG     TCGA-NJ-A4YI     TCGA-NJ-A55A 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-NJ-A55O     TCGA-NJ-A55R     TCGA-O1-A52J 
"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    156    120     59
D42V6, multiclass
[1] "Remove cluster labels:" "NRAS MUTATED"          
clus
  NRAS MUTATED NRAS WILD-TYPE 
             1            335 
    TCGA-05-4244     TCGA-05-4249     TCGA-05-4250     TCGA-05-4384 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-05-4396     TCGA-05-4397     TCGA-05-4398     TCGA-05-4402 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-05-4405     TCGA-05-4410     TCGA-05-4417     TCGA-05-4418 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-05-4420     TCGA-05-4422     TCGA-05-4426     TCGA-05-4427 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-05-4430     TCGA-05-4434     TCGA-05-5420     TCGA-05-5423 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-05-5425     TCGA-05-5429     TCGA-05-5715     TCGA-35-4122 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-35-5375     TCGA-38-4625     TCGA-38-4626     TCGA-38-4627 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-38-4629     TCGA-38-6178     TCGA-38-A44F     TCGA-44-2656 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-44-2657     TCGA-44-2661     TCGA-44-2665     TCGA-44-3396 
"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-44-5643     TCGA-44-5644     TCGA-44-5645     TCGA-44-6144 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-44-6145     TCGA-44-6146     TCGA-44-6147     TCGA-44-6148 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-44-6774     TCGA-44-6775     TCGA-44-6776     TCGA-44-6777 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-44-6778     TCGA-44-6779     TCGA-44-7659     TCGA-44-7660 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-44-7661     TCGA-44-7662     TCGA-44-7667     TCGA-44-7669 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-44-7670     TCGA-44-7671     TCGA-44-7672     TCGA-44-8117 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-44-8119     TCGA-44-A479     TCGA-44-A47A     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-49-4486 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-49-4487     TCGA-49-4488     TCGA-49-4494     TCGA-49-4501 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-49-4505     TCGA-49-4506     TCGA-49-4507     TCGA-49-4510 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-49-4512     TCGA-49-4514     TCGA-49-6742     TCGA-49-6743 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-49-6744     TCGA-49-6745     TCGA-49-6761     TCGA-49-6767 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-50-5044     TCGA-50-5045     TCGA-50-5049     TCGA-50-5051 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-50-5066     TCGA-50-5068     TCGA-50-5072     TCGA-50-5930 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-50-5931     TCGA-50-5932     TCGA-50-5933     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-55-1592     TCGA-55-5899     TCGA-55-6543 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-55-6712     TCGA-55-6969     TCGA-55-6970     TCGA-55-6971 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-55-6978     TCGA-55-6979     TCGA-55-6981     TCGA-55-6982 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-55-7573     TCGA-55-7574     TCGA-55-7728     TCGA-55-7815 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-55-7910     TCGA-55-7911     TCGA-55-8505     TCGA-55-8506 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-55-8507     TCGA-55-8620     TCGA-55-A494     TCGA-62-8394 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-62-8395     TCGA-62-8398     TCGA-62-A46O     TCGA-62-A46P 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-62-A46R     TCGA-62-A46S     TCGA-62-A46V     TCGA-62-A471 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-64-1676     TCGA-64-1677     TCGA-64-1679     TCGA-64-1681 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-64-5774     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-67-3771     TCGA-67-6215     TCGA-67-6216 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-67-6217     TCGA-69-7760     TCGA-69-7761     TCGA-69-7763 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-69-7764     TCGA-69-7765     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-73-4659 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-73-4670     TCGA-73-4675     TCGA-73-4676     TCGA-73-7498 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-73-7499     TCGA-75-5122     TCGA-75-5125     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-75-7027     TCGA-75-7030 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-75-7031     TCGA-78-7143     TCGA-78-7145     TCGA-78-7146 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-78-7147     TCGA-78-7148     TCGA-78-7149     TCGA-78-7150 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-78-7152     TCGA-78-7153     TCGA-78-7154     TCGA-78-7155 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-78-7156     TCGA-78-7158     TCGA-78-7159     TCGA-78-7160 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-78-7161     TCGA-78-7162     TCGA-78-7163     TCGA-78-7166 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-78-7167     TCGA-78-7535     TCGA-78-7536     TCGA-78-7537 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-78-7539     TCGA-78-7540     TCGA-78-7542     TCGA-78-7633 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-78-8662     TCGA-80-5607     TCGA-80-5608     TCGA-80-5611 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-83-5908     TCGA-86-6562     TCGA-86-6851     TCGA-86-7701 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-86-7711     TCGA-86-7713     TCGA-86-7953     TCGA-86-7954 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-86-7955     TCGA-86-8054     TCGA-86-8055     TCGA-86-8056 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-86-8073     TCGA-86-8074     TCGA-86-8075     TCGA-86-8076 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-86-8278     TCGA-86-8279     TCGA-86-8280     TCGA-86-8281 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-86-8358     TCGA-86-8359     TCGA-86-8585     TCGA-86-8668 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-86-8669     TCGA-86-8671     TCGA-86-8673     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-93-7348 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-93-A4JN     TCGA-93-A4JO     TCGA-93-A4JP     TCGA-93-A4JQ 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-95-7039     TCGA-95-7043     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-A4VK     TCGA-95-A4VN 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-95-A4VP     TCGA-97-7546     TCGA-97-7552     TCGA-97-7553 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-97-7554     TCGA-97-7937     TCGA-97-7938     TCGA-97-7941 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-97-8179     TCGA-97-A4M0     TCGA-97-A4M2     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-99-8028 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-J2-8192     TCGA-J2-8194     TCGA-J2-A4AD     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-MP-A4SV     TCGA-MP-A4SW 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-MP-A4SY     TCGA-MP-A4T2     TCGA-MP-A4T4     TCGA-MP-A4T6 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-MP-A4T7     TCGA-MP-A4T8     TCGA-MP-A4T9     TCGA-MP-A4TA 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-MP-A4TC     TCGA-MP-A4TD     TCGA-MP-A4TE     TCGA-MP-A4TF 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-MP-A4TH     TCGA-MP-A4TI     TCGA-MP-A4TK     TCGA-MP-A5C7 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-NJ-A4YF     TCGA-NJ-A4YG     TCGA-NJ-A4YI     TCGA-NJ-A55A 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-NJ-A55O     TCGA-NJ-A55R     TCGA-O1-A52J 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NRAS MUTATED        3      0      0      0      0
  NRAS WILD-TYPE    124    109     86    105     51
D42V7, multiclass
        clus
vv       NRAS MUTATED NRAS WILD-TYPE
  CLUS_1            3            124
  CLUS_2            0            109
  CLUS_3            0             86
  CLUS_4            0            105
  CLUS_5            0             51
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will 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
D42V8, 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    172    202     99
D42V9, multiclass
        clus
vv       NRAS MUTATED NRAS WILD-TYPE
  CLUS_1            0            172
  CLUS_2            3            202
  CLUS_3            0             99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  NRAS MUTATED        0      0      3      0      0      0
  NRAS WILD-TYPE     70     37    132    120     86     28
D42V10, multiclass
        clus
vv       NRAS MUTATED NRAS WILD-TYPE
  CLUS_1            0             70
  CLUS_2            0             37
  CLUS_3            3            132
  CLUS_4            0            120
  CLUS_5            0             86
  CLUS_6            0             28
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  NRAS MUTATED        0      0      1      0      0      1
  NRAS WILD-TYPE     55     85     96     42     60     72
D42V11, 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      1      1
  NRAS WILD-TYPE     96    221     93
D42V12, 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(43) Variable = G3BP1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  G3BP1 MUTATED        1      0      1
  G3BP1 WILD-TYPE      7      8      3
D43V1, 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
D43V2, 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        1      1      4      2
  G3BP1 WILD-TYPE    157    126    119     68
D43V3, multiclass
        clus
vv       G3BP1 MUTATED G3BP1 WILD-TYPE
  CLUS_1             1             157
  CLUS_2             1             126
  CLUS_3             4             119
  CLUS_4             2              68
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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    145    166    115
D43V4, multiclass
        clus
vv       G3BP1 MUTATED G3BP1 WILD-TYPE
  CLUS_1             1             145
  CLUS_2             1             166
  CLUS_3             2             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
  G3BP1 MUTATED        1      0      1      2      2
  G3BP1 WILD-TYPE     88     22     58     63     99
D43V5, multiclass
        clus
vv       G3BP1 MUTATED G3BP1 WILD-TYPE
  CLUS_1             1              88
  CLUS_2             0              22
  CLUS_3             1              58
  CLUS_4             2              63
  CLUS_5             2              99
[1] 5 2
[1] TRUE
[1] "dimension of contingency table 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      4      0
  G3BP1 WILD-TYPE    154    117     59
D43V6, multiclass
        clus
vv       G3BP1 MUTATED G3BP1 WILD-TYPE
  CLUS_1             2             154
  CLUS_2             4             117
  CLUS_3             0              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
  G3BP1 MUTATED        1      2      1      3      1
  G3BP1 WILD-TYPE    126    107     85    102     50
D43V7, multiclass
        clus
vv       G3BP1 MUTATED G3BP1 WILD-TYPE
  CLUS_1             1             126
  CLUS_2             2             107
  CLUS_3             1              85
  CLUS_4             3             102
  CLUS_5             1              50
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will 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
D43V8, 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    169    202     97
D43V9, multiclass
        clus
vv       G3BP1 MUTATED G3BP1 WILD-TYPE
  CLUS_1             3             169
  CLUS_2             3             202
  CLUS_3             2              97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  G3BP1 MUTATED        1      1      1      3      2      0
  G3BP1 WILD-TYPE     69     36    134    117     84     28
D43V10, multiclass
        clus
vv       G3BP1 MUTATED G3BP1 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             1              36
  CLUS_3             1             134
  CLUS_4             3             117
  CLUS_5             2              84
  CLUS_6             0              28
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  G3BP1 MUTATED        0      0      3      0      1      0
  G3BP1 WILD-TYPE     55     85     94     42     59     73
D43V11, multiclass
        clus
vv       G3BP1 MUTATED G3BP1 WILD-TYPE
  CLUS_1             0              55
  CLUS_2             0              85
  CLUS_3             3              94
  CLUS_4             0              42
  CLUS_5             1              59
  CLUS_6             0              73
[1] 6 2
[1] TRUE
[1] "dimension of contingency table 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      2      2
  G3BP1 WILD-TYPE     96    220     92
D43V12, multiclass
        clus
vv       G3BP1 MUTATED G3BP1 WILD-TYPE
  CLUS_1             0              96
  CLUS_2             2             220
  CLUS_3             2              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"

Clustering(44) Variable = TRERF1 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TRERF1 MUTATED        0      1      1
  TRERF1 WILD-TYPE      8      7      3
D44V1, 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
D44V2, 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        6      9      1      2
  TRERF1 WILD-TYPE    152    118    122     68
D44V3, multiclass
        clus
vv       TRERF1 MUTATED TRERF1 WILD-TYPE
  CLUS_1              6              152
  CLUS_2              9              118
  CLUS_3              1              122
  CLUS_4              2               68
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        7      7      2
  TRERF1 WILD-TYPE    139    160    115
D44V4, multiclass
        clus
vv       TRERF1 MUTATED TRERF1 WILD-TYPE
  CLUS_1              7              139
  CLUS_2              7              160
  CLUS_3              2              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
  TRERF1 MUTATED        1      1      4      1      4
  TRERF1 WILD-TYPE     88     21     55     64     97
D44V5, multiclass
        clus
vv       TRERF1 MUTATED TRERF1 WILD-TYPE
  CLUS_1              1               88
  CLUS_2              1               21
  CLUS_3              4               55
  CLUS_4              1               64
  CLUS_5              4               97
[1] 5 2
[1] TRUE
[1] "dimension of contingency table 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        5      3      3
  TRERF1 WILD-TYPE    151    118     56
D44V6, multiclass
        clus
vv       TRERF1 MUTATED TRERF1 WILD-TYPE
  CLUS_1              5              151
  CLUS_2              3              118
  CLUS_3              3               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
  TRERF1 MUTATED        7      1      5      3      2
  TRERF1 WILD-TYPE    120    108     81    102     49
D44V7, multiclass
        clus
vv       TRERF1 MUTATED TRERF1 WILD-TYPE
  CLUS_1              7              120
  CLUS_2              1              108
  CLUS_3              5               81
  CLUS_4              3              102
  CLUS_5              2               49
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will 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
D44V8, 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        2     14      2
  TRERF1 WILD-TYPE    170    191     97
D44V9, multiclass
        clus
vv       TRERF1 MUTATED TRERF1 WILD-TYPE
  CLUS_1              2              170
  CLUS_2             14              191
  CLUS_3              2               97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TRERF1 MUTATED        1      0     12      3      2      0
  TRERF1 WILD-TYPE     69     37    123    117     84     28
D44V10, multiclass
        clus
vv       TRERF1 MUTATED TRERF1 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              0               37
  CLUS_3             12              123
  CLUS_4              3              117
  CLUS_5              2               84
  CLUS_6              0               28
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TRERF1 MUTATED        0      3      5      0      1      6
  TRERF1 WILD-TYPE     55     82     92     42     59     67
D44V11, multiclass
        clus
vv       TRERF1 MUTATED TRERF1 WILD-TYPE
  CLUS_1              0               55
  CLUS_2              3               82
  CLUS_3              5               92
  CLUS_4              0               42
  CLUS_5              1               59
  CLUS_6              6               67
[1] 6 2
[1] TRUE
[1] "dimension of contingency table 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     11      3
  TRERF1 WILD-TYPE     95    211     91
D44V12, multiclass
        clus
vv       TRERF1 MUTATED TRERF1 WILD-TYPE
  CLUS_1              1               95
  CLUS_2             11              211
  CLUS_3              3               91
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(45) Variable = CACNA1F MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  CACNA1F MUTATED        0      0      0
  CACNA1F WILD-TYPE      8      8      4
D45V1, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  CACNA1F MUTATED        0      0      0
  CACNA1F WILD-TYPE      7      9      4
D45V2, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CACNA1F MUTATED       12      5      5      5
  CACNA1F WILD-TYPE    146    122    118     65
D45V3, multiclass
        clus
vv       CACNA1F MUTATED CACNA1F WILD-TYPE
  CLUS_1              12               146
  CLUS_2               5               122
  CLUS_3               5               118
  CLUS_4               5                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
  CACNA1F MUTATED       10     11      5
  CACNA1F WILD-TYPE    136    156    112
D45V4, multiclass
        clus
vv       CACNA1F MUTATED CACNA1F WILD-TYPE
  CLUS_1              10               136
  CLUS_2              11               156
  CLUS_3               5               112
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CACNA1F MUTATED        6      3      1      5      4
  CACNA1F WILD-TYPE     83     19     58     60     97
D45V5, multiclass
        clus
vv       CACNA1F MUTATED CACNA1F WILD-TYPE
  CLUS_1               6                83
  CLUS_2               3                19
  CLUS_3               1                58
  CLUS_4               5                60
  CLUS_5               4                97
[1] 5 2
[1] TRUE
[1] "dimension of contingency table 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      7      4
  CACNA1F WILD-TYPE    148    114     55
D45V6, multiclass
        clus
vv       CACNA1F MUTATED CACNA1F WILD-TYPE
  CLUS_1               8               148
  CLUS_2               7               114
  CLUS_3               4                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
  CACNA1F MUTATED       11      2      6      4      4
  CACNA1F WILD-TYPE    116    107     80    101     47
D45V7, multiclass
        clus
vv       CACNA1F MUTATED CACNA1F WILD-TYPE
  CLUS_1              11               116
  CLUS_2               2               107
  CLUS_3               6                80
  CLUS_4               4               101
  CLUS_5               4                47
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will 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
D45V8, 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        9     17      1
  CACNA1F WILD-TYPE    163    188     98
D45V9, multiclass
        clus
vv       CACNA1F MUTATED CACNA1F WILD-TYPE
  CLUS_1               9               163
  CLUS_2              17               188
  CLUS_3               1                98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CACNA1F MUTATED        4      4      7      8      4      0
  CACNA1F WILD-TYPE     66     33    128    112     82     28
D45V10, multiclass
        clus
vv       CACNA1F MUTATED CACNA1F WILD-TYPE
  CLUS_1               4                66
  CLUS_2               4                33
  CLUS_3               7               128
  CLUS_4               8               112
  CLUS_5               4                82
  CLUS_6               0                28
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CACNA1F MUTATED        3      4      6      0      7      6
  CACNA1F WILD-TYPE     52     81     91     42     53     67
D45V11, multiclass
        clus
vv       CACNA1F MUTATED CACNA1F WILD-TYPE
  CLUS_1               3                52
  CLUS_2               4                81
  CLUS_3               6                91
  CLUS_4               0                42
  CLUS_5               7                53
  CLUS_6               6                67
[1] 6 2
[1] TRUE
[1] "dimension of contingency table 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        6     16      4
  CACNA1F WILD-TYPE     90    206     90
D45V12, multiclass
        clus
vv       CACNA1F MUTATED CACNA1F WILD-TYPE
  CLUS_1               6                90
  CLUS_2              16               206
  CLUS_3               4                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"

Clustering(46) Variable = NFE2L2 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  NFE2L2 MUTATED        0      0      0
  NFE2L2 WILD-TYPE      8      8      4
D46V1, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  NFE2L2 MUTATED        0      0      0
  NFE2L2 WILD-TYPE      7      9      4
D46V2, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NFE2L2 MUTATED        4      4      4      1
  NFE2L2 WILD-TYPE    154    123    119     69
D46V3, multiclass
        clus
vv       NFE2L2 MUTATED NFE2L2 WILD-TYPE
  CLUS_1              4              154
  CLUS_2              4              123
  CLUS_3              4              119
  CLUS_4              1               69
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        5      5      2
  NFE2L2 WILD-TYPE    141    162    115
D46V4, multiclass
        clus
vv       NFE2L2 MUTATED NFE2L2 WILD-TYPE
  CLUS_1              5              141
  CLUS_2              5              162
  CLUS_3              2              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
  NFE2L2 MUTATED        1      2      2      1      2
  NFE2L2 WILD-TYPE     88     20     57     64     99
D46V5, multiclass
        clus
vv       NFE2L2 MUTATED NFE2L2 WILD-TYPE
  CLUS_1              1               88
  CLUS_2              2               20
  CLUS_3              2               57
  CLUS_4              1               64
  CLUS_5              2               99
[1] 5 2
[1] TRUE
[1] "dimension of contingency table 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        6      1      1
  NFE2L2 WILD-TYPE    150    120     58
D46V6, multiclass
        clus
vv       NFE2L2 MUTATED NFE2L2 WILD-TYPE
  CLUS_1              6              150
  CLUS_2              1              120
  CLUS_3              1               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
  NFE2L2 MUTATED        2      2      5      2      2
  NFE2L2 WILD-TYPE    125    107     81    103     49
D46V7, multiclass
        clus
vv       NFE2L2 MUTATED NFE2L2 WILD-TYPE
  CLUS_1              2              125
  CLUS_2              2              107
  CLUS_3              5               81
  CLUS_4              2              103
  CLUS_5              2               49
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will 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
D46V8, 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        3      6      3
  NFE2L2 WILD-TYPE    169    199     96
D46V9, multiclass
        clus
vv       NFE2L2 MUTATED NFE2L2 WILD-TYPE
  CLUS_1              3              169
  CLUS_2              6              199
  CLUS_3              3               96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  NFE2L2 MUTATED        2      0      7      1      1      1
  NFE2L2 WILD-TYPE     68     37    128    119     85     27
D46V10, multiclass
        clus
vv       NFE2L2 MUTATED NFE2L2 WILD-TYPE
  CLUS_1              2               68
  CLUS_2              0               37
  CLUS_3              7              128
  CLUS_4              1              119
  CLUS_5              1               85
  CLUS_6              1               27
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  NFE2L2 MUTATED        3      1      1      2      2      1
  NFE2L2 WILD-TYPE     52     84     96     40     58     72
D46V11, multiclass
        clus
vv       NFE2L2 MUTATED NFE2L2 WILD-TYPE
  CLUS_1              3               52
  CLUS_2              1               84
  CLUS_3              1               96
  CLUS_4              2               40
  CLUS_5              2               58
  CLUS_6              1               72
[1] 6 2
[1] TRUE
[1] "dimension of contingency table 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     93    216     93
D46V12, multiclass
        clus
vv       NFE2L2 MUTATED NFE2L2 WILD-TYPE
  CLUS_1              3               93
  CLUS_2              6              216
  CLUS_3              1               93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(47) Variable = RPL5 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RPL5 MUTATED        0      0      0
  RPL5 WILD-TYPE      8      8      4
D47V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RPL5 MUTATED        0      0      0
  RPL5 WILD-TYPE      7      9      4
D47V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RPL5 MUTATED        1      1      6      0
  RPL5 WILD-TYPE    157    126    117     70
D47V3, multiclass
        clus
vv       RPL5 MUTATED RPL5 WILD-TYPE
  CLUS_1            1            157
  CLUS_2            1            126
  CLUS_3            6            117
  CLUS_4            0             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
  RPL5 MUTATED        4      2      2
  RPL5 WILD-TYPE    142    165    115
D47V4, multiclass
        clus
vv       RPL5 MUTATED RPL5 WILD-TYPE
  CLUS_1            4            142
  CLUS_2            2            165
  CLUS_3            2            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
  RPL5 MUTATED        1      0      2      1      2
  RPL5 WILD-TYPE     88     22     57     64     99
D47V5, multiclass
        clus
vv       RPL5 MUTATED RPL5 WILD-TYPE
  CLUS_1            1             88
  CLUS_2            0             22
  CLUS_3            2             57
  CLUS_4            1             64
  CLUS_5            2             99
[1] 5 2
[1] TRUE
[1] "dimension of contingency table 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        5      0      1
  RPL5 WILD-TYPE    151    121     58
D47V6, multiclass
        clus
vv       RPL5 MUTATED RPL5 WILD-TYPE
  CLUS_1            5            151
  CLUS_2            0            121
  CLUS_3            1             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
  RPL5 MUTATED        1      3      1      2      1
  RPL5 WILD-TYPE    126    106     85    103     50
D47V7, multiclass
        clus
vv       RPL5 MUTATED RPL5 WILD-TYPE
  CLUS_1            1            126
  CLUS_2            3            106
  CLUS_3            1             85
  CLUS_4            2            103
  CLUS_5            1             50
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will 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
D47V8, 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    170    202     96
D47V9, multiclass
        clus
vv       RPL5 MUTATED RPL5 WILD-TYPE
  CLUS_1            2            170
  CLUS_2            3            202
  CLUS_3            3             96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  RPL5 MUTATED        0      0      3      2      3      0
  RPL5 WILD-TYPE     70     37    132    118     83     28
D47V10, multiclass
        clus
vv       RPL5 MUTATED RPL5 WILD-TYPE
  CLUS_1            0             70
  CLUS_2            0             37
  CLUS_3            3            132
  CLUS_4            2            118
  CLUS_5            3             83
  CLUS_6            0             28
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  RPL5 MUTATED        2      3      1      1      0      1
  RPL5 WILD-TYPE     53     82     96     41     60     72
D47V11, multiclass
        clus
vv       RPL5 MUTATED RPL5 WILD-TYPE
  CLUS_1            2             53
  CLUS_2            3             82
  CLUS_3            1             96
  CLUS_4            1             41
  CLUS_5            0             60
  CLUS_6            1             72
[1] 6 2
[1] TRUE
[1] "dimension of contingency table 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     94    217     93
D47V12, multiclass
        clus
vv       RPL5 MUTATED RPL5 WILD-TYPE
  CLUS_1            2             94
  CLUS_2            5            217
  CLUS_3            1             93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(48) Variable = STRA8 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  STRA8 MUTATED        0      0      0
  STRA8 WILD-TYPE      8      8      4
D48V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  STRA8 MUTATED        0      0      0
  STRA8 WILD-TYPE      7      9      4
D48V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  STRA8 MUTATED        1      4      0      3
  STRA8 WILD-TYPE    157    123    123     67
D48V3, multiclass
        clus
vv       STRA8 MUTATED STRA8 WILD-TYPE
  CLUS_1             1             157
  CLUS_2             4             123
  CLUS_3             0             123
  CLUS_4             3              67
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        4      1      0
  STRA8 WILD-TYPE    142    166    117
D48V4, multiclass
        clus
vv       STRA8 MUTATED STRA8 WILD-TYPE
  CLUS_1             4             142
  CLUS_2             1             166
  CLUS_3             0             117
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  STRA8 MUTATED        0      0      0      5      1
  STRA8 WILD-TYPE     89     22     59     60    100
D48V5, multiclass
        clus
vv       STRA8 MUTATED STRA8 WILD-TYPE
  CLUS_1             0              89
  CLUS_2             0              22
  CLUS_3             0              59
  CLUS_4             5              60
  CLUS_5             1             100
[1] 5 2
[1] TRUE
[1] "dimension of contingency table 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      1
  STRA8 WILD-TYPE    156    116     58
D48V6, multiclass
        clus
vv       STRA8 MUTATED STRA8 WILD-TYPE
  CLUS_1             0             156
  CLUS_2             5             116
  CLUS_3             1              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
  STRA8 MUTATED        2      0      1      4      1
  STRA8 WILD-TYPE    125    109     85    101     50
D48V7, multiclass
        clus
vv       STRA8 MUTATED STRA8 WILD-TYPE
  CLUS_1             2             125
  CLUS_2             0             109
  CLUS_3             1              85
  CLUS_4             4             101
  CLUS_5             1              50
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will 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
D48V8, 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    172    198     99
D48V9, multiclass
        clus
vv       STRA8 MUTATED STRA8 WILD-TYPE
  CLUS_1             0             172
  CLUS_2             7             198
  CLUS_3             0              99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  STRA8 MUTATED        0      0      4      0      3      0
  STRA8 WILD-TYPE     70     37    131    120     83     28
D48V10, multiclass
        clus
vv       STRA8 MUTATED STRA8 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             0              37
  CLUS_3             4             131
  CLUS_4             0             120
  CLUS_5             3              83
  CLUS_6             0              28
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  STRA8 MUTATED        0      3      2      0      0      0
  STRA8 WILD-TYPE     55     82     95     42     60     73
D48V11, multiclass
        clus
vv       STRA8 MUTATED STRA8 WILD-TYPE
  CLUS_1             0              55
  CLUS_2             3              82
  CLUS_3             2              95
  CLUS_4             0              42
  CLUS_5             0              60
  CLUS_6             0              73
[1] 6 2
[1] TRUE
[1] "dimension of contingency table 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     96    217     94
D48V12, multiclass
        clus
vv       STRA8 MUTATED STRA8 WILD-TYPE
  CLUS_1             0              96
  CLUS_2             5             217
  CLUS_3             0              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"

Clustering(49) Variable = NLRP6 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NLRP6 MUTATED        0      0      0
  NLRP6 WILD-TYPE      8      8      4
D49V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NLRP6 MUTATED        0      0      0
  NLRP6 WILD-TYPE      7      9      4
D49V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NLRP6 MUTATED        1      6      2      1
  NLRP6 WILD-TYPE    157    121    121     69
D49V3, multiclass
        clus
vv       NLRP6 MUTATED NLRP6 WILD-TYPE
  CLUS_1             1             157
  CLUS_2             6             121
  CLUS_3             2             121
  CLUS_4             1              69
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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      6      1
  NLRP6 WILD-TYPE    144    161    116
D49V4, multiclass
        clus
vv       NLRP6 MUTATED NLRP6 WILD-TYPE
  CLUS_1             2             144
  CLUS_2             6             161
  CLUS_3             1             116
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NLRP6 MUTATED        1      0      0      4      0
  NLRP6 WILD-TYPE     88     22     59     61    101
D49V5, multiclass
        clus
vv       NLRP6 MUTATED NLRP6 WILD-TYPE
  CLUS_1             1              88
  CLUS_2             0              22
  CLUS_3             0              59
  CLUS_4             4              61
  CLUS_5             0             101
[1] 5 2
[1] TRUE
[1] "dimension of contingency table 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      4      0
  NLRP6 WILD-TYPE    155    117     59
D49V6, multiclass
        clus
vv       NLRP6 MUTATED NLRP6 WILD-TYPE
  CLUS_1             1             155
  CLUS_2             4             117
  CLUS_3             0              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
  NLRP6 MUTATED        2      1      0      5      2
  NLRP6 WILD-TYPE    125    108     86    100     49
D49V7, multiclass
        clus
vv       NLRP6 MUTATED NLRP6 WILD-TYPE
  CLUS_1             2             125
  CLUS_2             1             108
  CLUS_3             0              86
  CLUS_4             5             100
  CLUS_5             2              49
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will 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
D49V8, 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    171    198     97
D49V9, multiclass
        clus
vv       NLRP6 MUTATED NLRP6 WILD-TYPE
  CLUS_1             1             171
  CLUS_2             7             198
  CLUS_3             2              97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  NLRP6 MUTATED        1      2      2      0      4      1
  NLRP6 WILD-TYPE     69     35    133    120     82     27
D49V10, multiclass
        clus
vv       NLRP6 MUTATED NLRP6 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             2              35
  CLUS_3             2             133
  CLUS_4             0             120
  CLUS_5             4              82
  CLUS_6             1              27
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  NLRP6 MUTATED        0      3      2      1      2      1
  NLRP6 WILD-TYPE     55     82     95     41     58     72
D49V11, multiclass
        clus
vv       NLRP6 MUTATED NLRP6 WILD-TYPE
  CLUS_1             0              55
  CLUS_2             3              82
  CLUS_3             2              95
  CLUS_4             1              41
  CLUS_5             2              58
  CLUS_6             1              72
[1] 6 2
[1] TRUE
[1] "dimension of contingency table 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     96    217     90
D49V12, multiclass
        clus
vv       NLRP6 MUTATED NLRP6 WILD-TYPE
  CLUS_1             0              96
  CLUS_2             5             217
  CLUS_3             4              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"

Clustering(50) Variable = FAM65C MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  FAM65C MUTATED        0      0      0
  FAM65C WILD-TYPE      8      8      4
D50V1, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  FAM65C MUTATED        0      0      0
  FAM65C WILD-TYPE      7      9      4
D50V2, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FAM65C MUTATED        4      5      5      0
  FAM65C WILD-TYPE    154    122    118     70
D50V3, multiclass
        clus
vv       FAM65C MUTATED FAM65C WILD-TYPE
  CLUS_1              4              154
  CLUS_2              5              122
  CLUS_3              5              118
  CLUS_4              0               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
  FAM65C MUTATED        4      6      3
  FAM65C WILD-TYPE    142    161    114
D50V4, multiclass
        clus
vv       FAM65C MUTATED FAM65C WILD-TYPE
  CLUS_1              4              142
  CLUS_2              6              161
  CLUS_3              3              114
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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      1      2      0      5
  FAM65C WILD-TYPE     89     21     57     65     96
D50V5, multiclass
        clus
vv       FAM65C MUTATED FAM65C WILD-TYPE
  CLUS_1              0               89
  CLUS_2              1               21
  CLUS_3              2               57
  CLUS_4              0               65
  CLUS_5              5               96
[1] 5 2
[1] TRUE
[1] "dimension of contingency table 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      1      4
  FAM65C WILD-TYPE    153    120     55
D50V6, multiclass
        clus
vv       FAM65C MUTATED FAM65C WILD-TYPE
  CLUS_1              3              153
  CLUS_2              1              120
  CLUS_3              4               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
  FAM65C MUTATED        4      3      3      2      2
  FAM65C WILD-TYPE    123    106     83    103     49
D50V7, multiclass
        clus
vv       FAM65C MUTATED FAM65C WILD-TYPE
  CLUS_1              4              123
  CLUS_2              3              106
  CLUS_3              3               83
  CLUS_4              2              103
  CLUS_5              2               49
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will 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
D50V8, 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      8      4
  FAM65C WILD-TYPE    170    197     95
D50V9, multiclass
        clus
vv       FAM65C MUTATED FAM65C WILD-TYPE
  CLUS_1              2              170
  CLUS_2              8              197
  CLUS_3              4               95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  FAM65C MUTATED        2      0      5      2      4      1
  FAM65C WILD-TYPE     68     37    130    118     82     27
D50V10, multiclass
        clus
vv       FAM65C MUTATED FAM65C WILD-TYPE
  CLUS_1              2               68
  CLUS_2              0               37
  CLUS_3              5              130
  CLUS_4              2              118
  CLUS_5              4               82
  CLUS_6              1               27
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  FAM65C MUTATED        0      2      4      1      1      3
  FAM65C WILD-TYPE     55     83     93     41     59     70
D50V11, multiclass
        clus
vv       FAM65C MUTATED FAM65C WILD-TYPE
  CLUS_1              0               55
  CLUS_2              2               83
  CLUS_3              4               93
  CLUS_4              1               41
  CLUS_5              1               59
  CLUS_6              3               70
[1] 6 2
[1] TRUE
[1] "dimension of contingency table 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     96    213     92
D50V12, multiclass
        clus
vv       FAM65C MUTATED FAM65C WILD-TYPE
  CLUS_1              0               96
  CLUS_2              9              213
  CLUS_3              2               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"

Clustering(51) Variable = WDR66 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  WDR66 MUTATED        0      0      1
  WDR66 WILD-TYPE      8      8      3
D51V1, 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
D51V2, 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        6      4      2      2
  WDR66 WILD-TYPE    152    123    121     68
D51V3, multiclass
        clus
vv       WDR66 MUTATED WDR66 WILD-TYPE
  CLUS_1             6             152
  CLUS_2             4             123
  CLUS_3             2             121
  CLUS_4             2              68
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  WDR66 MUTATED        7      3      2
  WDR66 WILD-TYPE    139    164    115
D51V4, multiclass
        clus
vv       WDR66 MUTATED WDR66 WILD-TYPE
  CLUS_1             7             139
  CLUS_2             3             164
  CLUS_3             2             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
  WDR66 MUTATED        0      0      5      5      1
  WDR66 WILD-TYPE     89     22     54     60    100
D51V5, multiclass
        clus
vv       WDR66 MUTATED WDR66 WILD-TYPE
  CLUS_1             0              89
  CLUS_2             0              22
  CLUS_3             5              54
  CLUS_4             5              60
  CLUS_5             1             100
[1] 5 2
[1] TRUE
[1] "dimension of contingency table 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      7      0
  WDR66 WILD-TYPE    152    114     59
D51V6, multiclass
        clus
vv       WDR66 MUTATED WDR66 WILD-TYPE
  CLUS_1             4             152
  CLUS_2             7             114
  CLUS_3             0              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
  WDR66 MUTATED        0      3      2      7      2
  WDR66 WILD-TYPE    127    106     84     98     49
D51V7, multiclass
        clus
vv       WDR66 MUTATED WDR66 WILD-TYPE
  CLUS_1             0             127
  CLUS_2             3             106
  CLUS_3             2              84
  CLUS_4             7              98
  CLUS_5             2              49
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will 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
D51V8, 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    169    195     98
D51V9, multiclass
        clus
vv       WDR66 MUTATED WDR66 WILD-TYPE
  CLUS_1             3             169
  CLUS_2            10             195
  CLUS_3             1              98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  WDR66 MUTATED        1      0      8      2      3      0
  WDR66 WILD-TYPE     69     37    127    118     83     28
D51V10, multiclass
        clus
vv       WDR66 MUTATED WDR66 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             0              37
  CLUS_3             8             127
  CLUS_4             2             118
  CLUS_5             3              83
  CLUS_6             0              28
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  WDR66 MUTATED        1      5      1      1      3      1
  WDR66 WILD-TYPE     54     80     96     41     57     72
D51V11, multiclass
        clus
vv       WDR66 MUTATED WDR66 WILD-TYPE
  CLUS_1             1              54
  CLUS_2             5              80
  CLUS_3             1              96
  CLUS_4             1              41
  CLUS_5             3              57
  CLUS_6             1              72
[1] 6 2
[1] TRUE
[1] "dimension of contingency table 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     92    214     94
D51V12, multiclass
        clus
vv       WDR66 MUTATED WDR66 WILD-TYPE
  CLUS_1             4              92
  CLUS_2             8             214
  CLUS_3             0              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"

Clustering(52) Variable = RIT1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RIT1 MUTATED        0      0      0
  RIT1 WILD-TYPE      8      8      4
D52V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RIT1 MUTATED        0      0      0
  RIT1 WILD-TYPE      7      9      4
D52V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RIT1 MUTATED        1      5      1      1
  RIT1 WILD-TYPE    157    122    122     69
D52V3, multiclass
        clus
vv       RIT1 MUTATED RIT1 WILD-TYPE
  CLUS_1            1            157
  CLUS_2            5            122
  CLUS_3            1            122
  CLUS_4            1             69
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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    143    164    117
D52V4, multiclass
        clus
vv       RIT1 MUTATED RIT1 WILD-TYPE
  CLUS_1            3            143
  CLUS_2            3            164
  CLUS_3            0            117
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RIT1 MUTATED        0      1      1      1      2
  RIT1 WILD-TYPE     89     21     58     64     99
D52V5, multiclass
        clus
vv       RIT1 MUTATED RIT1 WILD-TYPE
  CLUS_1            0             89
  CLUS_2            1             21
  CLUS_3            1             58
  CLUS_4            1             64
  CLUS_5            2             99
[1] 5 2
[1] TRUE
[1] "dimension of contingency table 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      1
  RIT1 WILD-TYPE    154    119     58
D52V6, multiclass
        clus
vv       RIT1 MUTATED RIT1 WILD-TYPE
  CLUS_1            2            154
  CLUS_2            2            119
  CLUS_3            1             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
  RIT1 MUTATED        1      2      2      2      1
  RIT1 WILD-TYPE    126    107     84    103     50
D52V7, multiclass
        clus
vv       RIT1 MUTATED RIT1 WILD-TYPE
  CLUS_1            1            126
  CLUS_2            2            107
  CLUS_3            2             84
  CLUS_4            2            103
  CLUS_5            1             50
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will 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
D52V8, 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    170    203     96
D52V9, multiclass
        clus
vv       RIT1 MUTATED RIT1 WILD-TYPE
  CLUS_1            2            170
  CLUS_2            2            203
  CLUS_3            3             96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  RIT1 MUTATED        1      1      2      2      1      0
  RIT1 WILD-TYPE     69     36    133    118     85     28
D52V10, multiclass
        clus
vv       RIT1 MUTATED RIT1 WILD-TYPE
  CLUS_1            1             69
  CLUS_2            1             36
  CLUS_3            2            133
  CLUS_4            2            118
  CLUS_5            1             85
  CLUS_6            0             28
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  RIT1 MUTATED        1      1      2      0      2      0
  RIT1 WILD-TYPE     54     84     95     42     58     73
D52V11, multiclass
        clus
vv       RIT1 MUTATED RIT1 WILD-TYPE
  CLUS_1            1             54
  CLUS_2            1             84
  CLUS_3            2             95
  CLUS_4            0             42
  CLUS_5            2             58
  CLUS_6            0             73
[1] 6 2
[1] TRUE
[1] "dimension of contingency table 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     93    220     93
D52V12, multiclass
        clus
vv       RIT1 MUTATED RIT1 WILD-TYPE
  CLUS_1            3             93
  CLUS_2            2            220
  CLUS_3            1             93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(53) Variable = TGFBR3 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TGFBR3 MUTATED        1      0      0
  TGFBR3 WILD-TYPE      7      8      4
D53V1, multiclass
[1] "Remove cluster labels:" "TGFBR3 MUTATED"        
clus
  TGFBR3 MUTATED TGFBR3 WILD-TYPE 
               1               19 
      TCGA-05-4244       TCGA-05-4249       TCGA-05-4250       TCGA-35-4122 
"TGFBR3 WILD-TYPE" "TGFBR3 WILD-TYPE" "TGFBR3 WILD-TYPE" "TGFBR3 WILD-TYPE" 
      TCGA-35-4123       TCGA-44-2657       TCGA-44-2661       TCGA-44-2665 
"TGFBR3 WILD-TYPE" "TGFBR3 WILD-TYPE" "TGFBR3 WILD-TYPE" "TGFBR3 WILD-TYPE" 
      TCGA-44-3398       TCGA-44-3918       TCGA-44-3919       TCGA-44-4112 
"TGFBR3 WILD-TYPE" "TGFBR3 WILD-TYPE" "TGFBR3 WILD-TYPE" "TGFBR3 WILD-TYPE" 
      TCGA-55-1592       TCGA-55-1595       TCGA-64-1676       TCGA-64-1677 
"TGFBR3 WILD-TYPE" "TGFBR3 WILD-TYPE" "TGFBR3 WILD-TYPE" "TGFBR3 WILD-TYPE" 
      TCGA-67-3771       TCGA-67-3772       TCGA-67-3773 
"TGFBR3 WILD-TYPE" "TGFBR3 WILD-TYPE" "TGFBR3 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TGFBR3 MUTATED        1      0      0
  TGFBR3 WILD-TYPE      6      9      4
D53V2, multiclass
[1] "Remove cluster labels:" "TGFBR3 MUTATED"        
clus
  TGFBR3 MUTATED TGFBR3 WILD-TYPE 
               1               19 
      TCGA-05-4244       TCGA-05-4249       TCGA-05-4250       TCGA-35-4122 
"TGFBR3 WILD-TYPE" "TGFBR3 WILD-TYPE" "TGFBR3 WILD-TYPE" "TGFBR3 WILD-TYPE" 
      TCGA-35-4123       TCGA-44-2657       TCGA-44-2661       TCGA-44-2665 
"TGFBR3 WILD-TYPE" "TGFBR3 WILD-TYPE" "TGFBR3 WILD-TYPE" "TGFBR3 WILD-TYPE" 
      TCGA-44-3398       TCGA-44-3918       TCGA-44-3919       TCGA-44-4112 
"TGFBR3 WILD-TYPE" "TGFBR3 WILD-TYPE" "TGFBR3 WILD-TYPE" "TGFBR3 WILD-TYPE" 
      TCGA-55-1592       TCGA-55-1595       TCGA-64-1676       TCGA-64-1677 
"TGFBR3 WILD-TYPE" "TGFBR3 WILD-TYPE" "TGFBR3 WILD-TYPE" "TGFBR3 WILD-TYPE" 
      TCGA-67-3771       TCGA-67-3772       TCGA-67-3773 
"TGFBR3 WILD-TYPE" "TGFBR3 WILD-TYPE" "TGFBR3 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TGFBR3 MUTATED        5      4      1      4
  TGFBR3 WILD-TYPE    153    123    122     66
D53V3, multiclass
        clus
vv       TGFBR3 MUTATED TGFBR3 WILD-TYPE
  CLUS_1              5              153
  CLUS_2              4              123
  CLUS_3              1              122
  CLUS_4              4               66
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TGFBR3 MUTATED        6      7      1
  TGFBR3 WILD-TYPE    140    160    116
D53V4, multiclass
        clus
vv       TGFBR3 MUTATED TGFBR3 WILD-TYPE
  CLUS_1              6              140
  CLUS_2              7              160
  CLUS_3              1              116
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TGFBR3 MUTATED        2      0      2      3      2
  TGFBR3 WILD-TYPE     87     22     57     62     99
D53V5, multiclass
        clus
vv       TGFBR3 MUTATED TGFBR3 WILD-TYPE
  CLUS_1              2               87
  CLUS_2              0               22
  CLUS_3              2               57
  CLUS_4              3               62
  CLUS_5              2               99
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TGFBR3 MUTATED        2      6      1
  TGFBR3 WILD-TYPE    154    115     58
D53V6, multiclass
        clus
vv       TGFBR3 MUTATED TGFBR3 WILD-TYPE
  CLUS_1              2              154
  CLUS_2              6              115
  CLUS_3              1               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
  TGFBR3 MUTATED        5      1      4      3      1
  TGFBR3 WILD-TYPE    122    108     82    102     50
D53V7, multiclass
        clus
vv       TGFBR3 MUTATED TGFBR3 WILD-TYPE
  CLUS_1              5              122
  CLUS_2              1              108
  CLUS_3              4               82
  CLUS_4              3              102
  CLUS_5              1               50
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  TGFBR3 MUTATED        1      6      1      0      2      3      1
  TGFBR3 WILD-TYPE     71    103     89     44     47     43     67
D53V8, multiclass
        clus
vv       TGFBR3 MUTATED TGFBR3 WILD-TYPE
  CLUS_1              1               71
  CLUS_2              6              103
  CLUS_3              1               89
  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
  TGFBR3 MUTATED        2     11      1
  TGFBR3 WILD-TYPE    170    194     98
D53V9, multiclass
        clus
vv       TGFBR3 MUTATED TGFBR3 WILD-TYPE
  CLUS_1              2              170
  CLUS_2             11              194
  CLUS_3              1               98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TGFBR3 MUTATED        2      1      9      1      1      0
  TGFBR3 WILD-TYPE     68     36    126    119     85     28
D53V10, multiclass
        clus
vv       TGFBR3 MUTATED TGFBR3 WILD-TYPE
  CLUS_1              2               68
  CLUS_2              1               36
  CLUS_3              9              126
  CLUS_4              1              119
  CLUS_5              1               85
  CLUS_6              0               28
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TGFBR3 MUTATED        0      5      3      0      1      4
  TGFBR3 WILD-TYPE     55     80     94     42     59     69
D53V11, multiclass
        clus
vv       TGFBR3 MUTATED TGFBR3 WILD-TYPE
  CLUS_1              0               55
  CLUS_2              5               80
  CLUS_3              3               94
  CLUS_4              0               42
  CLUS_5              1               59
  CLUS_6              4               69
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TGFBR3 MUTATED        0     12      1
  TGFBR3 WILD-TYPE     96    210     93
D53V12, multiclass
        clus
vv       TGFBR3 MUTATED TGFBR3 WILD-TYPE
  CLUS_1              0               96
  CLUS_2             12              210
  CLUS_3              1               93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(54) Variable = CXCR7 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CXCR7 MUTATED        0      0      0
  CXCR7 WILD-TYPE      8      8      4
D54V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CXCR7 MUTATED        0      0      0
  CXCR7 WILD-TYPE      7      9      4
D54V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CXCR7 MUTATED        3      5      1      1
  CXCR7 WILD-TYPE    155    122    122     69
D54V3, multiclass
        clus
vv       CXCR7 MUTATED CXCR7 WILD-TYPE
  CLUS_1             3             155
  CLUS_2             5             122
  CLUS_3             1             122
  CLUS_4             1              69
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CXCR7 MUTATED        4      6      0
  CXCR7 WILD-TYPE    142    161    117
D54V4, multiclass
        clus
vv       CXCR7 MUTATED CXCR7 WILD-TYPE
  CLUS_1             4             142
  CLUS_2             6             161
  CLUS_3             0             117
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CXCR7 MUTATED        1      1      2      1      2
  CXCR7 WILD-TYPE     88     21     57     64     99
D54V5, multiclass
        clus
vv       CXCR7 MUTATED CXCR7 WILD-TYPE
  CLUS_1             1              88
  CLUS_2             1              21
  CLUS_3             2              57
  CLUS_4             1              64
  CLUS_5             2              99
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CXCR7 MUTATED        2      5      0
  CXCR7 WILD-TYPE    154    116     59
D54V6, multiclass
        clus
vv       CXCR7 MUTATED CXCR7 WILD-TYPE
  CLUS_1             2             154
  CLUS_2             5             116
  CLUS_3             0              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
  CXCR7 MUTATED        3      1      1      4      1
  CXCR7 WILD-TYPE    124    108     85    101     50
D54V7, multiclass
        clus
vv       CXCR7 MUTATED CXCR7 WILD-TYPE
  CLUS_1             3             124
  CLUS_2             1             108
  CLUS_3             1              85
  CLUS_4             4             101
  CLUS_5             1              50
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  CXCR7 MUTATED        0      3      1      1      2      1      2
  CXCR7 WILD-TYPE     72    106     89     43     47     45     66
D54V8, multiclass
        clus
vv       CXCR7 MUTATED CXCR7 WILD-TYPE
  CLUS_1             0              72
  CLUS_2             3             106
  CLUS_3             1              89
  CLUS_4             1              43
  CLUS_5             2              47
  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
  CXCR7 MUTATED        4      6      0
  CXCR7 WILD-TYPE    168    199     99
D54V9, multiclass
        clus
vv       CXCR7 MUTATED CXCR7 WILD-TYPE
  CLUS_1             4             168
  CLUS_2             6             199
  CLUS_3             0              99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CXCR7 MUTATED        0      0      4      4      2      0
  CXCR7 WILD-TYPE     70     37    131    116     84     28
D54V10, multiclass
        clus
vv       CXCR7 MUTATED CXCR7 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             0              37
  CLUS_3             4             131
  CLUS_4             4             116
  CLUS_5             2              84
  CLUS_6             0              28
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CXCR7 MUTATED        0      3      3      0      0      3
  CXCR7 WILD-TYPE     55     82     94     42     60     70
D54V11, multiclass
        clus
vv       CXCR7 MUTATED CXCR7 WILD-TYPE
  CLUS_1             0              55
  CLUS_2             3              82
  CLUS_3             3              94
  CLUS_4             0              42
  CLUS_5             0              60
  CLUS_6             3              70
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CXCR7 MUTATED        0      7      2
  CXCR7 WILD-TYPE     96    215     92
D54V12, multiclass
        clus
vv       CXCR7 MUTATED CXCR7 WILD-TYPE
  CLUS_1             0              96
  CLUS_2             7             215
  CLUS_3             2              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"

Clustering(55) Variable = GAN MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  GAN MUTATED        0      2      0
  GAN WILD-TYPE      8      6      4
D55V1, 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
D55V2, 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        2      4      2      2
  GAN WILD-TYPE    156    123    121     68
D55V3, multiclass
        clus
vv       GAN MUTATED GAN WILD-TYPE
  CLUS_1           2           156
  CLUS_2           4           123
  CLUS_3           2           121
  CLUS_4           2            68
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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      3      3
  GAN WILD-TYPE    144    164    114
D55V4, multiclass
        clus
vv       GAN MUTATED GAN WILD-TYPE
  CLUS_1           2           144
  CLUS_2           3           164
  CLUS_3           3           114
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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        3      1      2      1      3
  GAN WILD-TYPE     86     21     57     64     98
D55V5, multiclass
        clus
vv       GAN MUTATED GAN WILD-TYPE
  CLUS_1           3            86
  CLUS_2           1            21
  CLUS_3           2            57
  CLUS_4           1            64
  CLUS_5           3            98
[1] 5 2
[1] TRUE
[1] "dimension of contingency table 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        4      4      2
  GAN WILD-TYPE    152    117     57
D55V6, multiclass
        clus
vv       GAN MUTATED GAN WILD-TYPE
  CLUS_1           4           152
  CLUS_2           4           117
  CLUS_3           2            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
  GAN MUTATED        2      3      4      1      0
  GAN WILD-TYPE    125    106     82    104     51
D55V7, multiclass
        clus
vv       GAN MUTATED GAN WILD-TYPE
  CLUS_1           2           125
  CLUS_2           3           106
  CLUS_3           4            82
  CLUS_4           1           104
  CLUS_5           0            51
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will 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
D55V8, 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    170    199     97
D55V9, multiclass
        clus
vv       GAN MUTATED GAN WILD-TYPE
  CLUS_1           2           170
  CLUS_2           6           199
  CLUS_3           2            97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  GAN MUTATED        0      0      4      3      2      1
  GAN WILD-TYPE     70     37    131    117     84     27
D55V10, multiclass
        clus
vv       GAN MUTATED GAN WILD-TYPE
  CLUS_1           0            70
  CLUS_2           0            37
  CLUS_3           4           131
  CLUS_4           3           117
  CLUS_5           2            84
  CLUS_6           1            27
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  GAN MUTATED        0      2      3      0      1      1
  GAN WILD-TYPE     55     83     94     42     59     72
D55V11, multiclass
        clus
vv       GAN MUTATED GAN WILD-TYPE
  CLUS_1           0            55
  CLUS_2           2            83
  CLUS_3           3            94
  CLUS_4           0            42
  CLUS_5           1            59
  CLUS_6           1            72
[1] 6 2
[1] TRUE
[1] "dimension of contingency table 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        0      5      2
  GAN WILD-TYPE     96    217     92
D55V12, multiclass
        clus
vv       GAN MUTATED GAN WILD-TYPE
  CLUS_1           0            96
  CLUS_2           5           217
  CLUS_3           2            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"

Clustering(56) Variable = TMEM49 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TMEM49 MUTATED        0      0      0
  TMEM49 WILD-TYPE      8      8      4
D56V1, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TMEM49 MUTATED        0      0      0
  TMEM49 WILD-TYPE      7      9      4
D56V2, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TMEM49 MUTATED        4      0      1      0
  TMEM49 WILD-TYPE    154    127    122     70
D56V3, multiclass
        clus
vv       TMEM49 MUTATED TMEM49 WILD-TYPE
  CLUS_1              4              154
  CLUS_2              0              127
  CLUS_3              1              122
  CLUS_4              0               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
  TMEM49 MUTATED        0      2      3
  TMEM49 WILD-TYPE    146    165    114
D56V4, multiclass
        clus
vv       TMEM49 MUTATED TMEM49 WILD-TYPE
  CLUS_1              0              146
  CLUS_2              2              165
  CLUS_3              3              114
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TMEM49 MUTATED        1      0      0      1      2
  TMEM49 WILD-TYPE     88     22     59     64     99
D56V5, multiclass
        clus
vv       TMEM49 MUTATED TMEM49 WILD-TYPE
  CLUS_1              1               88
  CLUS_2              0               22
  CLUS_3              0               59
  CLUS_4              1               64
  CLUS_5              2               99
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TMEM49 MUTATED        0      3      1
  TMEM49 WILD-TYPE    156    118     58
D56V6, multiclass
        clus
vv       TMEM49 MUTATED TMEM49 WILD-TYPE
  CLUS_1              0              156
  CLUS_2              3              118
  CLUS_3              1               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
  TMEM49 MUTATED        2      1      1      0      1
  TMEM49 WILD-TYPE    125    108     85    105     50
D56V7, multiclass
        clus
vv       TMEM49 MUTATED TMEM49 WILD-TYPE
  CLUS_1              2              125
  CLUS_2              1              108
  CLUS_3              1               85
  CLUS_4              0              105
  CLUS_5              1               50
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  TMEM49 MUTATED        1      1      0      0      0      0      3
  TMEM49 WILD-TYPE     71    108     90     44     49     46     65
D56V8, multiclass
        clus
vv       TMEM49 MUTATED TMEM49 WILD-TYPE
  CLUS_1              1               71
  CLUS_2              1              108
  CLUS_3              0               90
  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
  TMEM49 MUTATED        1      2      2
  TMEM49 WILD-TYPE    171    203     97
D56V9, multiclass
        clus
vv       TMEM49 MUTATED TMEM49 WILD-TYPE
  CLUS_1              1              171
  CLUS_2              2              203
  CLUS_3              2               97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TMEM49 MUTATED        0      0      2      3      0      0
  TMEM49 WILD-TYPE     70     37    133    117     86     28
D56V10, multiclass
        clus
vv       TMEM49 MUTATED TMEM49 WILD-TYPE
  CLUS_1              0               70
  CLUS_2              0               37
  CLUS_3              2              133
  CLUS_4              3              117
  CLUS_5              0               86
  CLUS_6              0               28
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TMEM49 MUTATED        0      0      2      1      1      1
  TMEM49 WILD-TYPE     55     85     95     41     59     72
D56V11, multiclass
        clus
vv       TMEM49 MUTATED TMEM49 WILD-TYPE
  CLUS_1              0               55
  CLUS_2              0               85
  CLUS_3              2               95
  CLUS_4              1               41
  CLUS_5              1               59
  CLUS_6              1               72
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TMEM49 MUTATED        1      2      2
  TMEM49 WILD-TYPE     95    220     92
D56V12, multiclass
        clus
vv       TMEM49 MUTATED TMEM49 WILD-TYPE
  CLUS_1              1               95
  CLUS_2              2              220
  CLUS_3              2               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"

Clustering(57) Variable = HSPA8 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HSPA8 MUTATED        0      0      1
  HSPA8 WILD-TYPE      8      8      3
D57V1, 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
D57V2, 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        5      3      1      0
  HSPA8 WILD-TYPE    153    124    122     70
D57V3, multiclass
        clus
vv       HSPA8 MUTATED HSPA8 WILD-TYPE
  CLUS_1             5             153
  CLUS_2             3             124
  CLUS_3             1             122
  CLUS_4             0              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
  HSPA8 MUTATED        3      4      0
  HSPA8 WILD-TYPE    143    163    117
D57V4, multiclass
        clus
vv       HSPA8 MUTATED HSPA8 WILD-TYPE
  CLUS_1             3             143
  CLUS_2             4             163
  CLUS_3             0             117
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HSPA8 MUTATED        1      0      2      3      1
  HSPA8 WILD-TYPE     88     22     57     62    100
D57V5, multiclass
        clus
vv       HSPA8 MUTATED HSPA8 WILD-TYPE
  CLUS_1             1              88
  CLUS_2             0              22
  CLUS_3             2              57
  CLUS_4             3              62
  CLUS_5             1             100
[1] 5 2
[1] TRUE
[1] "dimension of contingency table 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        3      3      1
  HSPA8 WILD-TYPE    153    118     58
D57V6, multiclass
        clus
vv       HSPA8 MUTATED HSPA8 WILD-TYPE
  CLUS_1             3             153
  CLUS_2             3             118
  CLUS_3             1              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
  HSPA8 MUTATED        2      1      3      2      1
  HSPA8 WILD-TYPE    125    108     83    103     50
D57V7, multiclass
        clus
vv       HSPA8 MUTATED HSPA8 WILD-TYPE
  CLUS_1             2             125
  CLUS_2             1             108
  CLUS_3             3              83
  CLUS_4             2             103
  CLUS_5             1              50
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will 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
D57V8, 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    172    197     99
D57V9, multiclass
        clus
vv       HSPA8 MUTATED HSPA8 WILD-TYPE
  CLUS_1             0             172
  CLUS_2             8             197
  CLUS_3             0              99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  HSPA8 MUTATED        0      0      2      2      4      0
  HSPA8 WILD-TYPE     70     37    133    118     82     28
D57V10, multiclass
        clus
vv       HSPA8 MUTATED HSPA8 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             0              37
  CLUS_3             2             133
  CLUS_4             2             118
  CLUS_5             4              82
  CLUS_6             0              28
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  HSPA8 MUTATED        1      2      3      0      0      1
  HSPA8 WILD-TYPE     54     83     94     42     60     72
D57V11, multiclass
        clus
vv       HSPA8 MUTATED HSPA8 WILD-TYPE
  CLUS_1             1              54
  CLUS_2             2              83
  CLUS_3             3              94
  CLUS_4             0              42
  CLUS_5             0              60
  CLUS_6             1              72
[1] 6 2
[1] TRUE
[1] "dimension of contingency table 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     95    217     93
D57V12, multiclass
        clus
vv       HSPA8 MUTATED HSPA8 WILD-TYPE
  CLUS_1             1              95
  CLUS_2             5             217
  CLUS_3             1              93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(58) Variable = CD244 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CD244 MUTATED        1      0      0
  CD244 WILD-TYPE      7      8      4
D58V1, 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
D58V2, 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        6      4      1      1
  CD244 WILD-TYPE    152    123    122     69
D58V3, multiclass
        clus
vv       CD244 MUTATED CD244 WILD-TYPE
  CLUS_1             6             152
  CLUS_2             4             123
  CLUS_3             1             122
  CLUS_4             1              69
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        6      4      2
  CD244 WILD-TYPE    140    163    115
D58V4, multiclass
        clus
vv       CD244 MUTATED CD244 WILD-TYPE
  CLUS_1             6             140
  CLUS_2             4             163
  CLUS_3             2             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
  CD244 MUTATED        2      0      0      1      4
  CD244 WILD-TYPE     87     22     59     64     97
D58V5, multiclass
        clus
vv       CD244 MUTATED CD244 WILD-TYPE
  CLUS_1             2              87
  CLUS_2             0              22
  CLUS_3             0              59
  CLUS_4             1              64
  CLUS_5             4              97
[1] 5 2
[1] TRUE
[1] "dimension of contingency table 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      2      2
  CD244 WILD-TYPE    153    119     57
D58V6, multiclass
        clus
vv       CD244 MUTATED CD244 WILD-TYPE
  CLUS_1             3             153
  CLUS_2             2             119
  CLUS_3             2              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
  CD244 MUTATED        5      0      2      2      3
  CD244 WILD-TYPE    122    109     84    103     48
D58V7, multiclass
        clus
vv       CD244 MUTATED CD244 WILD-TYPE
  CLUS_1             5             122
  CLUS_2             0             109
  CLUS_3             2              84
  CLUS_4             2             103
  CLUS_5             3              48
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will 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
D58V8, 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    169    196     99
D58V9, multiclass
        clus
vv       CD244 MUTATED CD244 WILD-TYPE
  CLUS_1             3             169
  CLUS_2             9             196
  CLUS_3             0              99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CD244 MUTATED        3      0      2      1      6      0
  CD244 WILD-TYPE     67     37    133    119     80     28
D58V10, multiclass
        clus
vv       CD244 MUTATED CD244 WILD-TYPE
  CLUS_1             3              67
  CLUS_2             0              37
  CLUS_3             2             133
  CLUS_4             1             119
  CLUS_5             6              80
  CLUS_6             0              28
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CD244 MUTATED        0      2      3      0      1      5
  CD244 WILD-TYPE     55     83     94     42     59     68
D58V11, multiclass
        clus
vv       CD244 MUTATED CD244 WILD-TYPE
  CLUS_1             0              55
  CLUS_2             2              83
  CLUS_3             3              94
  CLUS_4             0              42
  CLUS_5             1              59
  CLUS_6             5              68
[1] 6 2
[1] TRUE
[1] "dimension of contingency table 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      9      1
  CD244 WILD-TYPE     95    213     93
D58V12, multiclass
        clus
vv       CD244 MUTATED CD244 WILD-TYPE
  CLUS_1             1              95
  CLUS_2             9             213
  CLUS_3             1              93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(59) Variable = KIF18B MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  KIF18B MUTATED        0      2      1
  KIF18B WILD-TYPE      8      6      3
D59V1, multiclass
        clus
vv       KIF18B MUTATED KIF18B WILD-TYPE
  CLUS_1              0                8
  CLUS_2              2                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
  KIF18B MUTATED        0      2      1
  KIF18B WILD-TYPE      7      7      3
D59V2, 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        1      1      0      2
  KIF18B WILD-TYPE    157    126    123     68
D59V3, multiclass
        clus
vv       KIF18B MUTATED KIF18B WILD-TYPE
  CLUS_1              1              157
  CLUS_2              1              126
  CLUS_3              0              123
  CLUS_4              2               68
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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    145    167    117
D59V4, 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 CLUS_4 CLUS_5
  KIF18B MUTATED        1      1      0      0      1
  KIF18B WILD-TYPE     88     21     59     65    100
D59V5, multiclass
        clus
vv       KIF18B MUTATED KIF18B WILD-TYPE
  CLUS_1              1               88
  CLUS_2              1               21
  CLUS_3              0               59
  CLUS_4              0               65
  CLUS_5              1              100
[1] 5 2
[1] TRUE
[1] "dimension of contingency table 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      3      0
  KIF18B WILD-TYPE    156    118     59
D59V6, multiclass
        clus
vv       KIF18B MUTATED KIF18B WILD-TYPE
  CLUS_1              0              156
  CLUS_2              3              118
  CLUS_3              0               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
  KIF18B MUTATED        1      0      1      2      0
  KIF18B WILD-TYPE    126    109     85    103     51
D59V7, multiclass
        clus
vv       KIF18B MUTATED KIF18B WILD-TYPE
  CLUS_1              1              126
  CLUS_2              0              109
  CLUS_3              1               85
  CLUS_4              2              103
  CLUS_5              0               51
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will 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
D59V8, 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        0      3      1
  KIF18B WILD-TYPE    172    202     98
D59V9, multiclass
        clus
vv       KIF18B MUTATED KIF18B WILD-TYPE
  CLUS_1              0              172
  CLUS_2              3              202
  CLUS_3              1               98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  KIF18B MUTATED        0      0      1      1      2      0
  KIF18B WILD-TYPE     70     37    134    119     84     28
D59V10, multiclass
        clus
vv       KIF18B MUTATED KIF18B WILD-TYPE
  CLUS_1              0               70
  CLUS_2              0               37
  CLUS_3              1              134
  CLUS_4              1              119
  CLUS_5              2               84
  CLUS_6              0               28
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  KIF18B MUTATED        0      0      1      0      0      0
  KIF18B WILD-TYPE     55     85     96     42     60     73
D59V11, 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     96    221     94
D59V12, 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(60) Variable = PDE6A MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PDE6A MUTATED        0      0      1
  PDE6A WILD-TYPE      8      8      3
D60V1, 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
D60V2, 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        4      6      3      3
  PDE6A WILD-TYPE    154    121    120     67
D60V3, multiclass
        clus
vv       PDE6A MUTATED PDE6A WILD-TYPE
  CLUS_1             4             154
  CLUS_2             6             121
  CLUS_3             3             120
  CLUS_4             3              67
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        5      5      2
  PDE6A WILD-TYPE    141    162    115
D60V4, multiclass
        clus
vv       PDE6A MUTATED PDE6A WILD-TYPE
  CLUS_1             5             141
  CLUS_2             5             162
  CLUS_3             2             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
  PDE6A MUTATED        2      0      2      2      3
  PDE6A WILD-TYPE     87     22     57     63     98
D60V5, multiclass
        clus
vv       PDE6A MUTATED PDE6A WILD-TYPE
  CLUS_1             2              87
  CLUS_2             0              22
  CLUS_3             2              57
  CLUS_4             2              63
  CLUS_5             3              98
[1] 5 2
[1] TRUE
[1] "dimension of contingency table 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      6      0
  PDE6A WILD-TYPE    153    115     59
D60V6, multiclass
        clus
vv       PDE6A MUTATED PDE6A WILD-TYPE
  CLUS_1             3             153
  CLUS_2             6             115
  CLUS_3             0              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
  PDE6A MUTATED        4      1      4      7      0
  PDE6A WILD-TYPE    123    108     82     98     51
D60V7, multiclass
        clus
vv       PDE6A MUTATED PDE6A WILD-TYPE
  CLUS_1             4             123
  CLUS_2             1             108
  CLUS_3             4              82
  CLUS_4             7              98
  CLUS_5             0              51
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will 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
D60V8, 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        2     11      2
  PDE6A WILD-TYPE    170    194     97
D60V9, multiclass
        clus
vv       PDE6A MUTATED PDE6A WILD-TYPE
  CLUS_1             2             170
  CLUS_2            11             194
  CLUS_3             2              97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PDE6A MUTATED        1      3      6      0      5      0
  PDE6A WILD-TYPE     69     34    129    120     81     28
D60V10, multiclass
        clus
vv       PDE6A MUTATED PDE6A WILD-TYPE
  CLUS_1             1              69
  CLUS_2             3              34
  CLUS_3             6             129
  CLUS_4             0             120
  CLUS_5             5              81
  CLUS_6             0              28
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PDE6A MUTATED        0      5      2      1      3      1
  PDE6A WILD-TYPE     55     80     95     41     57     72
D60V11, multiclass
        clus
vv       PDE6A MUTATED PDE6A WILD-TYPE
  CLUS_1             0              55
  CLUS_2             5              80
  CLUS_3             2              95
  CLUS_4             1              41
  CLUS_5             3              57
  CLUS_6             1              72
[1] 6 2
[1] TRUE
[1] "dimension of contingency table 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     94    213     93
D60V12, multiclass
        clus
vv       PDE6A MUTATED PDE6A WILD-TYPE
  CLUS_1             2              94
  CLUS_2             9             213
  CLUS_3             1              93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(61) Variable = CHRND MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CHRND MUTATED        0      1      0
  CHRND WILD-TYPE      8      7      4
D61V1, 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
D61V2, 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        7      7      1      1
  CHRND WILD-TYPE    151    120    122     69
D61V3, multiclass
        clus
vv       CHRND MUTATED CHRND WILD-TYPE
  CLUS_1             7             151
  CLUS_2             7             120
  CLUS_3             1             122
  CLUS_4             1              69
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        5      6      2
  CHRND WILD-TYPE    141    161    115
D61V4, multiclass
        clus
vv       CHRND MUTATED CHRND WILD-TYPE
  CLUS_1             5             141
  CLUS_2             6             161
  CLUS_3             2             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
  CHRND MUTATED        3      1      0      5      2
  CHRND WILD-TYPE     86     21     59     60     99
D61V5, multiclass
        clus
vv       CHRND MUTATED CHRND WILD-TYPE
  CLUS_1             3              86
  CLUS_2             1              21
  CLUS_3             0              59
  CLUS_4             5              60
  CLUS_5             2              99
[1] 5 2
[1] TRUE
[1] "dimension of contingency table 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      7      2
  CHRND WILD-TYPE    154    114     57
D61V6, multiclass
        clus
vv       CHRND MUTATED CHRND WILD-TYPE
  CLUS_1             2             154
  CLUS_2             7             114
  CLUS_3             2              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
  CHRND MUTATED        6      2      2      5      1
  CHRND WILD-TYPE    121    107     84    100     50
D61V7, multiclass
        clus
vv       CHRND MUTATED CHRND WILD-TYPE
  CLUS_1             6             121
  CLUS_2             2             107
  CLUS_3             2              84
  CLUS_4             5             100
  CLUS_5             1              50
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will 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      4      2      1      4      1      4
  CHRND WILD-TYPE     72    105     88     43     45     45     64
D61V8, multiclass
        clus
vv       CHRND MUTATED CHRND WILD-TYPE
  CLUS_1             0              72
  CLUS_2             4             105
  CLUS_3             2              88
  CLUS_4             1              43
  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
  CHRND MUTATED        4     10      2
  CHRND WILD-TYPE    168    195     97
D61V9, multiclass
        clus
vv       CHRND MUTATED CHRND WILD-TYPE
  CLUS_1             4             168
  CLUS_2            10             195
  CLUS_3             2              97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CHRND MUTATED        1      1      4      3      7      0
  CHRND WILD-TYPE     69     36    131    117     79     28
D61V10, multiclass
        clus
vv       CHRND MUTATED CHRND WILD-TYPE
  CLUS_1             1              69
  CLUS_2             1              36
  CLUS_3             4             131
  CLUS_4             3             117
  CLUS_5             7              79
  CLUS_6             0              28
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CHRND MUTATED        0      3      3      1      2      3
  CHRND WILD-TYPE     55     82     94     41     58     70
D61V11, multiclass
        clus
vv       CHRND MUTATED CHRND WILD-TYPE
  CLUS_1             0              55
  CLUS_2             3              82
  CLUS_3             3              94
  CLUS_4             1              41
  CLUS_5             2              58
  CLUS_6             3              70
[1] 6 2
[1] TRUE
[1] "dimension of contingency table 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      2
  CHRND WILD-TYPE     93    215     92
D61V12, multiclass
        clus
vv       CHRND MUTATED CHRND WILD-TYPE
  CLUS_1             3              93
  CLUS_2             7             215
  CLUS_3             2              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"

Clustering(62) Variable = KLK1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  KLK1 MUTATED        0      0      0
  KLK1 WILD-TYPE      8      8      4
D62V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  KLK1 MUTATED        0      0      0
  KLK1 WILD-TYPE      7      9      4
D62V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KLK1 MUTATED        4      1      0      3
  KLK1 WILD-TYPE    154    126    123     67
D62V3, multiclass
        clus
vv       KLK1 MUTATED KLK1 WILD-TYPE
  CLUS_1            4            154
  CLUS_2            1            126
  CLUS_3            0            123
  CLUS_4            3             67
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  KLK1 MUTATED        4      3      1
  KLK1 WILD-TYPE    142    164    116
D62V4, multiclass
        clus
vv       KLK1 MUTATED KLK1 WILD-TYPE
  CLUS_1            4            142
  CLUS_2            3            164
  CLUS_3            1            116
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KLK1 MUTATED        0      0      0      1      2
  KLK1 WILD-TYPE     89     22     59     64     99
D62V5, multiclass
        clus
vv       KLK1 MUTATED KLK1 WILD-TYPE
  CLUS_1            0             89
  CLUS_2            0             22
  CLUS_3            0             59
  CLUS_4            1             64
  CLUS_5            2             99
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  KLK1 MUTATED        0      1      2
  KLK1 WILD-TYPE    156    120     57
D62V6, multiclass
        clus
vv       KLK1 MUTATED KLK1 WILD-TYPE
  CLUS_1            0            156
  CLUS_2            1            120
  CLUS_3            2             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
  KLK1 MUTATED        3      2      0      3      0
  KLK1 WILD-TYPE    124    107     86    102     51
D62V7, multiclass
        clus
vv       KLK1 MUTATED KLK1 WILD-TYPE
  CLUS_1            3            124
  CLUS_2            2            107
  CLUS_3            0             86
  CLUS_4            3            102
  CLUS_5            0             51
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  KLK1 MUTATED        1      4      2      0      1      0      0
  KLK1 WILD-TYPE     71    105     88     44     48     46     68
D62V8, multiclass
        clus
vv       KLK1 MUTATED KLK1 WILD-TYPE
  CLUS_1            1             71
  CLUS_2            4            105
  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
  KLK1 MUTATED        2      6      0
  KLK1 WILD-TYPE    170    199     99
D62V9, multiclass
        clus
vv       KLK1 MUTATED KLK1 WILD-TYPE
  CLUS_1            2            170
  CLUS_2            6            199
  CLUS_3            0             99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  KLK1 MUTATED        1      3      2      0      2      0
  KLK1 WILD-TYPE     69     34    133    120     84     28
D62V10, multiclass
        clus
vv       KLK1 MUTATED KLK1 WILD-TYPE
  CLUS_1            1             69
  CLUS_2            3             34
  CLUS_3            2            133
  CLUS_4            0            120
  CLUS_5            2             84
  CLUS_6            0             28
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  KLK1 MUTATED        1      3      1      0      2      1
  KLK1 WILD-TYPE     54     82     96     42     58     72
D62V11, multiclass
        clus
vv       KLK1 MUTATED KLK1 WILD-TYPE
  CLUS_1            1             54
  CLUS_2            3             82
  CLUS_3            1             96
  CLUS_4            0             42
  CLUS_5            2             58
  CLUS_6            1             72
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  KLK1 MUTATED        0      7      1
  KLK1 WILD-TYPE     96    215     93
D62V12, multiclass
        clus
vv       KLK1 MUTATED KLK1 WILD-TYPE
  CLUS_1            0             96
  CLUS_2            7            215
  CLUS_3            1             93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(63) Variable = KLHL5 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KLHL5 MUTATED        1      1      0
  KLHL5 WILD-TYPE      7      7      4
D63V1, 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
D63V2, 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        4      6      2      2
  KLHL5 WILD-TYPE    154    121    121     68
D63V3, multiclass
        clus
vv       KLHL5 MUTATED KLHL5 WILD-TYPE
  CLUS_1             4             154
  CLUS_2             6             121
  CLUS_3             2             121
  CLUS_4             2              68
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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      2
  KLHL5 WILD-TYPE    142    161    115
D63V4, multiclass
        clus
vv       KLHL5 MUTATED KLHL5 WILD-TYPE
  CLUS_1             4             142
  CLUS_2             6             161
  CLUS_3             2             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
  KLHL5 MUTATED        2      1      1      3      3
  KLHL5 WILD-TYPE     87     21     58     62     98
D63V5, multiclass
        clus
vv       KLHL5 MUTATED KLHL5 WILD-TYPE
  CLUS_1             2              87
  CLUS_2             1              21
  CLUS_3             1              58
  CLUS_4             3              62
  CLUS_5             3              98
[1] 5 2
[1] TRUE
[1] "dimension of contingency table 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        2      4      4
  KLHL5 WILD-TYPE    154    117     55
D63V6, multiclass
        clus
vv       KLHL5 MUTATED KLHL5 WILD-TYPE
  CLUS_1             2             154
  CLUS_2             4             117
  CLUS_3             4              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
  KLHL5 MUTATED        3      4      4      1      2
  KLHL5 WILD-TYPE    124    105     82    104     49
D63V7, multiclass
        clus
vv       KLHL5 MUTATED KLHL5 WILD-TYPE
  CLUS_1             3             124
  CLUS_2             4             105
  CLUS_3             4              82
  CLUS_4             1             104
  CLUS_5             2              49
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will 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
D63V8, 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        6      7      1
  KLHL5 WILD-TYPE    166    198     98
D63V9, multiclass
        clus
vv       KLHL5 MUTATED KLHL5 WILD-TYPE
  CLUS_1             6             166
  CLUS_2             7             198
  CLUS_3             1              98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  KLHL5 MUTATED        1      0      6      4      3      0
  KLHL5 WILD-TYPE     69     37    129    116     83     28
D63V10, multiclass
        clus
vv       KLHL5 MUTATED KLHL5 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             0              37
  CLUS_3             6             129
  CLUS_4             4             116
  CLUS_5             3              83
  CLUS_6             0              28
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  KLHL5 MUTATED        1      2      2      0      4      2
  KLHL5 WILD-TYPE     54     83     95     42     56     71
D63V11, multiclass
        clus
vv       KLHL5 MUTATED KLHL5 WILD-TYPE
  CLUS_1             1              54
  CLUS_2             2              83
  CLUS_3             2              95
  CLUS_4             0              42
  CLUS_5             4              56
  CLUS_6             2              71
[1] 6 2
[1] TRUE
[1] "dimension of contingency table 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     93    215     93
D63V12, multiclass
        clus
vv       KLHL5 MUTATED KLHL5 WILD-TYPE
  CLUS_1             3              93
  CLUS_2             7             215
  CLUS_3             1              93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(64) Variable = DSC2 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  DSC2 MUTATED        1      0      0
  DSC2 WILD-TYPE      7      8      4
D64V1, 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
D64V2, 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       10      4      4      2
  DSC2 WILD-TYPE    148    123    119     68
D64V3, multiclass
        clus
vv       DSC2 MUTATED DSC2 WILD-TYPE
  CLUS_1           10            148
  CLUS_2            4            123
  CLUS_3            4            119
  CLUS_4            2             68
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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     10      2
  DSC2 WILD-TYPE    140    157    115
D64V4, multiclass
        clus
vv       DSC2 MUTATED DSC2 WILD-TYPE
  CLUS_1            6            140
  CLUS_2           10            157
  CLUS_3            2            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
  DSC2 MUTATED        0      3      1      2      9
  DSC2 WILD-TYPE     89     19     58     63     92
D64V5, multiclass
        clus
vv       DSC2 MUTATED DSC2 WILD-TYPE
  CLUS_1            0             89
  CLUS_2            3             19
  CLUS_3            1             58
  CLUS_4            2             63
  CLUS_5            9             92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table 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        7      1      7
  DSC2 WILD-TYPE    149    120     52
D64V6, multiclass
        clus
vv       DSC2 MUTATED DSC2 WILD-TYPE
  CLUS_1            7            149
  CLUS_2            1            120
  CLUS_3            7             52
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DSC2 MUTATED        7      6      4      2      1
  DSC2 WILD-TYPE    120    103     82    103     50
D64V7, multiclass
        clus
vv       DSC2 MUTATED DSC2 WILD-TYPE
  CLUS_1            7            120
  CLUS_2            6            103
  CLUS_3            4             82
  CLUS_4            2            103
  CLUS_5            1             50
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will 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
D64V8, 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    166    198     92
D64V9, multiclass
        clus
vv       DSC2 MUTATED DSC2 WILD-TYPE
  CLUS_1            6            166
  CLUS_2            7            198
  CLUS_3            7             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
  DSC2 MUTATED        1      1      5      5      7      1
  DSC2 WILD-TYPE     69     36    130    115     79     27
D64V10, multiclass
        clus
vv       DSC2 MUTATED DSC2 WILD-TYPE
  CLUS_1            1             69
  CLUS_2            1             36
  CLUS_3            5            130
  CLUS_4            5            115
  CLUS_5            7             79
  CLUS_6            1             27
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  DSC2 MUTATED        1      3      8      3      1      1
  DSC2 WILD-TYPE     54     82     89     39     59     72
D64V11, multiclass
        clus
vv       DSC2 MUTATED DSC2 WILD-TYPE
  CLUS_1            1             54
  CLUS_2            3             82
  CLUS_3            8             89
  CLUS_4            3             39
  CLUS_5            1             59
  CLUS_6            1             72
[1] 6 2
[1] TRUE
[1] "dimension of contingency table 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     10      5
  DSC2 WILD-TYPE     94    212     89
D64V12, multiclass
        clus
vv       DSC2 MUTATED DSC2 WILD-TYPE
  CLUS_1            2             94
  CLUS_2           10            212
  CLUS_3            5             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"

Clustering(65) Variable = RNF160 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  RNF160 MUTATED        0      0      1
  RNF160 WILD-TYPE      8      8      3
D65V1, multiclass
[1] "Remove cluster labels:" "RNF160 MUTATED"        
clus
  RNF160 MUTATED RNF160 WILD-TYPE 
               1               19 
      TCGA-05-4244       TCGA-05-4249       TCGA-05-4250       TCGA-35-4122 
"RNF160 WILD-TYPE" "RNF160 WILD-TYPE" "RNF160 WILD-TYPE" "RNF160 WILD-TYPE" 
      TCGA-35-4123       TCGA-44-2656       TCGA-44-2657       TCGA-44-2661 
"RNF160 WILD-TYPE" "RNF160 WILD-TYPE" "RNF160 WILD-TYPE" "RNF160 WILD-TYPE" 
      TCGA-44-2665       TCGA-44-3398       TCGA-44-3918       TCGA-44-3919 
"RNF160 WILD-TYPE" "RNF160 WILD-TYPE" "RNF160 WILD-TYPE" "RNF160 WILD-TYPE" 
      TCGA-44-4112       TCGA-55-1592       TCGA-55-1595       TCGA-64-1676 
"RNF160 WILD-TYPE" "RNF160 WILD-TYPE" "RNF160 WILD-TYPE" "RNF160 WILD-TYPE" 
      TCGA-64-1677       TCGA-67-3772       TCGA-67-3773 
"RNF160 WILD-TYPE" "RNF160 WILD-TYPE" "RNF160 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  RNF160 MUTATED        0      0      1
  RNF160 WILD-TYPE      7      9      3
D65V2, multiclass
[1] "Remove cluster labels:" "RNF160 MUTATED"        
clus
  RNF160 MUTATED RNF160 WILD-TYPE 
               1               19 
      TCGA-05-4244       TCGA-05-4249       TCGA-05-4250       TCGA-35-4122 
"RNF160 WILD-TYPE" "RNF160 WILD-TYPE" "RNF160 WILD-TYPE" "RNF160 WILD-TYPE" 
      TCGA-35-4123       TCGA-44-2656       TCGA-44-2657       TCGA-44-2661 
"RNF160 WILD-TYPE" "RNF160 WILD-TYPE" "RNF160 WILD-TYPE" "RNF160 WILD-TYPE" 
      TCGA-44-2665       TCGA-44-3398       TCGA-44-3918       TCGA-44-3919 
"RNF160 WILD-TYPE" "RNF160 WILD-TYPE" "RNF160 WILD-TYPE" "RNF160 WILD-TYPE" 
      TCGA-44-4112       TCGA-55-1592       TCGA-55-1595       TCGA-64-1676 
"RNF160 WILD-TYPE" "RNF160 WILD-TYPE" "RNF160 WILD-TYPE" "RNF160 WILD-TYPE" 
      TCGA-64-1677       TCGA-67-3772       TCGA-67-3773 
"RNF160 WILD-TYPE" "RNF160 WILD-TYPE" "RNF160 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RNF160 MUTATED        5      6      2      2
  RNF160 WILD-TYPE    153    121    121     68
D65V3, multiclass
        clus
vv       RNF160 MUTATED RNF160 WILD-TYPE
  CLUS_1              5              153
  CLUS_2              6              121
  CLUS_3              2              121
  CLUS_4              2               68
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  RNF160 MUTATED        4      8      1
  RNF160 WILD-TYPE    142    159    116
D65V4, multiclass
        clus
vv       RNF160 MUTATED RNF160 WILD-TYPE
  CLUS_1              4              142
  CLUS_2              8              159
  CLUS_3              1              116
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RNF160 MUTATED        0      1      0      4      6
  RNF160 WILD-TYPE     89     21     59     61     95
D65V5, multiclass
        clus
vv       RNF160 MUTATED RNF160 WILD-TYPE
  CLUS_1              0               89
  CLUS_2              1               21
  CLUS_3              0               59
  CLUS_4              4               61
  CLUS_5              6               95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  RNF160 MUTATED        2      6      3
  RNF160 WILD-TYPE    154    115     56
D65V6, multiclass
        clus
vv       RNF160 MUTATED RNF160 WILD-TYPE
  CLUS_1              2              154
  CLUS_2              6              115
  CLUS_3              3               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
  RNF160 MUTATED        8      2      2      3      0
  RNF160 WILD-TYPE    119    107     84    102     51
D65V7, multiclass
        clus
vv       RNF160 MUTATED RNF160 WILD-TYPE
  CLUS_1              8              119
  CLUS_2              2              107
  CLUS_3              2               84
  CLUS_4              3              102
  CLUS_5              0               51
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  RNF160 MUTATED        1      6      4      1      1      2      0
  RNF160 WILD-TYPE     71    103     86     43     48     44     68
D65V8, multiclass
        clus
vv       RNF160 MUTATED RNF160 WILD-TYPE
  CLUS_1              1               71
  CLUS_2              6              103
  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
  RNF160 MUTATED        3      8      4
  RNF160 WILD-TYPE    169    197     95
D65V9, multiclass
        clus
vv       RNF160 MUTATED RNF160 WILD-TYPE
  CLUS_1              3              169
  CLUS_2              8              197
  CLUS_3              4               95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  RNF160 MUTATED        1      1      9      2      2      0
  RNF160 WILD-TYPE     69     36    126    118     84     28
D65V10, multiclass
        clus
vv       RNF160 MUTATED RNF160 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              1               36
  CLUS_3              9              126
  CLUS_4              2              118
  CLUS_5              2               84
  CLUS_6              0               28
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  RNF160 MUTATED        1      4      2      1      3      2
  RNF160 WILD-TYPE     54     81     95     41     57     71
D65V11, multiclass
        clus
vv       RNF160 MUTATED RNF160 WILD-TYPE
  CLUS_1              1               54
  CLUS_2              4               81
  CLUS_3              2               95
  CLUS_4              1               41
  CLUS_5              3               57
  CLUS_6              2               71
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  RNF160 MUTATED        2     10      1
  RNF160 WILD-TYPE     94    212     93
D65V12, multiclass
        clus
vv       RNF160 MUTATED RNF160 WILD-TYPE
  CLUS_1              2               94
  CLUS_2             10              212
  CLUS_3              1               93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(66) Variable = AIFM1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  AIFM1 MUTATED        0      0      0
  AIFM1 WILD-TYPE      8      8      4
D66V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  AIFM1 MUTATED        0      0      0
  AIFM1 WILD-TYPE      7      9      4
D66V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  AIFM1 MUTATED        3      2      4      3
  AIFM1 WILD-TYPE    155    125    119     67
D66V3, multiclass
        clus
vv       AIFM1 MUTATED AIFM1 WILD-TYPE
  CLUS_1             3             155
  CLUS_2             2             125
  CLUS_3             4             119
  CLUS_4             3              67
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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      6      3
  AIFM1 WILD-TYPE    143    161    114
D66V4, multiclass
        clus
vv       AIFM1 MUTATED AIFM1 WILD-TYPE
  CLUS_1             3             143
  CLUS_2             6             161
  CLUS_3             3             114
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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      0      1      2      6
  AIFM1 WILD-TYPE     89     22     58     63     95
D66V5, multiclass
        clus
vv       AIFM1 MUTATED AIFM1 WILD-TYPE
  CLUS_1             0              89
  CLUS_2             0              22
  CLUS_3             1              58
  CLUS_4             2              63
  CLUS_5             6              95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  AIFM1 MUTATED        1      6      2
  AIFM1 WILD-TYPE    155    115     57
D66V6, multiclass
        clus
vv       AIFM1 MUTATED AIFM1 WILD-TYPE
  CLUS_1             1             155
  CLUS_2             6             115
  CLUS_3             2              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
  AIFM1 MUTATED        2      3      0      5      2
  AIFM1 WILD-TYPE    125    106     86    100     49
D66V7, multiclass
        clus
vv       AIFM1 MUTATED AIFM1 WILD-TYPE
  CLUS_1             2             125
  CLUS_2             3             106
  CLUS_3             0              86
  CLUS_4             5             100
  CLUS_5             2              49
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will 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      0      3      1      2
  AIFM1 WILD-TYPE     69    107     89     44     46     45     66
D66V8, multiclass
        clus
vv       AIFM1 MUTATED AIFM1 WILD-TYPE
  CLUS_1             3              69
  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
  AIFM1 MUTATED        2      7      3
  AIFM1 WILD-TYPE    170    198     96
D66V9, multiclass
        clus
vv       AIFM1 MUTATED AIFM1 WILD-TYPE
  CLUS_1             2             170
  CLUS_2             7             198
  CLUS_3             3              96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  AIFM1 MUTATED        0      2      7      2      0      1
  AIFM1 WILD-TYPE     70     35    128    118     86     27
D66V10, multiclass
        clus
vv       AIFM1 MUTATED AIFM1 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             2              35
  CLUS_3             7             128
  CLUS_4             2             118
  CLUS_5             0              86
  CLUS_6             1              27
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  AIFM1 MUTATED        0      5      2      1      3      1
  AIFM1 WILD-TYPE     55     80     95     41     57     72
D66V11, multiclass
        clus
vv       AIFM1 MUTATED AIFM1 WILD-TYPE
  CLUS_1             0              55
  CLUS_2             5              80
  CLUS_3             2              95
  CLUS_4             1              41
  CLUS_5             3              57
  CLUS_6             1              72
[1] 6 2
[1] TRUE
[1] "dimension of contingency table 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        2      6      4
  AIFM1 WILD-TYPE     94    216     90
D66V12, multiclass
        clus
vv       AIFM1 MUTATED AIFM1 WILD-TYPE
  CLUS_1             2              94
  CLUS_2             6             216
  CLUS_3             4              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"

Clustering(67) Variable = DOT1L MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DOT1L MUTATED        0      0      0
  DOT1L WILD-TYPE      8      8      4
D67V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DOT1L MUTATED        0      0      0
  DOT1L WILD-TYPE      7      9      4
D67V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DOT1L MUTATED        4      6      4      0
  DOT1L WILD-TYPE    154    121    119     70
D67V3, multiclass
        clus
vv       DOT1L MUTATED DOT1L WILD-TYPE
  CLUS_1             4             154
  CLUS_2             6             121
  CLUS_3             4             119
  CLUS_4             0              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
  DOT1L MUTATED        5      7      1
  DOT1L WILD-TYPE    141    160    116
D67V4, multiclass
        clus
vv       DOT1L MUTATED DOT1L WILD-TYPE
  CLUS_1             5             141
  CLUS_2             7             160
  CLUS_3             1             116
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DOT1L MUTATED        1      2      3      4      1
  DOT1L WILD-TYPE     88     20     56     61    100
D67V5, multiclass
        clus
vv       DOT1L MUTATED DOT1L WILD-TYPE
  CLUS_1             1              88
  CLUS_2             2              20
  CLUS_3             3              56
  CLUS_4             4              61
  CLUS_5             1             100
[1] 5 2
[1] TRUE
[1] "dimension of contingency table 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      6      0
  DOT1L WILD-TYPE    151    115     59
D67V6, multiclass
        clus
vv       DOT1L MUTATED DOT1L WILD-TYPE
  CLUS_1             5             151
  CLUS_2             6             115
  CLUS_3             0              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
  DOT1L MUTATED        4      5      3      0      2
  DOT1L WILD-TYPE    123    104     83    105     49
D67V7, multiclass
        clus
vv       DOT1L MUTATED DOT1L WILD-TYPE
  CLUS_1             4             123
  CLUS_2             5             104
  CLUS_3             3              83
  CLUS_4             0             105
  CLUS_5             2              49
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will 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
D67V8, 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    166    200     96
D67V9, multiclass
        clus
vv       DOT1L MUTATED DOT1L WILD-TYPE
  CLUS_1             6             166
  CLUS_2             5             200
  CLUS_3             3              96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  DOT1L MUTATED        4      0      8      1      1      0
  DOT1L WILD-TYPE     66     37    127    119     85     28
D67V10, multiclass
        clus
vv       DOT1L MUTATED DOT1L WILD-TYPE
  CLUS_1             4              66
  CLUS_2             0              37
  CLUS_3             8             127
  CLUS_4             1             119
  CLUS_5             1              85
  CLUS_6             0              28
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  DOT1L MUTATED        3      1      5      0      1      3
  DOT1L WILD-TYPE     52     84     92     42     59     70
D67V11, multiclass
        clus
vv       DOT1L MUTATED DOT1L WILD-TYPE
  CLUS_1             3              52
  CLUS_2             1              84
  CLUS_3             5              92
  CLUS_4             0              42
  CLUS_5             1              59
  CLUS_6             3              70
[1] 6 2
[1] TRUE
[1] "dimension of contingency table 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      6      2
  DOT1L WILD-TYPE     91    216     92
D67V12, multiclass
        clus
vv       DOT1L MUTATED DOT1L WILD-TYPE
  CLUS_1             5              91
  CLUS_2             6             216
  CLUS_3             2              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"

Clustering(68) Variable = MCM9 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MCM9 MUTATED        0      0      0
  MCM9 WILD-TYPE      8      8      4
D68V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MCM9 MUTATED        0      0      0
  MCM9 WILD-TYPE      7      9      4
D68V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MCM9 MUTATED        0      0      1      2
  MCM9 WILD-TYPE    158    127    122     68
D68V3, multiclass
        clus
vv       MCM9 MUTATED MCM9 WILD-TYPE
  CLUS_1            0            158
  CLUS_2            0            127
  CLUS_3            1            122
  CLUS_4            2             68
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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      0      0
  MCM9 WILD-TYPE    145    167    117
D68V4, 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 CLUS_4 CLUS_5
  MCM9 MUTATED        0      0      1      1      0
  MCM9 WILD-TYPE     89     22     58     64    101
D68V5, multiclass
[1] "Remove cluster labels:" "MCM9 MUTATED"          
clus
  MCM9 MUTATED MCM9 WILD-TYPE 
             2            334 
    TCGA-05-4244     TCGA-05-4249     TCGA-05-4250     TCGA-05-4384 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-05-4396     TCGA-05-4397     TCGA-05-4398     TCGA-05-4402 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-05-4405     TCGA-05-4410     TCGA-05-4417     TCGA-05-4418 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-05-4420     TCGA-05-4422     TCGA-05-4426     TCGA-05-4427 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-05-4430     TCGA-05-4434     TCGA-05-5420     TCGA-05-5423 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-05-5425     TCGA-05-5429     TCGA-05-5715     TCGA-35-4122 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-35-4123     TCGA-35-5375     TCGA-38-4626     TCGA-38-4627 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-38-4629     TCGA-38-6178     TCGA-38-A44F     TCGA-44-2656 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-44-2657     TCGA-44-2661     TCGA-44-2665     TCGA-44-3396 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-44-3398     TCGA-44-3918     TCGA-44-3919     TCGA-44-4112 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-44-5643     TCGA-44-5644     TCGA-44-5645     TCGA-44-6144 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-44-6145     TCGA-44-6146     TCGA-44-6147     TCGA-44-6148 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-44-6774     TCGA-44-6775     TCGA-44-6776     TCGA-44-6777 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-44-6778     TCGA-44-6779     TCGA-44-7659     TCGA-44-7660 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-44-7661     TCGA-44-7662     TCGA-44-7667     TCGA-44-7669 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-44-7670     TCGA-44-7671     TCGA-44-7672     TCGA-44-8117 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-44-8119     TCGA-44-A479     TCGA-44-A47A     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-49-4494     TCGA-49-4501     TCGA-49-4505 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-49-4506     TCGA-49-4507     TCGA-49-4510     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-50-5066 
"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-50-5936     TCGA-50-5939 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-50-5941     TCGA-50-5942     TCGA-50-5944     TCGA-50-5946 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-50-6590     TCGA-50-6591     TCGA-50-6592     TCGA-50-6593 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-50-6594     TCGA-50-6595     TCGA-50-6597     TCGA-50-6673 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-50-7109     TCGA-50-8457     TCGA-50-8459     TCGA-50-8460 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-53-7624     TCGA-53-7626     TCGA-53-7813     TCGA-53-A4EZ 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-55-1592     TCGA-55-5899     TCGA-55-6543     TCGA-55-6712 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-55-6969     TCGA-55-6970     TCGA-55-6971     TCGA-55-6978 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-55-6979     TCGA-55-6981     TCGA-55-6982     TCGA-55-7573 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-55-7574     TCGA-55-7728     TCGA-55-7815     TCGA-55-7910 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-55-7911     TCGA-55-8505     TCGA-55-8506     TCGA-55-8507 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-55-8620     TCGA-55-A494     TCGA-62-8394     TCGA-62-8395 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-62-8398     TCGA-62-A46O     TCGA-62-A46P     TCGA-62-A46R 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-62-A46S     TCGA-62-A46V     TCGA-62-A471     TCGA-64-1676 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-64-1677     TCGA-64-1679     TCGA-64-1681     TCGA-64-5774 
"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-67-3771     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-69-8255     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-73-4659     TCGA-73-4670 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-73-4675     TCGA-73-4676     TCGA-73-7498     TCGA-73-7499 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-75-5122     TCGA-75-5125     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-75-7027     TCGA-75-7030     TCGA-75-7031 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-78-7143     TCGA-78-7145     TCGA-78-7146     TCGA-78-7147 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-78-7148     TCGA-78-7149     TCGA-78-7150     TCGA-78-7152 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-78-7153     TCGA-78-7154     TCGA-78-7155     TCGA-78-7156 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-78-7158     TCGA-78-7159     TCGA-78-7160     TCGA-78-7161 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-78-7162     TCGA-78-7163     TCGA-78-7166     TCGA-78-7167 
"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-78-8662 
"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-86-7953     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-86-8673     TCGA-86-A456     TCGA-86-A4JF 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-86-A4P7     TCGA-86-A4P8     TCGA-91-6828     TCGA-91-6829 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-91-6830     TCGA-91-6831     TCGA-91-6835     TCGA-91-6836 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-91-6840     TCGA-91-6847     TCGA-91-6848     TCGA-91-6849 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-91-7771     TCGA-91-8496     TCGA-91-8497     TCGA-91-8499 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-91-A4BC     TCGA-91-A4BD     TCGA-93-7348     TCGA-93-A4JN 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-93-A4JO     TCGA-93-A4JP     TCGA-93-A4JQ     TCGA-95-7039 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-95-7043     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-A4VK     TCGA-95-A4VN     TCGA-95-A4VP 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-97-7546     TCGA-97-7552     TCGA-97-7553     TCGA-97-7554 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-97-7937     TCGA-97-7938     TCGA-97-7941     TCGA-97-8179 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-97-A4M0     TCGA-97-A4M2     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-99-8028     TCGA-J2-8192 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-J2-8194     TCGA-J2-A4AD     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-MP-A4SV     TCGA-MP-A4SW     TCGA-MP-A4SY 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-MP-A4T2     TCGA-MP-A4T4     TCGA-MP-A4T6     TCGA-MP-A4T7 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-MP-A4T8     TCGA-MP-A4T9     TCGA-MP-A4TA     TCGA-MP-A4TC 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-MP-A4TD     TCGA-MP-A4TE     TCGA-MP-A4TF     TCGA-MP-A4TH 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-MP-A4TI     TCGA-MP-A4TK     TCGA-MP-A5C7     TCGA-NJ-A4YF 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-NJ-A4YG     TCGA-NJ-A4YI     TCGA-NJ-A55A     TCGA-NJ-A55O 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-NJ-A55R     TCGA-O1-A52J 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MCM9 MUTATED        1      1      0
  MCM9 WILD-TYPE    155    120     59
D68V6, multiclass
[1] "Remove cluster labels:" "MCM9 MUTATED"          
clus
  MCM9 MUTATED MCM9 WILD-TYPE 
             2            334 
    TCGA-05-4244     TCGA-05-4249     TCGA-05-4250     TCGA-05-4384 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-05-4396     TCGA-05-4397     TCGA-05-4398     TCGA-05-4402 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-05-4405     TCGA-05-4410     TCGA-05-4417     TCGA-05-4418 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-05-4420     TCGA-05-4422     TCGA-05-4426     TCGA-05-4427 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-05-4430     TCGA-05-4434     TCGA-05-5420     TCGA-05-5423 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-05-5425     TCGA-05-5429     TCGA-05-5715     TCGA-35-4122 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-35-4123     TCGA-35-5375     TCGA-38-4626     TCGA-38-4627 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-38-4629     TCGA-38-6178     TCGA-38-A44F     TCGA-44-2656 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-44-2657     TCGA-44-2661     TCGA-44-2665     TCGA-44-3396 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-44-3398     TCGA-44-3918     TCGA-44-3919     TCGA-44-4112 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-44-5643     TCGA-44-5644     TCGA-44-5645     TCGA-44-6144 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-44-6145     TCGA-44-6146     TCGA-44-6147     TCGA-44-6148 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-44-6774     TCGA-44-6775     TCGA-44-6776     TCGA-44-6777 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-44-6778     TCGA-44-6779     TCGA-44-7659     TCGA-44-7660 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-44-7661     TCGA-44-7662     TCGA-44-7667     TCGA-44-7669 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-44-7670     TCGA-44-7671     TCGA-44-7672     TCGA-44-8117 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-44-8119     TCGA-44-A479     TCGA-44-A47A     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-49-4494     TCGA-49-4501     TCGA-49-4505 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-49-4506     TCGA-49-4507     TCGA-49-4510     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-50-5066 
"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-50-5936     TCGA-50-5939 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-50-5941     TCGA-50-5942     TCGA-50-5944     TCGA-50-5946 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-50-6590     TCGA-50-6591     TCGA-50-6592     TCGA-50-6593 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-50-6594     TCGA-50-6595     TCGA-50-6597     TCGA-50-6673 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-50-7109     TCGA-50-8457     TCGA-50-8459     TCGA-50-8460 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-53-7624     TCGA-53-7626     TCGA-53-7813     TCGA-53-A4EZ 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-55-1592     TCGA-55-5899     TCGA-55-6543     TCGA-55-6712 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-55-6969     TCGA-55-6970     TCGA-55-6971     TCGA-55-6978 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-55-6979     TCGA-55-6981     TCGA-55-6982     TCGA-55-7573 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-55-7574     TCGA-55-7728     TCGA-55-7815     TCGA-55-7910 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-55-7911     TCGA-55-8505     TCGA-55-8506     TCGA-55-8507 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-55-8620     TCGA-55-A494     TCGA-62-8394     TCGA-62-8395 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-62-8398     TCGA-62-A46O     TCGA-62-A46P     TCGA-62-A46R 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-62-A46S     TCGA-62-A46V     TCGA-62-A471     TCGA-64-1676 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-64-1677     TCGA-64-1679     TCGA-64-1681     TCGA-64-5774 
"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-67-3771     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-69-8255     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-73-4659     TCGA-73-4670 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-73-4675     TCGA-73-4676     TCGA-73-7498     TCGA-73-7499 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-75-5122     TCGA-75-5125     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-75-7027     TCGA-75-7030     TCGA-75-7031 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-78-7143     TCGA-78-7145     TCGA-78-7146     TCGA-78-7147 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-78-7148     TCGA-78-7149     TCGA-78-7150     TCGA-78-7152 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-78-7153     TCGA-78-7154     TCGA-78-7155     TCGA-78-7156 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-78-7158     TCGA-78-7159     TCGA-78-7160     TCGA-78-7161 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-78-7162     TCGA-78-7163     TCGA-78-7166     TCGA-78-7167 
"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-78-8662 
"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-86-7953     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-86-8673     TCGA-86-A456     TCGA-86-A4JF 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-86-A4P7     TCGA-86-A4P8     TCGA-91-6828     TCGA-91-6829 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-91-6830     TCGA-91-6831     TCGA-91-6835     TCGA-91-6836 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-91-6840     TCGA-91-6847     TCGA-91-6848     TCGA-91-6849 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-91-7771     TCGA-91-8496     TCGA-91-8497     TCGA-91-8499 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-91-A4BC     TCGA-91-A4BD     TCGA-93-7348     TCGA-93-A4JN 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-93-A4JO     TCGA-93-A4JP     TCGA-93-A4JQ     TCGA-95-7039 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-95-7043     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-A4VK     TCGA-95-A4VN     TCGA-95-A4VP 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-97-7546     TCGA-97-7552     TCGA-97-7553     TCGA-97-7554 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-97-7937     TCGA-97-7938     TCGA-97-7941     TCGA-97-8179 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-97-A4M0     TCGA-97-A4M2     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-99-8028     TCGA-J2-8192 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-J2-8194     TCGA-J2-A4AD     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-MP-A4SV     TCGA-MP-A4SW     TCGA-MP-A4SY 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-MP-A4T2     TCGA-MP-A4T4     TCGA-MP-A4T6     TCGA-MP-A4T7 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-MP-A4T8     TCGA-MP-A4T9     TCGA-MP-A4TA     TCGA-MP-A4TC 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-MP-A4TD     TCGA-MP-A4TE     TCGA-MP-A4TF     TCGA-MP-A4TH 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-MP-A4TI     TCGA-MP-A4TK     TCGA-MP-A5C7     TCGA-NJ-A4YF 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-NJ-A4YG     TCGA-NJ-A4YI     TCGA-NJ-A55A     TCGA-NJ-A55O 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
    TCGA-NJ-A55R     TCGA-O1-A52J 
"MCM9 WILD-TYPE" "MCM9 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MCM9 MUTATED        1      1      1      0      0
  MCM9 WILD-TYPE    126    108     85    105     51
D68V7, multiclass
        clus
vv       MCM9 MUTATED MCM9 WILD-TYPE
  CLUS_1            1            126
  CLUS_2            1            108
  CLUS_3            1             85
  CLUS_4            0            105
  CLUS_5            0             51
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will 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
D68V8, 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    171    203     99
D68V9, multiclass
        clus
vv       MCM9 MUTATED MCM9 WILD-TYPE
  CLUS_1            1            171
  CLUS_2            2            203
  CLUS_3            0             99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MCM9 MUTATED        1      0      2      0      0      0
  MCM9 WILD-TYPE     69     37    133    120     86     28
D68V10, multiclass
        clus
vv       MCM9 MUTATED MCM9 WILD-TYPE
  CLUS_1            1             69
  CLUS_2            0             37
  CLUS_3            2            133
  CLUS_4            0            120
  CLUS_5            0             86
  CLUS_6            0             28
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MCM9 MUTATED        0      0      0      0      0      1
  MCM9 WILD-TYPE     55     85     97     42     60     72
D68V11, 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     96    221     94
D68V12, 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(69) Variable = NCKAP1L MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  NCKAP1L MUTATED        0      0      2
  NCKAP1L WILD-TYPE      8      8      2
D69V1, 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
D69V2, 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        6      5      4      4
  NCKAP1L WILD-TYPE    152    122    119     66
D69V3, multiclass
        clus
vv       NCKAP1L MUTATED NCKAP1L WILD-TYPE
  CLUS_1               6               152
  CLUS_2               5               122
  CLUS_3               4               119
  CLUS_4               4                66
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        8      7      1
  NCKAP1L WILD-TYPE    138    160    116
D69V4, multiclass
        clus
vv       NCKAP1L MUTATED NCKAP1L WILD-TYPE
  CLUS_1               8               138
  CLUS_2               7               160
  CLUS_3               1               116
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NCKAP1L MUTATED        3      0      4      3      6
  NCKAP1L WILD-TYPE     86     22     55     62     95
D69V5, multiclass
        clus
vv       NCKAP1L MUTATED NCKAP1L WILD-TYPE
  CLUS_1               3                86
  CLUS_2               0                22
  CLUS_3               4                55
  CLUS_4               3                62
  CLUS_5               6                95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  NCKAP1L MUTATED        6      6      4
  NCKAP1L WILD-TYPE    150    115     55
D69V6, multiclass
        clus
vv       NCKAP1L MUTATED NCKAP1L WILD-TYPE
  CLUS_1               6               150
  CLUS_2               6               115
  CLUS_3               4                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
  NCKAP1L MUTATED        7      2      3      6      1
  NCKAP1L WILD-TYPE    120    107     83     99     50
D69V7, multiclass
        clus
vv       NCKAP1L MUTATED NCKAP1L WILD-TYPE
  CLUS_1               7               120
  CLUS_2               2               107
  CLUS_3               3                83
  CLUS_4               6                99
  CLUS_5               1                50
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will 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
D69V8, 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     13      2
  NCKAP1L WILD-TYPE    168    192     97
D69V9, multiclass
        clus
vv       NCKAP1L MUTATED NCKAP1L WILD-TYPE
  CLUS_1               4               168
  CLUS_2              13               192
  CLUS_3               2                97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  NCKAP1L MUTATED        2      0      7      2      7      1
  NCKAP1L WILD-TYPE     68     37    128    118     79     27
D69V10, multiclass
        clus
vv       NCKAP1L MUTATED NCKAP1L WILD-TYPE
  CLUS_1               2                68
  CLUS_2               0                37
  CLUS_3               7               128
  CLUS_4               2               118
  CLUS_5               7                79
  CLUS_6               1                27
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  NCKAP1L MUTATED        1      4      3      1      3      3
  NCKAP1L WILD-TYPE     54     81     94     41     57     70
D69V11, multiclass
        clus
vv       NCKAP1L MUTATED NCKAP1L WILD-TYPE
  CLUS_1               1                54
  CLUS_2               4                81
  CLUS_3               3                94
  CLUS_4               1                41
  CLUS_5               3                57
  CLUS_6               3                70
[1] 6 2
[1] TRUE
[1] "dimension of contingency table 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     11      2
  NCKAP1L WILD-TYPE     94    211     92
D69V12, multiclass
        clus
vv       NCKAP1L MUTATED NCKAP1L WILD-TYPE
  CLUS_1               2                94
  CLUS_2              11               211
  CLUS_3               2                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"

Clustering(70) Variable = ESYT3 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ESYT3 MUTATED        0      0      0
  ESYT3 WILD-TYPE      8      8      4
D70V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ESYT3 MUTATED        0      0      0
  ESYT3 WILD-TYPE      7      9      4
D70V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ESYT3 MUTATED        1      2      4      1
  ESYT3 WILD-TYPE    157    125    119     69
D70V3, multiclass
        clus
vv       ESYT3 MUTATED ESYT3 WILD-TYPE
  CLUS_1             1             157
  CLUS_2             2             125
  CLUS_3             4             119
  CLUS_4             1              69
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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      3      2
  ESYT3 WILD-TYPE    144    164    115
D70V4, multiclass
        clus
vv       ESYT3 MUTATED ESYT3 WILD-TYPE
  CLUS_1             2             144
  CLUS_2             3             164
  CLUS_3             2             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
  ESYT3 MUTATED        0      0      0      1      4
  ESYT3 WILD-TYPE     89     22     59     64     97
D70V5, multiclass
        clus
vv       ESYT3 MUTATED ESYT3 WILD-TYPE
  CLUS_1             0              89
  CLUS_2             0              22
  CLUS_3             0              59
  CLUS_4             1              64
  CLUS_5             4              97
[1] 5 2
[1] TRUE
[1] "dimension of contingency table 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      2      2
  ESYT3 WILD-TYPE    155    119     57
D70V6, multiclass
        clus
vv       ESYT3 MUTATED ESYT3 WILD-TYPE
  CLUS_1             1             155
  CLUS_2             2             119
  CLUS_3             2              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
  ESYT3 MUTATED        2      2      3      1      0
  ESYT3 WILD-TYPE    125    107     83    104     51
D70V7, multiclass
        clus
vv       ESYT3 MUTATED ESYT3 WILD-TYPE
  CLUS_1             2             125
  CLUS_2             2             107
  CLUS_3             3              83
  CLUS_4             1             104
  CLUS_5             0              51
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will 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
D70V8, 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    169    200     99
D70V9, multiclass
        clus
vv       ESYT3 MUTATED ESYT3 WILD-TYPE
  CLUS_1             3             169
  CLUS_2             5             200
  CLUS_3             0              99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ESYT3 MUTATED        0      0      5      3      0      0
  ESYT3 WILD-TYPE     70     37    130    117     86     28
D70V10, multiclass
        clus
vv       ESYT3 MUTATED ESYT3 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             0              37
  CLUS_3             5             130
  CLUS_4             3             117
  CLUS_5             0              86
  CLUS_6             0              28
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ESYT3 MUTATED        0      1      3      0      1      2
  ESYT3 WILD-TYPE     55     84     94     42     59     71
D70V11, multiclass
        clus
vv       ESYT3 MUTATED ESYT3 WILD-TYPE
  CLUS_1             0              55
  CLUS_2             1              84
  CLUS_3             3              94
  CLUS_4             0              42
  CLUS_5             1              59
  CLUS_6             2              71
[1] 6 2
[1] TRUE
[1] "dimension of contingency table 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     96    217     92
D70V12, multiclass
        clus
vv       ESYT3 MUTATED ESYT3 WILD-TYPE
  CLUS_1             0              96
  CLUS_2             5             217
  CLUS_3             2              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"

Clustering(71) Variable = MIA2 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MIA2 MUTATED        0      0      0
  MIA2 WILD-TYPE      8      8      4
D71V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MIA2 MUTATED        0      0      0
  MIA2 WILD-TYPE      7      9      4
D71V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MIA2 MUTATED        6      3      1      3
  MIA2 WILD-TYPE    152    124    122     67
D71V3, multiclass
        clus
vv       MIA2 MUTATED MIA2 WILD-TYPE
  CLUS_1            6            152
  CLUS_2            3            124
  CLUS_3            1            122
  CLUS_4            3             67
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MIA2 MUTATED        5      5      1
  MIA2 WILD-TYPE    141    162    116
D71V4, multiclass
        clus
vv       MIA2 MUTATED MIA2 WILD-TYPE
  CLUS_1            5            141
  CLUS_2            5            162
  CLUS_3            1            116
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MIA2 MUTATED        3      0      2      2      2
  MIA2 WILD-TYPE     86     22     57     63     99
D71V5, multiclass
        clus
vv       MIA2 MUTATED MIA2 WILD-TYPE
  CLUS_1            3             86
  CLUS_2            0             22
  CLUS_3            2             57
  CLUS_4            2             63
  CLUS_5            2             99
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MIA2 MUTATED        2      6      1
  MIA2 WILD-TYPE    154    115     58
D71V6, multiclass
        clus
vv       MIA2 MUTATED MIA2 WILD-TYPE
  CLUS_1            2            154
  CLUS_2            6            115
  CLUS_3            1             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
  MIA2 MUTATED        3      3      0      7      0
  MIA2 WILD-TYPE    124    106     86     98     51
D71V7, multiclass
        clus
vv       MIA2 MUTATED MIA2 WILD-TYPE
  CLUS_1            3            124
  CLUS_2            3            106
  CLUS_3            0             86
  CLUS_4            7             98
  CLUS_5            0             51
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  MIA2 MUTATED        2      2      5      2      2      0      0
  MIA2 WILD-TYPE     70    107     85     42     47     46     68
D71V8, multiclass
        clus
vv       MIA2 MUTATED MIA2 WILD-TYPE
  CLUS_1            2             70
  CLUS_2            2            107
  CLUS_3            5             85
  CLUS_4            2             42
  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
  MIA2 MUTATED        5      7      1
  MIA2 WILD-TYPE    167    198     98
D71V9, multiclass
        clus
vv       MIA2 MUTATED MIA2 WILD-TYPE
  CLUS_1            5            167
  CLUS_2            7            198
  CLUS_3            1             98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MIA2 MUTATED        2      1      4      2      4      0
  MIA2 WILD-TYPE     68     36    131    118     82     28
D71V10, multiclass
        clus
vv       MIA2 MUTATED MIA2 WILD-TYPE
  CLUS_1            2             68
  CLUS_2            1             36
  CLUS_3            4            131
  CLUS_4            2            118
  CLUS_5            4             82
  CLUS_6            0             28
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MIA2 MUTATED        0      4      4      0      2      1
  MIA2 WILD-TYPE     55     81     93     42     58     72
D71V11, multiclass
        clus
vv       MIA2 MUTATED MIA2 WILD-TYPE
  CLUS_1            0             55
  CLUS_2            4             81
  CLUS_3            4             93
  CLUS_4            0             42
  CLUS_5            2             58
  CLUS_6            1             72
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MIA2 MUTATED        2      8      1
  MIA2 WILD-TYPE     94    214     93
D71V12, multiclass
        clus
vv       MIA2 MUTATED MIA2 WILD-TYPE
  CLUS_1            2             94
  CLUS_2            8            214
  CLUS_3            1             93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(72) Variable = TUBB4 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TUBB4 MUTATED        0      0      0
  TUBB4 WILD-TYPE      8      8      4
D72V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TUBB4 MUTATED        0      0      0
  TUBB4 WILD-TYPE      7      9      4
D72V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TUBB4 MUTATED        6      4      3      4
  TUBB4 WILD-TYPE    152    123    120     66
D72V3, multiclass
        clus
vv       TUBB4 MUTATED TUBB4 WILD-TYPE
  CLUS_1             6             152
  CLUS_2             4             123
  CLUS_3             3             120
  CLUS_4             4              66
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TUBB4 MUTATED        6      6      3
  TUBB4 WILD-TYPE    140    161    114
D72V4, multiclass
        clus
vv       TUBB4 MUTATED TUBB4 WILD-TYPE
  CLUS_1             6             140
  CLUS_2             6             161
  CLUS_3             3             114
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TUBB4 MUTATED        2      0      0      2      4
  TUBB4 WILD-TYPE     87     22     59     63     97
D72V5, multiclass
        clus
vv       TUBB4 MUTATED TUBB4 WILD-TYPE
  CLUS_1             2              87
  CLUS_2             0              22
  CLUS_3             0              59
  CLUS_4             2              63
  CLUS_5             4              97
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TUBB4 MUTATED        2      4      2
  TUBB4 WILD-TYPE    154    117     57
D72V6, multiclass
        clus
vv       TUBB4 MUTATED TUBB4 WILD-TYPE
  CLUS_1             2             154
  CLUS_2             4             117
  CLUS_3             2              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
  TUBB4 MUTATED        7      2      3      4      1
  TUBB4 WILD-TYPE    120    107     83    101     50
D72V7, multiclass
        clus
vv       TUBB4 MUTATED TUBB4 WILD-TYPE
  CLUS_1             7             120
  CLUS_2             2             107
  CLUS_3             3              83
  CLUS_4             4             101
  CLUS_5             1              50
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  TUBB4 MUTATED        1      3      4      2      3      1      3
  TUBB4 WILD-TYPE     71    106     86     42     46     45     65
D72V8, multiclass
        clus
vv       TUBB4 MUTATED TUBB4 WILD-TYPE
  CLUS_1             1              71
  CLUS_2             3             106
  CLUS_3             4              86
  CLUS_4             2              42
  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
  TUBB4 MUTATED        4      9      4
  TUBB4 WILD-TYPE    168    196     95
D72V9, multiclass
        clus
vv       TUBB4 MUTATED TUBB4 WILD-TYPE
  CLUS_1             4             168
  CLUS_2             9             196
  CLUS_3             4              95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TUBB4 MUTATED        1      2      7      3      4      0
  TUBB4 WILD-TYPE     69     35    128    117     82     28
D72V10, multiclass
        clus
vv       TUBB4 MUTATED TUBB4 WILD-TYPE
  CLUS_1             1              69
  CLUS_2             2              35
  CLUS_3             7             128
  CLUS_4             3             117
  CLUS_5             4              82
  CLUS_6             0              28
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TUBB4 MUTATED        1      3      1      2      2      5
  TUBB4 WILD-TYPE     54     82     96     40     58     68
D72V11, multiclass
        clus
vv       TUBB4 MUTATED TUBB4 WILD-TYPE
  CLUS_1             1              54
  CLUS_2             3              82
  CLUS_3             1              96
  CLUS_4             2              40
  CLUS_5             2              58
  CLUS_6             5              68
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TUBB4 MUTATED        2     11      1
  TUBB4 WILD-TYPE     94    211     93
D72V12, multiclass
        clus
vv       TUBB4 MUTATED TUBB4 WILD-TYPE
  CLUS_1             2              94
  CLUS_2            11             211
  CLUS_3             1              93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(73) Variable = ABHD12B MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ABHD12B MUTATED        0      0      0
  ABHD12B WILD-TYPE      8      8      4
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      3      1      1
  ABHD12B WILD-TYPE    156    124    122     69
D73V3, multiclass
        clus
vv       ABHD12B MUTATED ABHD12B WILD-TYPE
  CLUS_1               2               156
  CLUS_2               3               124
  CLUS_3               1               122
  CLUS_4               1                69
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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      4      0
  ABHD12B WILD-TYPE    144    163    117
D73V4, multiclass
        clus
vv       ABHD12B MUTATED ABHD12B WILD-TYPE
  CLUS_1               2               144
  CLUS_2               4               163
  CLUS_3               0               117
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ABHD12B MUTATED        1      0      1      1      0
  ABHD12B WILD-TYPE     88     22     58     64    101
D73V5, multiclass
        clus
vv       ABHD12B MUTATED ABHD12B WILD-TYPE
  CLUS_1               1                88
  CLUS_2               0                22
  CLUS_3               1                58
  CLUS_4               1                64
  CLUS_5               0               101
[1] 5 2
[1] TRUE
[1] "dimension of contingency table 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      1      0
  ABHD12B WILD-TYPE    154    120     59
D73V6, multiclass
        clus
vv       ABHD12B MUTATED ABHD12B WILD-TYPE
  CLUS_1               2               154
  CLUS_2               1               120
  CLUS_3               0                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
  ABHD12B MUTATED        1      1      2      2      1
  ABHD12B WILD-TYPE    126    108     84    103     50
D73V7, multiclass
        clus
vv       ABHD12B MUTATED ABHD12B WILD-TYPE
  CLUS_1               1               126
  CLUS_2               1               108
  CLUS_3               2                84
  CLUS_4               2               103
  CLUS_5               1                50
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will 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      4      3
  ABHD12B WILD-TYPE    172    201     96
D73V9, multiclass
        clus
vv       ABHD12B MUTATED ABHD12B WILD-TYPE
  CLUS_1               0               172
  CLUS_2               4               201
  CLUS_3               3                96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ABHD12B MUTATED        0      2      1      2      2      0
  ABHD12B WILD-TYPE     70     35    134    118     84     28
D73V10, multiclass
        clus
vv       ABHD12B MUTATED ABHD12B WILD-TYPE
  CLUS_1               0                70
  CLUS_2               2                35
  CLUS_3               1               134
  CLUS_4               2               118
  CLUS_5               2                84
  CLUS_6               0                28
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ABHD12B MUTATED        0      2      2      2      0      0
  ABHD12B WILD-TYPE     55     83     95     40     60     73
D73V11, multiclass
        clus
vv       ABHD12B MUTATED ABHD12B WILD-TYPE
  CLUS_1               0                55
  CLUS_2               2                83
  CLUS_3               2                95
  CLUS_4               2                40
  CLUS_5               0                60
  CLUS_6               0                73
[1] 6 2
[1] TRUE
[1] "dimension of contingency table 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     96    218     92
D73V12, multiclass
        clus
vv       ABHD12B MUTATED ABHD12B WILD-TYPE
  CLUS_1               0                96
  CLUS_2               4               218
  CLUS_3               2                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"

Clustering(74) Variable = ANTXR1 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ANTXR1 MUTATED        0      0      0
  ANTXR1 WILD-TYPE      8      8      4
D74V1, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ANTXR1 MUTATED        0      0      0
  ANTXR1 WILD-TYPE      7      9      4
D74V2, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ANTXR1 MUTATED        3      6      7      3
  ANTXR1 WILD-TYPE    155    121    116     67
D74V3, multiclass
        clus
vv       ANTXR1 MUTATED ANTXR1 WILD-TYPE
  CLUS_1              3              155
  CLUS_2              6              121
  CLUS_3              7              116
  CLUS_4              3               67
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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      8      5
  ANTXR1 WILD-TYPE    142    159    112
D74V4, multiclass
        clus
vv       ANTXR1 MUTATED ANTXR1 WILD-TYPE
  CLUS_1              4              142
  CLUS_2              8              159
  CLUS_3              5              112
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ANTXR1 MUTATED        3      1      1      2      4
  ANTXR1 WILD-TYPE     86     21     58     63     97
D74V5, multiclass
        clus
vv       ANTXR1 MUTATED ANTXR1 WILD-TYPE
  CLUS_1              3               86
  CLUS_2              1               21
  CLUS_3              1               58
  CLUS_4              2               63
  CLUS_5              4               97
[1] 5 2
[1] TRUE
[1] "dimension of contingency table 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      4      1
  ANTXR1 WILD-TYPE    150    117     58
D74V6, multiclass
        clus
vv       ANTXR1 MUTATED ANTXR1 WILD-TYPE
  CLUS_1              6              150
  CLUS_2              4              117
  CLUS_3              1               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
  ANTXR1 MUTATED        9      5      1      3      1
  ANTXR1 WILD-TYPE    118    104     85    102     50
D74V7, multiclass
        clus
vv       ANTXR1 MUTATED ANTXR1 WILD-TYPE
  CLUS_1              9              118
  CLUS_2              5              104
  CLUS_3              1               85
  CLUS_4              3              102
  CLUS_5              1               50
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will 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
D74V8, 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        8      8      2
  ANTXR1 WILD-TYPE    164    197     97
D74V9, multiclass
        clus
vv       ANTXR1 MUTATED ANTXR1 WILD-TYPE
  CLUS_1              8              164
  CLUS_2              8              197
  CLUS_3              2               97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ANTXR1 MUTATED        4      0      6      5      2      1
  ANTXR1 WILD-TYPE     66     37    129    115     84     27
D74V10, multiclass
        clus
vv       ANTXR1 MUTATED ANTXR1 WILD-TYPE
  CLUS_1              4               66
  CLUS_2              0               37
  CLUS_3              6              129
  CLUS_4              5              115
  CLUS_5              2               84
  CLUS_6              1               27
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ANTXR1 MUTATED        2      4      4      0      4      2
  ANTXR1 WILD-TYPE     53     81     93     42     56     71
D74V11, multiclass
        clus
vv       ANTXR1 MUTATED ANTXR1 WILD-TYPE
  CLUS_1              2               53
  CLUS_2              4               81
  CLUS_3              4               93
  CLUS_4              0               42
  CLUS_5              4               56
  CLUS_6              2               71
[1] 6 2
[1] TRUE
[1] "dimension of contingency table 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     92    215     89
D74V12, multiclass
        clus
vv       ANTXR1 MUTATED ANTXR1 WILD-TYPE
  CLUS_1              4               92
  CLUS_2              7              215
  CLUS_3              5               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"

Clustering(75) Variable = FLCN MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  FLCN MUTATED        0      0      0
  FLCN WILD-TYPE      8      8      4
D75V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  FLCN MUTATED        0      0      0
  FLCN WILD-TYPE      7      9      4
D75V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FLCN MUTATED        4      2      2      1
  FLCN WILD-TYPE    154    125    121     69
D75V3, multiclass
        clus
vv       FLCN MUTATED FLCN WILD-TYPE
  CLUS_1            4            154
  CLUS_2            2            125
  CLUS_3            2            121
  CLUS_4            1             69
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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      1
  FLCN WILD-TYPE    144    162    116
D75V4, multiclass
        clus
vv       FLCN MUTATED FLCN WILD-TYPE
  CLUS_1            2            144
  CLUS_2            5            162
  CLUS_3            1            116
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FLCN MUTATED        0      0      3      1      2
  FLCN WILD-TYPE     89     22     56     64     99
D75V5, multiclass
        clus
vv       FLCN MUTATED FLCN WILD-TYPE
  CLUS_1            0             89
  CLUS_2            0             22
  CLUS_3            3             56
  CLUS_4            1             64
  CLUS_5            2             99
[1] 5 2
[1] TRUE
[1] "dimension of contingency table 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      3      1
  FLCN WILD-TYPE    154    118     58
D75V6, multiclass
        clus
vv       FLCN MUTATED FLCN WILD-TYPE
  CLUS_1            2            154
  CLUS_2            3            118
  CLUS_3            1             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
  FLCN MUTATED        2      3      3      1      0
  FLCN WILD-TYPE    125    106     83    104     51
D75V7, multiclass
        clus
vv       FLCN MUTATED FLCN WILD-TYPE
  CLUS_1            2            125
  CLUS_2            3            106
  CLUS_3            3             83
  CLUS_4            1            104
  CLUS_5            0             51
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will 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      0      2      1
  FLCN WILD-TYPE     71    106     89     43     49     44     67
D75V8, 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            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
  FLCN MUTATED        5      3      1
  FLCN WILD-TYPE    167    202     98
D75V9, multiclass
        clus
vv       FLCN MUTATED FLCN WILD-TYPE
  CLUS_1            5            167
  CLUS_2            3            202
  CLUS_3            1             98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  FLCN MUTATED        2      0      3      4      0      0
  FLCN WILD-TYPE     68     37    132    116     86     28
D75V10, multiclass
        clus
vv       FLCN MUTATED FLCN WILD-TYPE
  CLUS_1            2             68
  CLUS_2            0             37
  CLUS_3            3            132
  CLUS_4            4            116
  CLUS_5            0             86
  CLUS_6            0             28
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  FLCN MUTATED        0      1      3      1      1      2
  FLCN WILD-TYPE     55     84     94     41     59     71
D75V11, multiclass
        clus
vv       FLCN MUTATED FLCN WILD-TYPE
  CLUS_1            0             55
  CLUS_2            1             84
  CLUS_3            3             94
  CLUS_4            1             41
  CLUS_5            1             59
  CLUS_6            2             71
[1] 6 2
[1] TRUE
[1] "dimension of contingency table 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      2
  FLCN WILD-TYPE     94    218     92
D75V12, multiclass
        clus
vv       FLCN MUTATED FLCN WILD-TYPE
  CLUS_1            2             94
  CLUS_2            4            218
  CLUS_3            2             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"

Clustering(76) Variable = ZNF556 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF556 MUTATED        0      0      0
  ZNF556 WILD-TYPE      8      8      4
D76V1, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF556 MUTATED        0      0      0
  ZNF556 WILD-TYPE      7      9      4
D76V2, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZNF556 MUTATED        3      5      1      3
  ZNF556 WILD-TYPE    155    122    122     67
D76V3, multiclass
        clus
vv       ZNF556 MUTATED ZNF556 WILD-TYPE
  CLUS_1              3              155
  CLUS_2              5              122
  CLUS_3              1              122
  CLUS_4              3               67
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        6      4      1
  ZNF556 WILD-TYPE    140    163    116
D76V4, multiclass
        clus
vv       ZNF556 MUTATED ZNF556 WILD-TYPE
  CLUS_1              6              140
  CLUS_2              4              163
  CLUS_3              1              116
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF556 MUTATED        3      0      0      1      3
  ZNF556 WILD-TYPE     86     22     59     64     98
D76V5, multiclass
        clus
vv       ZNF556 MUTATED ZNF556 WILD-TYPE
  CLUS_1              3               86
  CLUS_2              0               22
  CLUS_3              0               59
  CLUS_4              1               64
  CLUS_5              3               98
[1] 5 2
[1] TRUE
[1] "dimension of contingency table 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        4      2      1
  ZNF556 WILD-TYPE    152    119     58
D76V6, multiclass
        clus
vv       ZNF556 MUTATED ZNF556 WILD-TYPE
  CLUS_1              4              152
  CLUS_2              2              119
  CLUS_3              1               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
  ZNF556 MUTATED        8      1      1      2      0
  ZNF556 WILD-TYPE    119    108     85    103     51
D76V7, multiclass
        clus
vv       ZNF556 MUTATED ZNF556 WILD-TYPE
  CLUS_1              8              119
  CLUS_2              1              108
  CLUS_3              1               85
  CLUS_4              2              103
  CLUS_5              0               51
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will 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
D76V8, 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    170    199     95
D76V9, multiclass
        clus
vv       ZNF556 MUTATED ZNF556 WILD-TYPE
  CLUS_1              2              170
  CLUS_2              6              199
  CLUS_3              4               95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ZNF556 MUTATED        1      0      6      1      4      0
  ZNF556 WILD-TYPE     69     37    129    119     82     28
D76V10, multiclass
        clus
vv       ZNF556 MUTATED ZNF556 WILD-TYPE
  CLUS_1              1               69
  CLUS_2              0               37
  CLUS_3              6              129
  CLUS_4              1              119
  CLUS_5              4               82
  CLUS_6              0               28
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ZNF556 MUTATED        0      3      2      1      0      5
  ZNF556 WILD-TYPE     55     82     95     41     60     68
D76V11, multiclass
        clus
vv       ZNF556 MUTATED ZNF556 WILD-TYPE
  CLUS_1              0               55
  CLUS_2              3               82
  CLUS_3              2               95
  CLUS_4              1               41
  CLUS_5              0               60
  CLUS_6              5               68
[1] 6 2
[1] TRUE
[1] "dimension of contingency table 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     96    212     93
D76V12, multiclass
        clus
vv       ZNF556 MUTATED ZNF556 WILD-TYPE
  CLUS_1              0               96
  CLUS_2             10              212
  CLUS_3              1               93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(77) Variable = ASCL3 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ASCL3 MUTATED        0      0      0
  ASCL3 WILD-TYPE      8      8      4
D77V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ASCL3 MUTATED        0      0      0
  ASCL3 WILD-TYPE      7      9      4
D77V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ASCL3 MUTATED        3      3      1      0
  ASCL3 WILD-TYPE    155    124    122     70
D77V3, multiclass
        clus
vv       ASCL3 MUTATED ASCL3 WILD-TYPE
  CLUS_1             3             155
  CLUS_2             3             124
  CLUS_3             1             122
  CLUS_4             0              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
  ASCL3 MUTATED        2      3      0
  ASCL3 WILD-TYPE    144    164    117
D77V4, multiclass
        clus
vv       ASCL3 MUTATED ASCL3 WILD-TYPE
  CLUS_1             2             144
  CLUS_2             3             164
  CLUS_3             0             117
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ASCL3 MUTATED        1      1      0      0      2
  ASCL3 WILD-TYPE     88     21     59     65     99
D77V5, multiclass
        clus
vv       ASCL3 MUTATED ASCL3 WILD-TYPE
  CLUS_1             1              88
  CLUS_2             1              21
  CLUS_3             0              59
  CLUS_4             0              65
  CLUS_5             2              99
[1] 5 2
[1] TRUE
[1] "dimension of contingency table 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      0
  ASCL3 WILD-TYPE    155    118     59
D77V6, multiclass
        clus
vv       ASCL3 MUTATED ASCL3 WILD-TYPE
  CLUS_1             1             155
  CLUS_2             3             118
  CLUS_3             0              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
  ASCL3 MUTATED        4      1      1      1      0
  ASCL3 WILD-TYPE    123    108     85    104     51
D77V7, multiclass
        clus
vv       ASCL3 MUTATED ASCL3 WILD-TYPE
  CLUS_1             4             123
  CLUS_2             1             108
  CLUS_3             1              85
  CLUS_4             1             104
  CLUS_5             0              51
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will 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
D77V8, 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        1      4      2
  ASCL3 WILD-TYPE    171    201     97
D77V9, multiclass
        clus
vv       ASCL3 MUTATED ASCL3 WILD-TYPE
  CLUS_1             1             171
  CLUS_2             4             201
  CLUS_3             2              97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ASCL3 MUTATED        0      0      4      0      3      0
  ASCL3 WILD-TYPE     70     37    131    120     83     28
D77V10, multiclass
        clus
vv       ASCL3 MUTATED ASCL3 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             0              37
  CLUS_3             4             131
  CLUS_4             0             120
  CLUS_5             3              83
  CLUS_6             0              28
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ASCL3 MUTATED        0      1      1      0      2      1
  ASCL3 WILD-TYPE     55     84     96     42     58     72
D77V11, multiclass
        clus
vv       ASCL3 MUTATED ASCL3 WILD-TYPE
  CLUS_1             0              55
  CLUS_2             1              84
  CLUS_3             1              96
  CLUS_4             0              42
  CLUS_5             2              58
  CLUS_6             1              72
[1] 6 2
[1] TRUE
[1] "dimension of contingency table 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      2      1
  ASCL3 WILD-TYPE     94    220     93
D77V12, multiclass
        clus
vv       ASCL3 MUTATED ASCL3 WILD-TYPE
  CLUS_1             2              94
  CLUS_2             2             220
  CLUS_3             1              93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(78) Variable = DSG3 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  DSG3 MUTATED        1      0      1
  DSG3 WILD-TYPE      7      8      3
D78V1, multiclass
[1] "Remove cluster labels:" "DSG3 MUTATED"          
clus
  DSG3 MUTATED DSG3 WILD-TYPE 
             2             18 
    TCGA-05-4244     TCGA-05-4249     TCGA-05-4250     TCGA-35-4122 
"DSG3 WILD-TYPE" "DSG3 WILD-TYPE" "DSG3 WILD-TYPE" "DSG3 WILD-TYPE" 
    TCGA-35-4123     TCGA-44-2657     TCGA-44-2661     TCGA-44-2665 
"DSG3 WILD-TYPE" "DSG3 WILD-TYPE" "DSG3 WILD-TYPE" "DSG3 WILD-TYPE" 
    TCGA-44-3398     TCGA-44-3918     TCGA-44-3919     TCGA-44-4112 
"DSG3 WILD-TYPE" "DSG3 WILD-TYPE" "DSG3 WILD-TYPE" "DSG3 WILD-TYPE" 
    TCGA-55-1595     TCGA-64-1676     TCGA-64-1677     TCGA-67-3771 
"DSG3 WILD-TYPE" "DSG3 WILD-TYPE" "DSG3 WILD-TYPE" "DSG3 WILD-TYPE" 
    TCGA-67-3772     TCGA-67-3773 
"DSG3 WILD-TYPE" "DSG3 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  DSG3 MUTATED        1      0      1
  DSG3 WILD-TYPE      6      9      3
D78V2, multiclass
[1] "Remove cluster labels:" "DSG3 MUTATED"          
clus
  DSG3 MUTATED DSG3 WILD-TYPE 
             2             18 
    TCGA-05-4244     TCGA-05-4249     TCGA-05-4250     TCGA-35-4122 
"DSG3 WILD-TYPE" "DSG3 WILD-TYPE" "DSG3 WILD-TYPE" "DSG3 WILD-TYPE" 
    TCGA-35-4123     TCGA-44-2657     TCGA-44-2661     TCGA-44-2665 
"DSG3 WILD-TYPE" "DSG3 WILD-TYPE" "DSG3 WILD-TYPE" "DSG3 WILD-TYPE" 
    TCGA-44-3398     TCGA-44-3918     TCGA-44-3919     TCGA-44-4112 
"DSG3 WILD-TYPE" "DSG3 WILD-TYPE" "DSG3 WILD-TYPE" "DSG3 WILD-TYPE" 
    TCGA-55-1595     TCGA-64-1676     TCGA-64-1677     TCGA-67-3771 
"DSG3 WILD-TYPE" "DSG3 WILD-TYPE" "DSG3 WILD-TYPE" "DSG3 WILD-TYPE" 
    TCGA-67-3772     TCGA-67-3773 
"DSG3 WILD-TYPE" "DSG3 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DSG3 MUTATED       14     12      4      3
  DSG3 WILD-TYPE    144    115    119     67
D78V3, multiclass
        clus
vv       DSG3 MUTATED DSG3 WILD-TYPE
  CLUS_1           14            144
  CLUS_2           12            115
  CLUS_3            4            119
  CLUS_4            3             67
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  DSG3 MUTATED        9     15      5
  DSG3 WILD-TYPE    137    152    112
D78V4, multiclass
        clus
vv       DSG3 MUTATED DSG3 WILD-TYPE
  CLUS_1            9            137
  CLUS_2           15            152
  CLUS_3            5            112
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DSG3 MUTATED       10      1      2      2     10
  DSG3 WILD-TYPE     79     21     57     63     91
D78V5, multiclass
        clus
vv       DSG3 MUTATED DSG3 WILD-TYPE
  CLUS_1           10             79
  CLUS_2            1             21
  CLUS_3            2             57
  CLUS_4            2             63
  CLUS_5           10             91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  DSG3 MUTATED       12      8      5
  DSG3 WILD-TYPE    144    113     54
D78V6, multiclass
        clus
vv       DSG3 MUTATED DSG3 WILD-TYPE
  CLUS_1           12            144
  CLUS_2            8            113
  CLUS_3            5             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
  DSG3 MUTATED       14      4      5      6      4
  DSG3 WILD-TYPE    113    105     81     99     47
D78V7, multiclass
        clus
vv       DSG3 MUTATED DSG3 WILD-TYPE
  CLUS_1           14            113
  CLUS_2            4            105
  CLUS_3            5             81
  CLUS_4            6             99
  CLUS_5            4             47
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  DSG3 MUTATED        3     12      5      2      3      3      5
  DSG3 WILD-TYPE     69     97     85     42     46     43     63
D78V8, multiclass
        clus
vv       DSG3 MUTATED DSG3 WILD-TYPE
  CLUS_1            3             69
  CLUS_2           12             97
  CLUS_3            5             85
  CLUS_4            2             42
  CLUS_5            3             46
  CLUS_6            3             43
  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
  DSG3 MUTATED        9     17      6
  DSG3 WILD-TYPE    163    188     93
D78V9, multiclass
        clus
vv       DSG3 MUTATED DSG3 WILD-TYPE
  CLUS_1            9            163
  CLUS_2           17            188
  CLUS_3            6             93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  DSG3 MUTATED        5      3     10      5      8      1
  DSG3 WILD-TYPE     65     34    125    115     78     27
D78V10, multiclass
        clus
vv       DSG3 MUTATED DSG3 WILD-TYPE
  CLUS_1            5             65
  CLUS_2            3             34
  CLUS_3           10            125
  CLUS_4            5            115
  CLUS_5            8             78
  CLUS_6            1             27
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  DSG3 MUTATED        1      8      8      3      3      5
  DSG3 WILD-TYPE     54     77     89     39     57     68
D78V11, multiclass
        clus
vv       DSG3 MUTATED DSG3 WILD-TYPE
  CLUS_1            1             54
  CLUS_2            8             77
  CLUS_3            8             89
  CLUS_4            3             39
  CLUS_5            3             57
  CLUS_6            5             68
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  DSG3 MUTATED        8     15      5
  DSG3 WILD-TYPE     88    207     89
D78V12, multiclass
        clus
vv       DSG3 MUTATED DSG3 WILD-TYPE
  CLUS_1            8             88
  CLUS_2           15            207
  CLUS_3            5             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"

Clustering(79) Variable = C5AR1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  C5AR1 MUTATED        0      0      0
  C5AR1 WILD-TYPE      8      8      4
D79V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  C5AR1 MUTATED        0      0      0
  C5AR1 WILD-TYPE      7      9      4
D79V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  C5AR1 MUTATED        3      2      0      1
  C5AR1 WILD-TYPE    155    125    123     69
D79V3, multiclass
        clus
vv       C5AR1 MUTATED C5AR1 WILD-TYPE
  CLUS_1             3             155
  CLUS_2             2             125
  CLUS_3             0             123
  CLUS_4             1              69
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        3      3      0
  C5AR1 WILD-TYPE    143    164    117
D79V4, multiclass
        clus
vv       C5AR1 MUTATED C5AR1 WILD-TYPE
  CLUS_1             3             143
  CLUS_2             3             164
  CLUS_3             0             117
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C5AR1 MUTATED        0      0      0      2      3
  C5AR1 WILD-TYPE     89     22     59     63     98
D79V5, multiclass
        clus
vv       C5AR1 MUTATED C5AR1 WILD-TYPE
  CLUS_1             0              89
  CLUS_2             0              22
  CLUS_3             0              59
  CLUS_4             2              63
  CLUS_5             3              98
[1] 5 2
[1] TRUE
[1] "dimension of contingency table 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        3      2      0
  C5AR1 WILD-TYPE    153    119     59
D79V6, multiclass
        clus
vv       C5AR1 MUTATED C5AR1 WILD-TYPE
  CLUS_1             3             153
  CLUS_2             2             119
  CLUS_3             0              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
  C5AR1 MUTATED        3      0      1      2      0
  C5AR1 WILD-TYPE    124    109     85    103     51
D79V7, multiclass
        clus
vv       C5AR1 MUTATED C5AR1 WILD-TYPE
  CLUS_1             3             124
  CLUS_2             0             109
  CLUS_3             1              85
  CLUS_4             2             103
  CLUS_5             0              51
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will 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
D79V8, 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        1      3      2
  C5AR1 WILD-TYPE    171    202     97
D79V9, multiclass
        clus
vv       C5AR1 MUTATED C5AR1 WILD-TYPE
  CLUS_1             1             171
  CLUS_2             3             202
  CLUS_3             2              97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  C5AR1 MUTATED        0      1      2      0      2      1
  C5AR1 WILD-TYPE     70     36    133    120     84     27
D79V10, multiclass
        clus
vv       C5AR1 MUTATED C5AR1 WILD-TYPE
  CLUS_1             0              70
  CLUS_2             1              36
  CLUS_3             2             133
  CLUS_4             0             120
  CLUS_5             2              84
  CLUS_6             1              27
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  C5AR1 MUTATED        0      2      3      1      0      0
  C5AR1 WILD-TYPE     55     83     94     41     60     73
D79V11, multiclass
        clus
vv       C5AR1 MUTATED C5AR1 WILD-TYPE
  CLUS_1             0              55
  CLUS_2             2              83
  CLUS_3             3              94
  CLUS_4             1              41
  CLUS_5             0              60
  CLUS_6             0              73
[1] 6 2
[1] TRUE
[1] "dimension of contingency table 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     96    219     91
D79V12, multiclass
        clus
vv       C5AR1 MUTATED C5AR1 WILD-TYPE
  CLUS_1             0              96
  CLUS_2             3             219
  CLUS_3             3              91
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(80) Variable = ASXL2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ASXL2 MUTATED        0      1      0
  ASXL2 WILD-TYPE      8      7      4
D80V1, 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
D80V2, 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        3      5      4      5
  ASXL2 WILD-TYPE    155    122    119     65
D80V3, multiclass
        clus
vv       ASXL2 MUTATED ASXL2 WILD-TYPE
  CLUS_1             3             155
  CLUS_2             5             122
  CLUS_3             4             119
  CLUS_4             5              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
  ASXL2 MUTATED        7      6      3
  ASXL2 WILD-TYPE    139    161    114
D80V4, multiclass
        clus
vv       ASXL2 MUTATED ASXL2 WILD-TYPE
  CLUS_1             7             139
  CLUS_2             6             161
  CLUS_3             3             114
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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      2      3      5
  ASXL2 WILD-TYPE     88     21     57     62     96
D80V5, multiclass
        clus
vv       ASXL2 MUTATED ASXL2 WILD-TYPE
  CLUS_1             1              88
  CLUS_2             1              21
  CLUS_3             2              57
  CLUS_4             3              62
  CLUS_5             5              96
[1] 5 2
[1] TRUE
[1] "dimension of contingency table 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      7      3
  ASXL2 WILD-TYPE    154    114     56
D80V6, multiclass
        clus
vv       ASXL2 MUTATED ASXL2 WILD-TYPE
  CLUS_1             2             154
  CLUS_2             7             114
  CLUS_3             3              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
  ASXL2 MUTATED        3      2      4      7      2
  ASXL2 WILD-TYPE    124    107     82     98     49
D80V7, multiclass
        clus
vv       ASXL2 MUTATED ASXL2 WILD-TYPE
  CLUS_1             3             124
  CLUS_2             2             107
  CLUS_3             4              82
  CLUS_4             7              98
  CLUS_5             2              49
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will 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
D80V8, 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    168    196     94
D80V9, multiclass
        clus
vv       ASXL2 MUTATED ASXL2 WILD-TYPE
  CLUS_1             4             168
  CLUS_2             9             196
  CLUS_3             5              94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ASXL2 MUTATED        2      0      6      3      6      1
  ASXL2 WILD-TYPE     68     37    129    117     80     27
D80V10, multiclass
        clus
vv       ASXL2 MUTATED ASXL2 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             0              37
  CLUS_3             6             129
  CLUS_4             3             117
  CLUS_5             6              80
  CLUS_6             1              27
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ASXL2 MUTATED        0      7      1      2      2      4
  ASXL2 WILD-TYPE     55     78     96     40     58     69
D80V11, multiclass
        clus
vv       ASXL2 MUTATED ASXL2 WILD-TYPE
  CLUS_1             0              55
  CLUS_2             7              78
  CLUS_3             1              96
  CLUS_4             2              40
  CLUS_5             2              58
  CLUS_6             4              69
[1] 6 2
[1] TRUE
[1] "dimension of contingency table 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     11      2
  ASXL2 WILD-TYPE     93    211     92
D80V12, multiclass
        clus
vv       ASXL2 MUTATED ASXL2 WILD-TYPE
  CLUS_1             3              93
  CLUS_2            11             211
  CLUS_3             2              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"

Clustering(81) Variable = DLX5 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  DLX5 MUTATED        0      0      0
  DLX5 WILD-TYPE      8      8      4
D81V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  DLX5 MUTATED        0      0      0
  DLX5 WILD-TYPE      7      9      4
D81V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DLX5 MUTATED        5      2      2      4
  DLX5 WILD-TYPE    153    125    121     66
D81V3, multiclass
        clus
vv       DLX5 MUTATED DLX5 WILD-TYPE
  CLUS_1            5            153
  CLUS_2            2            125
  CLUS_3            2            121
  CLUS_4            4             66
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        5      4      3
  DLX5 WILD-TYPE    141    163    114
D81V4, multiclass
        clus
vv       DLX5 MUTATED DLX5 WILD-TYPE
  CLUS_1            5            141
  CLUS_2            4            163
  CLUS_3            3            114
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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        3      2      0      3      1
  DLX5 WILD-TYPE     86     20     59     62    100
D81V5, multiclass
        clus
vv       DLX5 MUTATED DLX5 WILD-TYPE
  CLUS_1            3             86
  CLUS_2            2             20
  CLUS_3            0             59
  CLUS_4            3             62
  CLUS_5            1            100
[1] 5 2
[1] TRUE
[1] "dimension of contingency table 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      5      0
  DLX5 WILD-TYPE    152    116     59
D81V6, multiclass
        clus
vv       DLX5 MUTATED DLX5 WILD-TYPE
  CLUS_1            4            152
  CLUS_2            5            116
  CLUS_3            0             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
  DLX5 MUTATED        3      1      4      3      2
  DLX5 WILD-TYPE    124    108     82    102     49
D81V7, multiclass
        clus
vv       DLX5 MUTATED DLX5 WILD-TYPE
  CLUS_1            3            124
  CLUS_2            1            108
  CLUS_3            4             82
  CLUS_4            3            102
  CLUS_5            2             49
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will 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
D81V8, 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    172    195     96
D81V9, multiclass
        clus
vv       DLX5 MUTATED DLX5 WILD-TYPE
  CLUS_1            0            172
  CLUS_2           10            195
  CLUS_3            3             96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  DLX5 MUTATED        0      1      6      2      4      0
  DLX5 WILD-TYPE     70     36    129    118     82     28
D81V10, multiclass
        clus
vv       DLX5 MUTATED DLX5 WILD-TYPE
  CLUS_1            0             70
  CLUS_2            1             36
  CLUS_3            6            129
  CLUS_4            2            118
  CLUS_5            4             82
  CLUS_6            0             28
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  DLX5 MUTATED        0      3      2      0      4      3
  DLX5 WILD-TYPE     55     82     95     42     56     70
D81V11, multiclass
        clus
vv       DLX5 MUTATED DLX5 WILD-TYPE
  CLUS_1            0             55
  CLUS_2            3             82
  CLUS_3            2             95
  CLUS_4            0             42
  CLUS_5            4             56
  CLUS_6            3             70
[1] 6 2
[1] TRUE
[1] "dimension of contingency table 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     95    212     93
D81V12, multiclass
        clus
vv       DLX5 MUTATED DLX5 WILD-TYPE
  CLUS_1            1             95
  CLUS_2           10            212
  CLUS_3            1             93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(82) Variable = ATAD2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ATAD2 MUTATED        0      0      0
  ATAD2 WILD-TYPE      8      8      4
D82V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ATAD2 MUTATED        0      0      0
  ATAD2 WILD-TYPE      7      9      4
D82V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ATAD2 MUTATED        4      4      3      3
  ATAD2 WILD-TYPE    154    123    120     67
D82V3, multiclass
        clus
vv       ATAD2 MUTATED ATAD2 WILD-TYPE
  CLUS_1             4             154
  CLUS_2             4             123
  CLUS_3             3             120
  CLUS_4             3              67
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        6      7      0
  ATAD2 WILD-TYPE    140    160    117
D82V4, multiclass
        clus
vv       ATAD2 MUTATED ATAD2 WILD-TYPE
  CLUS_1             6             140
  CLUS_2             7             160
  CLUS_3             0             117
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ATAD2 MUTATED        1      0      2      5      1
  ATAD2 WILD-TYPE     88     22     57     60    100
D82V5, multiclass
        clus
vv       ATAD2 MUTATED ATAD2 WILD-TYPE
  CLUS_1             1              88
  CLUS_2             0              22
  CLUS_3             2              57
  CLUS_4             5              60
  CLUS_5             1             100
[1] 5 2
[1] TRUE
[1] "dimension of contingency table 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        5      4      0
  ATAD2 WILD-TYPE    151    117     59
D82V6, multiclass
        clus
vv       ATAD2 MUTATED ATAD2 WILD-TYPE
  CLUS_1             5             151
  CLUS_2             4             117
  CLUS_3             0              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
  ATAD2 MUTATED        7      2      1      2      1
  ATAD2 WILD-TYPE    120    107     85    103     50
D82V7, multiclass
        clus
vv       ATAD2 MUTATED ATAD2 WILD-TYPE
  CLUS_1             7             120
  CLUS_2             2             107
  CLUS_3             1              85
  CLUS_4             2             103
  CLUS_5             1              50
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will 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
D82V8, 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    169    198     95
D82V9, multiclass
        clus
vv       ATAD2 MUTATED ATAD2 WILD-TYPE
  CLUS_1             3             169
  CLUS_2             7             198
  CLUS_3             4              95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ATAD2 MUTATED        2      0      7      0      5      0
  ATAD2 WILD-TYPE     68     37    128    120     81     28
D82V10, multiclass
        clus
vv       ATAD2 MUTATED ATAD2 WILD-TYPE
  CLUS_1             2              68
  CLUS_2             0              37
  CLUS_3             7             128
  CLUS_4             0             120
  CLUS_5             5              81
  CLUS_6             0              28
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ATAD2 MUTATED        1      2      4      1      1      4
  ATAD2 WILD-TYPE     54     83     93     41     59     69
D82V11, multiclass
        clus
vv       ATAD2 MUTATED ATAD2 WILD-TYPE
  CLUS_1             1              54
  CLUS_2             2              83
  CLUS_3             4              93
  CLUS_4             1              41
  CLUS_5             1              59
  CLUS_6             4              69
[1] 6 2
[1] TRUE
[1] "dimension of contingency table 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     94    212     93
D82V12, multiclass
        clus
vv       ATAD2 MUTATED ATAD2 WILD-TYPE
  CLUS_1             2              94
  CLUS_2            10             212
  CLUS_3             1              93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(83) Variable = RAF1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RAF1 MUTATED        0      0      0
  RAF1 WILD-TYPE      8      8      4
D83V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RAF1 MUTATED        0      0      0
  RAF1 WILD-TYPE      7      9      4
D83V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RAF1 MUTATED        3      2      0      1
  RAF1 WILD-TYPE    155    125    123     69
D83V3, multiclass
        clus
vv       RAF1 MUTATED RAF1 WILD-TYPE
  CLUS_1            3            155
  CLUS_2            2            125
  CLUS_3            0            123
  CLUS_4            1             69
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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    144    165    115
D83V4, multiclass
        clus
vv       RAF1 MUTATED RAF1 WILD-TYPE
  CLUS_1            2            144
  CLUS_2            2            165
  CLUS_3            2            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
  RAF1 MUTATED        0      1      0      1      3
  RAF1 WILD-TYPE     89     21     59     64     98
D83V5, multiclass
        clus
vv       RAF1 MUTATED RAF1 WILD-TYPE
  CLUS_1            0             89
  CLUS_2            1             21
  CLUS_3            0             59
  CLUS_4            1             64
  CLUS_5            3             98
[1] 5 2
[1] TRUE
[1] "dimension of contingency table 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      1      3
  RAF1 WILD-TYPE    155    120     56
D83V6, multiclass
        clus
vv       RAF1 MUTATED RAF1 WILD-TYPE
  CLUS_1            1            155
  CLUS_2            1            120
  CLUS_3            3             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
  RAF1 MUTATED        3      1      2      0      0
  RAF1 WILD-TYPE    124    108     84    105     51
D83V7, multiclass
        clus
vv       RAF1 MUTATED RAF1 WILD-TYPE
  CLUS_1            3            124
  CLUS_2            1            108
  CLUS_3            2             84
  CLUS_4            0            105
  CLUS_5            0             51
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will 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
D83V8, 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        3      2      1
  RAF1 WILD-TYPE    169    203     98
D83V9, multiclass
        clus
vv       RAF1 MUTATED RAF1 WILD-TYPE
  CLUS_1            3            169
  CLUS_2            2            203
  CLUS_3            1             98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  RAF1 MUTATED        1      0      0      1      3      1
  RAF1 WILD-TYPE     69     37    135    119     83     27
D83V10, multiclass
        clus
vv       RAF1 MUTATED RAF1 WILD-TYPE
  CLUS_1            1             69
  CLUS_2            0             37
  CLUS_3            0            135
  CLUS_4            1            119
  CLUS_5            3             83
  CLUS_6            1             27
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  RAF1 MUTATED        1      0      3      2      0      0
  RAF1 WILD-TYPE     54     85     94     40     60     73
D83V11, multiclass
        clus
vv       RAF1 MUTATED RAF1 WILD-TYPE
  CLUS_1            1             54
  CLUS_2            0             85
  CLUS_3            3             94
  CLUS_4            2             40
  CLUS_5            0             60
  CLUS_6            0             73
[1] 6 2
[1] TRUE
[1] "dimension of contingency table 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     96    220     90
D83V12, multiclass
        clus
vv       RAF1 MUTATED RAF1 WILD-TYPE
  CLUS_1            0             96
  CLUS_2            2            220
  CLUS_3            4             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"

Clustering(84) Variable = A2M MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  A2M MUTATED        0      1      1
  A2M WILD-TYPE      8      7      3
D84V1, 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
D84V2, 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        8      7      1      4
  A2M WILD-TYPE    150    120    122     66
D84V3, multiclass
        clus
vv       A2M MUTATED A2M WILD-TYPE
  CLUS_1           8           150
  CLUS_2           7           120
  CLUS_3           1           122
  CLUS_4           4            66
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        6      8      2
  A2M WILD-TYPE    140    159    115
D84V4, multiclass
        clus
vv       A2M MUTATED A2M WILD-TYPE
  CLUS_1           6           140
  CLUS_2           8           159
  CLUS_3           2           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
  A2M MUTATED        4      1      0      5      3
  A2M WILD-TYPE     85     21     59     60     98
D84V5, multiclass
        clus
vv       A2M MUTATED A2M WILD-TYPE
  CLUS_1           4            85
  CLUS_2           1            21
  CLUS_3           0            59
  CLUS_4           5            60
  CLUS_5           3            98
[1] 5 2
[1] TRUE
[1] "dimension of contingency table 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        4      7      2
  A2M WILD-TYPE    152    114     57
D84V6, multiclass
        clus
vv       A2M MUTATED A2M WILD-TYPE
  CLUS_1           4           152
  CLUS_2           7           114
  CLUS_3           2            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
  A2M MUTATED       10      0      3      6      1
  A2M WILD-TYPE    117    109     83     99     50
D84V7, multiclass
        clus
vv       A2M MUTATED A2M WILD-TYPE
  CLUS_1          10           117
  CLUS_2           0           109
  CLUS_3           3            83
  CLUS_4           6            99
  CLUS_5           1            50
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will 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
D84V8, 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        0     13      6
  A2M WILD-TYPE    172    192     93
D84V9, multiclass
        clus
vv       A2M MUTATED A2M WILD-TYPE
  CLUS_1           0           172
  CLUS_2          13           192
  CLUS_3           6            93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  A2M MUTATED        1      3     10      1      4      0
  A2M WILD-TYPE     69     34    125    119     82     28
D84V10, multiclass
        clus
vv       A2M MUTATED A2M WILD-TYPE
  CLUS_1           1            69
  CLUS_2           3            34
  CLUS_3          10           125
  CLUS_4           1           119
  CLUS_5           4            82
  CLUS_6           0            28
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  A2M MUTATED        1      6      3      2      1      3
  A2M WILD-TYPE     54     79     94     40     59     70
D84V11, multiclass
        clus
vv       A2M MUTATED A2M WILD-TYPE
  CLUS_1           1            54
  CLUS_2           6            79
  CLUS_3           3            94
  CLUS_4           2            40
  CLUS_5           1            59
  CLUS_6           3            70
[1] 6 2
[1] TRUE
[1] "dimension of contingency table 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      3
  A2M WILD-TYPE     95    210     91
D84V12, multiclass
        clus
vv       A2M MUTATED A2M WILD-TYPE
  CLUS_1           1            95
  CLUS_2          12           210
  CLUS_3           3            91
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(85) Variable = SND1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SND1 MUTATED        0      2      0
  SND1 WILD-TYPE      8      6      4
D85V1, 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
D85V2, 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        8      4      1      3
  SND1 WILD-TYPE    150    123    122     67
D85V3, multiclass
        clus
vv       SND1 MUTATED SND1 WILD-TYPE
  CLUS_1            8            150
  CLUS_2            4            123
  CLUS_3            1            122
  CLUS_4            3             67
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        8      6      1
  SND1 WILD-TYPE    138    161    116
D85V4, multiclass
        clus
vv       SND1 MUTATED SND1 WILD-TYPE
  CLUS_1            8            138
  CLUS_2            6            161
  CLUS_3            1            116
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SND1 MUTATED        3      1      1      3      5
  SND1 WILD-TYPE     86     21     58     62     96
D85V5, multiclass
        clus
vv       SND1 MUTATED SND1 WILD-TYPE
  CLUS_1            3             86
  CLUS_2            1             21
  CLUS_3            1             58
  CLUS_4            3             62
  CLUS_5            5             96
[1] 5 2
[1] TRUE
[1] "dimension of contingency table 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      6      5
  SND1 WILD-TYPE    154    115     54
D85V6, multiclass
        clus
vv       SND1 MUTATED SND1 WILD-TYPE
  CLUS_1            2            154
  CLUS_2            6            115
  CLUS_3            5             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
  SND1 MUTATED        5      0      3      7      1
  SND1 WILD-TYPE    122    109     83     98     50
D85V7, multiclass
        clus
vv       SND1 MUTATED SND1 WILD-TYPE
  CLUS_1            5            122
  CLUS_2            0            109
  CLUS_3            3             83
  CLUS_4            7             98
  CLUS_5            1             50
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will 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
D85V8, 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    170    193     97
D85V9, multiclass
        clus
vv       SND1 MUTATED SND1 WILD-TYPE
  CLUS_1            2            170
  CLUS_2           12            193
  CLUS_3            2             97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SND1 MUTATED        1      2      8      1      4      0
  SND1 WILD-TYPE     69     35    127    119     82     28
D85V10, multiclass
        clus
vv       SND1 MUTATED SND1 WILD-TYPE
  CLUS_1            1             69
  CLUS_2            2             35
  CLUS_3            8            127
  CLUS_4            1            119
  CLUS_5            4             82
  CLUS_6            0             28
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SND1 MUTATED        0      7      4      0      1      2
  SND1 WILD-TYPE     55     78     93     42     59     71
D85V11, multiclass
        clus
vv       SND1 MUTATED SND1 WILD-TYPE
  CLUS_1            0             55
  CLUS_2            7             78
  CLUS_3            4             93
  CLUS_4            0             42
  CLUS_5            1             59
  CLUS_6            2             71
[1] 6 2
[1] TRUE
[1] "dimension of contingency table 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     96    209     93
D85V12, multiclass
        clus
vv       SND1 MUTATED SND1 WILD-TYPE
  CLUS_1            0             96
  CLUS_2           13            209
  CLUS_3            1             93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(86) Variable = C7ORF36 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  C7ORF36 MUTATED        0      0      0
  C7ORF36 WILD-TYPE      8      8      4
D86V1, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  C7ORF36 MUTATED        0      0      0
  C7ORF36 WILD-TYPE      7      9      4
D86V2, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  C7ORF36 MUTATED        2      1      1      2
  C7ORF36 WILD-TYPE    156    126    122     68
D86V3, multiclass
        clus
vv       C7ORF36 MUTATED C7ORF36 WILD-TYPE
  CLUS_1               2               156
  CLUS_2               1               126
  CLUS_3               1               122
  CLUS_4               2                68
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  C7ORF36 MUTATED        2      2      0
  C7ORF36 WILD-TYPE    144    165    117
D86V4, multiclass
        clus
vv       C7ORF36 MUTATED C7ORF36 WILD-TYPE
  CLUS_1               2               144
  CLUS_2               2               165
  CLUS_3               0               117
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  C7ORF36 MUTATED        0      0      2      1      2
  C7ORF36 WILD-TYPE     89     22     57     64     99
D86V5, multiclass
        clus
vv       C7ORF36 MUTATED C7ORF36 WILD-TYPE
  CLUS_1               0                89
  CLUS_2               0                22
  CLUS_3               2                57
  CLUS_4               1                64
  CLUS_5               2                99
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  C7ORF36 MUTATED        3      2      0
  C7ORF36 WILD-TYPE    153    119     59
D86V6, multiclass
        clus
vv       C7ORF36 MUTATED C7ORF36 WILD-TYPE
  CLUS_1               3               153
  CLUS_2               2               119
  CLUS_3               0                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
  C7ORF36 MUTATED        3      1      0      2      0
  C7ORF36 WILD-TYPE    124    108     86    103     51
D86V7, multiclass
        clus
vv       C7ORF36 MUTATED C7ORF36 WILD-TYPE
  CLUS_1               3               124
  CLUS_2               1               108
  CLUS_3               0                86
  CLUS_4               2               103
  CLUS_5               0                51
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  C7ORF36 MUTATED        0      2      1      2      1      0      0
  C7ORF36 WILD-TYPE     72    107     89     42     48     46     68
D86V8, multiclass
        clus
vv       C7ORF36 MUTATED C7ORF36 WILD-TYPE
  CLUS_1               0                72
  CLUS_2               2               107
  CLUS_3               1                89
  CLUS_4               2                42
  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
  C7ORF36 MUTATED        2      3      1
  C7ORF36 WILD-TYPE    170    202     98
D86V9, multiclass
        clus
vv       C7ORF36 MUTATED C7ORF36 WILD-TYPE
  CLUS_1               2               170
  CLUS_2               3               202
  CLUS_3               1                98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  C7ORF36 MUTATED        2      0      2      0      1      1
  C7ORF36 WILD-TYPE     68     37    133    120     85     27
D86V10, multiclass
        clus
vv       C7ORF36 MUTATED C7ORF36 WILD-TYPE
  CLUS_1               2                68
  CLUS_2               0                37
  CLUS_3               2               133
  CLUS_4               0               120
  CLUS_5               1                85
  CLUS_6               1                27
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  C7ORF36 MUTATED        0      3      0      1      0      0
  C7ORF36 WILD-TYPE     55     82     97     41     60     73
D86V11, multiclass
        clus
vv       C7ORF36 MUTATED C7ORF36 WILD-TYPE
  CLUS_1               0                55
  CLUS_2               3                82
  CLUS_3               0                97
  CLUS_4               1                41
  CLUS_5               0                60
  CLUS_6               0                73
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  C7ORF36 MUTATED        1      2      1
  C7ORF36 WILD-TYPE     95    220     93
D86V12, multiclass
        clus
vv       C7ORF36 MUTATED C7ORF36 WILD-TYPE
  CLUS_1               1                95
  CLUS_2               2               220
  CLUS_3               1                93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(87) Variable = HTRA1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HTRA1 MUTATED        0      0      0
  HTRA1 WILD-TYPE      8      8      4
D87V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HTRA1 MUTATED        0      0      0
  HTRA1 WILD-TYPE      7      9      4
D87V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  HTRA1 MUTATED        4      2      2      2
  HTRA1 WILD-TYPE    154    125    121     68
D87V3, multiclass
        clus
vv       HTRA1 MUTATED HTRA1 WILD-TYPE
  CLUS_1             4             154
  CLUS_2             2             125
  CLUS_3             2             121
  CLUS_4             2              68
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        5      3      2
  HTRA1 WILD-TYPE    141    164    115
D87V4, multiclass
        clus
vv       HTRA1 MUTATED HTRA1 WILD-TYPE
  CLUS_1             5             141
  CLUS_2             3             164
  CLUS_3             2             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
  HTRA1 MUTATED        2      0      3      1      1
  HTRA1 WILD-TYPE     87     22     56     64    100
D87V5, multiclass
        clus
vv       HTRA1 MUTATED HTRA1 WILD-TYPE
  CLUS_1             2              87
  CLUS_2             0              22
  CLUS_3             3              56
  CLUS_4             1              64
  CLUS_5             1             100
[1] 5 2
[1] TRUE
[1] "dimension of contingency table 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      3      0
  HTRA1 WILD-TYPE    152    118     59
D87V6, multiclass
        clus
vv       HTRA1 MUTATED HTRA1 WILD-TYPE
  CLUS_1             4             152
  CLUS_2             3             118
  CLUS_3             0              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
  HTRA1 MUTATED        3      3      2      1      1
  HTRA1 WILD-TYPE    124    106     84    104     50
D87V7, multiclass
        clus
vv       HTRA1 MUTATED HTRA1 WILD-TYPE
  CLUS_1             3             124
  CLUS_2             3             106
  CLUS_3             2              84
  CLUS_4             1             104
  CLUS_5             1              50
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will 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
D87V8, 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    168    200     98
D87V9, multiclass
        clus
vv       HTRA1 MUTATED HTRA1 WILD-TYPE
  CLUS_1             4             168
  CLUS_2             5             200
  CLUS_3             1              98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  HTRA1 MUTATED        3      0      3      1      3      0
  HTRA1 WILD-TYPE     67     37    132    119     83     28
D87V10, multiclass
        clus
vv       HTRA1 MUTATED HTRA1 WILD-TYPE
  CLUS_1             3              67
  CLUS_2             0              37
  CLUS_3             3             132
  CLUS_4             1             119
  CLUS_5             3              83
  CLUS_6             0              28
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  HTRA1 MUTATED        2      1      2      1      3      1
  HTRA1 WILD-TYPE     53     84     95     41     57     72
D87V11, multiclass
        clus
vv       HTRA1 MUTATED HTRA1 WILD-TYPE
  CLUS_1             2              53
  CLUS_2             1              84
  CLUS_3             2              95
  CLUS_4             1              41
  CLUS_5             3              57
  CLUS_6             1              72
[1] 6 2
[1] TRUE
[1] "dimension of contingency table 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     93    216     93
D87V12, multiclass
        clus
vv       HTRA1 MUTATED HTRA1 WILD-TYPE
  CLUS_1             3              93
  CLUS_2             6             216
  CLUS_3             1              93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(88) Variable = ADAMTS2 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ADAMTS2 MUTATED        1      1      0
  ADAMTS2 WILD-TYPE      7      7      4
D88V1, 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
D88V2, 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       14     12      4      8
  ADAMTS2 WILD-TYPE    144    115    119     62
D88V3, multiclass
        clus
vv       ADAMTS2 MUTATED ADAMTS2 WILD-TYPE
  CLUS_1              14               144
  CLUS_2              12               115
  CLUS_3               4               119
  CLUS_4               8                62
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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       11     22      2
  ADAMTS2 WILD-TYPE    135    145    115
D88V4, multiclass
        clus
vv       ADAMTS2 MUTATED ADAMTS2 WILD-TYPE
  CLUS_1              11               135
  CLUS_2              22               145
  CLUS_3               2               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
  ADAMTS2 MUTATED        5      2      5      4      6
  ADAMTS2 WILD-TYPE     84     20     54     61     95
D88V5, multiclass
        clus
vv       ADAMTS2 MUTATED ADAMTS2 WILD-TYPE
  CLUS_1               5                84
  CLUS_2               2                20
  CLUS_3               5                54
  CLUS_4               4                61
  CLUS_5               6                95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ADAMTS2 MUTATED        8     12      2
  ADAMTS2 WILD-TYPE    148    109     57
D88V6, multiclass
        clus
vv       ADAMTS2 MUTATED ADAMTS2 WILD-TYPE
  CLUS_1               8               148
  CLUS_2              12               109
  CLUS_3               2                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
  ADAMTS2 MUTATED       13      9      3     11      2
  ADAMTS2 WILD-TYPE    114    100     83     94     49
D88V7, multiclass
        clus
vv       ADAMTS2 MUTATED ADAMTS2 WILD-TYPE
  CLUS_1              13               114
  CLUS_2               9               100
  CLUS_3               3                83
  CLUS_4              11                94
  CLUS_5               2                49
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will 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
D88V8, 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       11     23      5
  ADAMTS2 WILD-TYPE    161    182     94
D88V9, multiclass
        clus
vv       ADAMTS2 MUTATED ADAMTS2 WILD-TYPE
  CLUS_1              11               161
  CLUS_2              23               182
  CLUS_3               5                94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ADAMTS2 MUTATED        8      3     19      3      5      1
  ADAMTS2 WILD-TYPE     62     34    116    117     81     27
D88V10, multiclass
        clus
vv       ADAMTS2 MUTATED ADAMTS2 WILD-TYPE
  CLUS_1               8                62
  CLUS_2               3                34
  CLUS_3              19               116
  CLUS_4               3               117
  CLUS_5               5                81
  CLUS_6               1                27
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ADAMTS2 MUTATED        3      8      5      2      7      6
  ADAMTS2 WILD-TYPE     52     77     92     40     53     67
D88V11, multiclass
        clus
vv       ADAMTS2 MUTATED ADAMTS2 WILD-TYPE
  CLUS_1               3                52
  CLUS_2               8                77
  CLUS_3               5                92
  CLUS_4               2                40
  CLUS_5               7                53
  CLUS_6               6                67
[1] 6 2
[1] TRUE
[1] "dimension of contingency table 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     88    206     87
D88V12, multiclass
        clus
vv       ADAMTS2 MUTATED ADAMTS2 WILD-TYPE
  CLUS_1               8                88
  CLUS_2              16               206
  CLUS_3               7                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"

Clustering(89) Variable = TAF1L MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TAF1L MUTATED        2      1      1
  TAF1L WILD-TYPE      6      7      3
D89V1, multiclass
        clus
vv       TAF1L MUTATED TAF1L WILD-TYPE
  CLUS_1             2               6
  CLUS_2             1               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
  TAF1L MUTATED        2      1      1
  TAF1L WILD-TYPE      5      8      3
D89V2, multiclass
        clus
vv       TAF1L MUTATED TAF1L 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
  TAF1L MUTATED       18     14      9      9
  TAF1L WILD-TYPE    140    113    114     61
D89V3, multiclass
        clus
vv       TAF1L MUTATED TAF1L WILD-TYPE
  CLUS_1            18             140
  CLUS_2            14             113
  CLUS_3             9             114
  CLUS_4             9              61
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TAF1L MUTATED       20     19      8
  TAF1L WILD-TYPE    126    148    109
D89V4, multiclass
        clus
vv       TAF1L MUTATED TAF1L WILD-TYPE
  CLUS_1            20             126
  CLUS_2            19             148
  CLUS_3             8             109
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TAF1L MUTATED        8      2      6     12     10
  TAF1L WILD-TYPE     81     20     53     53     91
D89V5, multiclass
        clus
vv       TAF1L MUTATED TAF1L WILD-TYPE
  CLUS_1             8              81
  CLUS_2             2              20
  CLUS_3             6              53
  CLUS_4            12              53
  CLUS_5            10              91
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TAF1L MUTATED       15     17      6
  TAF1L WILD-TYPE    141    104     53
D89V6, multiclass
        clus
vv       TAF1L MUTATED TAF1L WILD-TYPE
  CLUS_1            15             141
  CLUS_2            17             104
  CLUS_3             6              53
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TAF1L MUTATED       15      7      5     18      5
  TAF1L WILD-TYPE    112    102     81     87     46
D89V7, multiclass
        clus
vv       TAF1L MUTATED TAF1L WILD-TYPE
  CLUS_1            15             112
  CLUS_2             7             102
  CLUS_3             5              81
  CLUS_4            18              87
  CLUS_5             5              46
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  TAF1L MUTATED        3     12     12      7      7      3      6
  TAF1L WILD-TYPE     69     97     78     37     42     43     62
D89V8, multiclass
        clus
vv       TAF1L MUTATED TAF1L WILD-TYPE
  CLUS_1             3              69
  CLUS_2            12              97
  CLUS_3            12              78
  CLUS_4             7              37
  CLUS_5             7              42
  CLUS_6             3              43
  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
  TAF1L MUTATED       16     29      5
  TAF1L WILD-TYPE    156    176     94
D89V9, multiclass
        clus
vv       TAF1L MUTATED TAF1L WILD-TYPE
  CLUS_1            16             156
  CLUS_2            29             176
  CLUS_3             5              94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TAF1L MUTATED        8      4     18     11      9      0
  TAF1L WILD-TYPE     62     33    117    109     77     28
D89V10, multiclass
        clus
vv       TAF1L MUTATED TAF1L WILD-TYPE
  CLUS_1             8              62
  CLUS_2             4              33
  CLUS_3            18             117
  CLUS_4            11             109
  CLUS_5             9              77
  CLUS_6             0              28
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TAF1L MUTATED        3     12     13      3      6      7
  TAF1L WILD-TYPE     52     73     84     39     54     66
D89V11, multiclass
        clus
vv       TAF1L MUTATED TAF1L WILD-TYPE
  CLUS_1             3              52
  CLUS_2            12              73
  CLUS_3            13              84
  CLUS_4             3              39
  CLUS_5             6              54
  CLUS_6             7              66
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TAF1L MUTATED       10     28      6
  TAF1L WILD-TYPE     86    194     88
D89V12, multiclass
        clus
vv       TAF1L MUTATED TAF1L WILD-TYPE
  CLUS_1            10              86
  CLUS_2            28             194
  CLUS_3             6              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"

Clustering(90) Variable = PLEKHB2 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PLEKHB2 MUTATED        0      0      0
  PLEKHB2 WILD-TYPE      8      8      4
D90V1, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PLEKHB2 MUTATED        0      0      0
  PLEKHB2 WILD-TYPE      7      9      4
D90V2, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PLEKHB2 MUTATED        2      2      1      1
  PLEKHB2 WILD-TYPE    156    125    122     69
D90V3, multiclass
        clus
vv       PLEKHB2 MUTATED PLEKHB2 WILD-TYPE
  CLUS_1               2               156
  CLUS_2               2               125
  CLUS_3               1               122
  CLUS_4               1                69
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        3      3      0
  PLEKHB2 WILD-TYPE    143    164    117
D90V4, multiclass
        clus
vv       PLEKHB2 MUTATED PLEKHB2 WILD-TYPE
  CLUS_1               3               143
  CLUS_2               3               164
  CLUS_3               0               117
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PLEKHB2 MUTATED        2      0      0      2      1
  PLEKHB2 WILD-TYPE     87     22     59     63    100
D90V5, multiclass
        clus
vv       PLEKHB2 MUTATED PLEKHB2 WILD-TYPE
  CLUS_1               2                87
  CLUS_2               0                22
  CLUS_3               0                59
  CLUS_4               2                63
  CLUS_5               1               100
[1] 5 2
[1] TRUE
[1] "dimension of contingency table 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      1
  PLEKHB2 WILD-TYPE    155    118     58
D90V6, multiclass
        clus
vv       PLEKHB2 MUTATED PLEKHB2 WILD-TYPE
  CLUS_1               1               155
  CLUS_2               3               118
  CLUS_3               1                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
  PLEKHB2 MUTATED        4      0      0      2      0
  PLEKHB2 WILD-TYPE    123    109     86    103     51
D90V7, multiclass
        clus
vv       PLEKHB2 MUTATED PLEKHB2 WILD-TYPE
  CLUS_1               4               123
  CLUS_2               0               109
  CLUS_3               0                86
  CLUS_4               2               103
  CLUS_5               0                51
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will 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      3      3      0      0      0      0
  PLEKHB2 WILD-TYPE     72    106     87     44     49     46     68
D90V8, multiclass
        clus
vv       PLEKHB2 MUTATED PLEKHB2 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
  PLEKHB2 MUTATED        1      4      1
  PLEKHB2 WILD-TYPE    171    201     98
D90V9, multiclass
        clus
vv       PLEKHB2 MUTATED PLEKHB2 WILD-TYPE
  CLUS_1               1               171
  CLUS_2               4               201
  CLUS_3               1                98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PLEKHB2 MUTATED        0      0      3      0      3      0
  PLEKHB2 WILD-TYPE     70     37    132    120     83     28
D90V10, multiclass
        clus
vv       PLEKHB2 MUTATED PLEKHB2 WILD-TYPE
  CLUS_1               0                70
  CLUS_2               0                37
  CLUS_3               3               132
  CLUS_4               0               120
  CLUS_5               3                83
  CLUS_6               0                28
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PLEKHB2 MUTATED        0      1      3      0      2      0
  PLEKHB2 WILD-TYPE     55     84     94     42     58     73
D90V11, multiclass
        clus
vv       PLEKHB2 MUTATED PLEKHB2 WILD-TYPE
  CLUS_1               0                55
  CLUS_2               1                84
  CLUS_3               3                94
  CLUS_4               0                42
  CLUS_5               2                58
  CLUS_6               0                73
[1] 6 2
[1] TRUE
[1] "dimension of contingency table 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      4      2
  PLEKHB2 WILD-TYPE     96    218     92
D90V12, multiclass
        clus
vv       PLEKHB2 MUTATED PLEKHB2 WILD-TYPE
  CLUS_1               0                96
  CLUS_2               4               218
  CLUS_3               2                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"
