[1] "ofn"        "-oTREAD-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/READ-TP/15107799/READ-TP.transferedmergedcluster.txt"
[1] "dfn:"
[1] "/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_Correlate_Genomic_Events_Preprocess/READ-TP/15178178/transformed.cor.cli.txt"

nPatients in clinical file=169, in cluster file=122, common to both=122
[1] "Reduce the number of clustering variables from 40 to 39."
[1]  39 122
[1] "APC MUTATION ANALYSIS"
[1] 3
  APC MUTATED APC WILD-TYPE 
          106            16 
  APC MUTATED APC WILD-TYPE 
          106            16 
[1] "CRIPAK MUTATION ANALYSIS"
[1] 3
  CRIPAK MUTATED CRIPAK WILD-TYPE 
              11              111 
  CRIPAK MUTATED CRIPAK WILD-TYPE 
              11              111 
[1] "TP53 MUTATION ANALYSIS"
[1] 3
  TP53 MUTATED TP53 WILD-TYPE 
            90             32 
  TP53 MUTATED TP53 WILD-TYPE 
            90             32 
[1] "MUC4 MUTATION ANALYSIS"
[1] 3
  MUC4 MUTATED MUC4 WILD-TYPE 
            25             97 
  MUC4 MUTATED MUC4 WILD-TYPE 
            25             97 
[1] "TCF7L2 MUTATION ANALYSIS"
[1] 3
  TCF7L2 MUTATED TCF7L2 WILD-TYPE 
              13              109 
  TCF7L2 MUTATED TCF7L2 WILD-TYPE 
              13              109 
[1] "FMN2 MUTATION ANALYSIS"
[1] 3
  FMN2 MUTATED FMN2 WILD-TYPE 
            14            108 
  FMN2 MUTATED FMN2 WILD-TYPE 
            14            108 
[1] "SHROOM4 MUTATION ANALYSIS"
[1] 3
  SHROOM4 MUTATED SHROOM4 WILD-TYPE 
                7               115 
  SHROOM4 MUTATED SHROOM4 WILD-TYPE 
                7               115 
[1] "RPTN MUTATION ANALYSIS"
[1] 3
  RPTN MUTATED RPTN WILD-TYPE 
             5            117 
  RPTN MUTATED RPTN WILD-TYPE 
             5            117 
[1] "NRAS MUTATION ANALYSIS"
[1] 3
  NRAS MUTATED NRAS WILD-TYPE 
            11            111 
  NRAS MUTATED NRAS WILD-TYPE 
            11            111 
[1] "CDH1 MUTATION ANALYSIS"
[1] 3
  CDH1 MUTATED CDH1 WILD-TYPE 
            12            110 
  CDH1 MUTATED CDH1 WILD-TYPE 
            12            110 
[1] "ARID1A MUTATION ANALYSIS"
[1] 3
  ARID1A MUTATED ARID1A WILD-TYPE 
              11              111 
  ARID1A MUTATED ARID1A WILD-TYPE 
              11              111 
[1] "RBM38 MUTATION ANALYSIS"
[1] 3
  RBM38 MUTATED RBM38 WILD-TYPE 
              8             114 
  RBM38 MUTATED RBM38 WILD-TYPE 
              8             114 
[1] "SMAD2 MUTATION ANALYSIS"
[1] 3
  SMAD2 MUTATED SMAD2 WILD-TYPE 
              7             115 
  SMAD2 MUTATED SMAD2 WILD-TYPE 
              7             115 
[1] "VCX2 MUTATION ANALYSIS"
[1] 3
  VCX2 MUTATED VCX2 WILD-TYPE 
             5            117 
  VCX2 MUTATED VCX2 WILD-TYPE 
             5            117 
[1] "ERBB2 MUTATION ANALYSIS"
[1] 3
  ERBB2 MUTATED ERBB2 WILD-TYPE 
              8             114 
  ERBB2 MUTATED ERBB2 WILD-TYPE 
              8             114 
[1] "RBM10 MUTATION ANALYSIS"
[1] 3
  RBM10 MUTATED RBM10 WILD-TYPE 
              5             117 
  RBM10 MUTATED RBM10 WILD-TYPE 
              5             117 
[1] "PON3 MUTATION ANALYSIS"
[1] 3
  PON3 MUTATED PON3 WILD-TYPE 
             4            118 
  PON3 MUTATED PON3 WILD-TYPE 
             4            118 
[1] "HIST2H2AC MUTATION ANALYSIS"
[1] 3
  HIST2H2AC MUTATED HIST2H2AC WILD-TYPE 
                  3                 119 
  HIST2H2AC MUTATED HIST2H2AC WILD-TYPE 
                  3                 119 
[1] "CTNNB1 MUTATION ANALYSIS"
[1] 3
  CTNNB1 MUTATED CTNNB1 WILD-TYPE 
              19              103 
  CTNNB1 MUTATED CTNNB1 WILD-TYPE 
              19              103 
[1] "KIAA1804 MUTATION ANALYSIS"
[1] 3
  KIAA1804 MUTATED KIAA1804 WILD-TYPE 
                10                112 
  KIAA1804 MUTATED KIAA1804 WILD-TYPE 
                10                112 
[1] "OXSM MUTATION ANALYSIS"
[1] 3
  OXSM MUTATED OXSM WILD-TYPE 
             4            118 
  OXSM MUTATED OXSM WILD-TYPE 
             4            118 
[1] "BCL9 MUTATION ANALYSIS"
[1] 3
  BCL9 MUTATED BCL9 WILD-TYPE 
             5            117 
  BCL9 MUTATED BCL9 WILD-TYPE 
             5            117 
[1] "KRAS MUTATION ANALYSIS"
[1] 3
  KRAS MUTATED KRAS WILD-TYPE 
            63             59 
  KRAS MUTATED KRAS WILD-TYPE 
            63             59 
[1] "SLC12A6 MUTATION ANALYSIS"
[1] 3
  SLC12A6 MUTATED SLC12A6 WILD-TYPE 
                6               116 
  SLC12A6 MUTATED SLC12A6 WILD-TYPE 
                6               116 
[1] "ZNF354C MUTATION ANALYSIS"
[1] 3
  ZNF354C MUTATED ZNF354C WILD-TYPE 
                5               117 
  ZNF354C MUTATED ZNF354C WILD-TYPE 
                5               117 
[1] "GABRP MUTATION ANALYSIS"
[1] 3
  GABRP MUTATED GABRP WILD-TYPE 
              4             118 
  GABRP MUTATED GABRP WILD-TYPE 
              4             118 
[1] "BRAF MUTATION ANALYSIS"
[1] 3
  BRAF MUTATED BRAF WILD-TYPE 
            12            110 
  BRAF MUTATED BRAF WILD-TYPE 
            12            110 
[1] "PIK3CA MUTATION ANALYSIS"
[1] 3
  PIK3CA MUTATED PIK3CA WILD-TYPE 
              37               85 
  PIK3CA MUTATED PIK3CA WILD-TYPE 
              37               85 
[1] "CEP290 MUTATION ANALYSIS"
[1] 3
  CEP290 MUTATED CEP290 WILD-TYPE 
               6              116 
  CEP290 MUTATED CEP290 WILD-TYPE 
               6              116 
[1] "LIG1 MUTATION ANALYSIS"
[1] 3
  LIG1 MUTATED LIG1 WILD-TYPE 
             4            118 
  LIG1 MUTATED LIG1 WILD-TYPE 
             4            118 
[1] "PCBP1 MUTATION ANALYSIS"
[1] 3
  PCBP1 MUTATED PCBP1 WILD-TYPE 
              4             118 
  PCBP1 MUTATED PCBP1 WILD-TYPE 
              4             118 
[1] "ATP8B1 MUTATION ANALYSIS"
[1] 3
  ATP8B1 MUTATED ATP8B1 WILD-TYPE 
               5              117 
  ATP8B1 MUTATED ATP8B1 WILD-TYPE 
               5              117 
[1] "FLT1 MUTATION ANALYSIS"
[1] 3
  FLT1 MUTATED FLT1 WILD-TYPE 
             8            114 
  FLT1 MUTATED FLT1 WILD-TYPE 
             8            114 
[1] "OBSCN MUTATION ANALYSIS"
[1] 3
  OBSCN MUTATED OBSCN WILD-TYPE 
             13             109 
  OBSCN MUTATED OBSCN WILD-TYPE 
             13             109 
[1] "VANGL1 MUTATION ANALYSIS"
[1] 3
  VANGL1 MUTATED VANGL1 WILD-TYPE 
               3              119 
  VANGL1 MUTATED VANGL1 WILD-TYPE 
               3              119 
[1] "RRP8 MUTATION ANALYSIS"
[1] 3
  RRP8 MUTATED RRP8 WILD-TYPE 
             5            117 
  RRP8 MUTATED RRP8 WILD-TYPE 
             5            117 
[1] "AGL MUTATION ANALYSIS"
[1] 3
  AGL MUTATED AGL WILD-TYPE 
            4           118 
  AGL MUTATED AGL WILD-TYPE 
            4           118 
[1] "RLIM MUTATION ANALYSIS"
[1] 3
  RLIM MUTATED RLIM WILD-TYPE 
             3            119 
  RLIM MUTATED RLIM WILD-TYPE 
             3            119 
[1] "STK32B MUTATION ANALYSIS"
[1] 3
  STK32B MUTATED STK32B WILD-TYPE 
               4              118 
  STK32B MUTATED STK32B WILD-TYPE 
               4              118 
[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 122 columns.

Variable 1:'MRNA_CNMF':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 2:'MRNA_CHIERARCHICAL':	nDistinctValues=8,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 3:'CN_CNMF':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 4:'METHLYATION_CNMF':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 5:'RPPA_CNMF':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 6:'RPPA_CHIERARCHICAL':	nDistinctValues=6,	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=5,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 10:'MIRSEQ_CHIERARCHICAL':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 11:'MIRSEQ_MATURE_CNMF':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 12:'MIRSEQ_MATURE_CHIERARCHICAL':	nDistinctValues=5,	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 122 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=8, binary=FALSE, numeric=FALSE
CN_CNMF, nv=4, binary=FALSE, numeric=FALSE
METHLYATION_CNMF, nv=3, binary=FALSE, numeric=FALSE
RPPA_CNMF, nv=3, binary=FALSE, numeric=FALSE
RPPA_CHIERARCHICAL, nv=6, binary=FALSE, numeric=FALSE
MRNASEQ_CNMF, nv=5, binary=FALSE, numeric=FALSE
MRNASEQ_CHIERARCHICAL, nv=7, binary=FALSE, numeric=FALSE
MIRSEQ_CNMF, nv=5, binary=FALSE, numeric=FALSE
MIRSEQ_CHIERARCHICAL, nv=3, binary=FALSE, numeric=FALSE
MIRSEQ_MATURE_CNMF, nv=4, binary=FALSE, numeric=FALSE
MIRSEQ_MATURE_CHIERARCHICAL, nv=5, binary=FALSE, numeric=FALSE

Clustering(1) Variable = APC MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  APC MUTATED       19     16     16
  APC WILD-TYPE      6      5      3
D1V1, multiclass
        clus
vv       APC MUTATED APC WILD-TYPE
  CLUS_1          19             6
  CLUS_2          16             5
  CLUS_3          16             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 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  APC MUTATED        4     11      7      8      5      7      7      2
  APC WILD-TYPE      2      2      5      1      1      2      1      0
D1V2, multiclass
        clus
vv       APC MUTATED APC WILD-TYPE
  CLUS_1           4             2
  CLUS_2          11             2
  CLUS_3           7             5
  CLUS_4           8             1
  CLUS_5           5             1
  CLUS_6           7             2
  CLUS_7           7             1
  CLUS_8           2             0
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  APC MUTATED       45     17     17     25
  APC WILD-TYPE      6      3      2      5
D1V3, multiclass
        clus
vv       APC MUTATED APC WILD-TYPE
  CLUS_1          45             6
  CLUS_2          17             3
  CLUS_3          17             2
  CLUS_4          25             5
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  APC MUTATED       16     22     17
  APC WILD-TYPE      0      1      1
D1V4, multiclass
[1] "Remove cluster labels:" "APC WILD-TYPE"         
clus
  APC MUTATED APC WILD-TYPE 
           55             2 
 TCGA-AF-2687  TCGA-AF-2693  TCGA-AF-4110  TCGA-AF-6136  TCGA-AF-6655 
"APC MUTATED" "APC MUTATED" "APC MUTATED" "APC MUTATED" "APC MUTATED" 
 TCGA-AF-6672  TCGA-AG-3731  TCGA-AG-3732  TCGA-AG-3742  TCGA-AG-A01W 
"APC MUTATED" "APC MUTATED" "APC MUTATED" "APC MUTATED" "APC MUTATED" 
 TCGA-AG-A01Y  TCGA-AG-A020  TCGA-AG-A026  TCGA-AG-A02N  TCGA-AG-A036 
"APC MUTATED" "APC MUTATED" "APC MUTATED" "APC MUTATED" "APC MUTATED" 
 TCGA-AH-6544  TCGA-AH-6547  TCGA-AH-6549  TCGA-AH-6643  TCGA-AH-6644 
"APC MUTATED" "APC MUTATED" "APC MUTATED" "APC MUTATED" "APC MUTATED" 
 TCGA-CI-6619  TCGA-CI-6620  TCGA-CI-6621  TCGA-CI-6622  TCGA-CI-6624 
"APC MUTATED" "APC MUTATED" "APC MUTATED" "APC MUTATED" "APC MUTATED" 
 TCGA-CL-5917  TCGA-CL-5918  TCGA-DC-5337  TCGA-DC-5869  TCGA-DC-6155 
"APC MUTATED" "APC MUTATED" "APC MUTATED" "APC MUTATED" "APC MUTATED" 
 TCGA-DC-6157  TCGA-DC-6158  TCGA-DC-6160  TCGA-DC-6681  TCGA-DC-6682 
"APC MUTATED" "APC MUTATED" "APC MUTATED" "APC MUTATED" "APC MUTATED" 
 TCGA-DC-6683  TCGA-DY-A0XA  TCGA-DY-A1DC  TCGA-DY-A1DD  TCGA-DY-A1DF 
"APC MUTATED" "APC MUTATED" "APC MUTATED" "APC MUTATED" "APC MUTATED" 
 TCGA-DY-A1DG  TCGA-DY-A1H8  TCGA-EF-5830  TCGA-EI-6506  TCGA-EI-6508 
"APC MUTATED" "APC MUTATED" "APC MUTATED" "APC MUTATED" "APC MUTATED" 
 TCGA-EI-6510  TCGA-F5-6464  TCGA-F5-6465  TCGA-F5-6571  TCGA-F5-6702 
"APC MUTATED" "APC MUTATED" "APC MUTATED" "APC MUTATED" "APC MUTATED" 
 TCGA-F5-6811  TCGA-F5-6812  TCGA-F5-6813  TCGA-G5-6235  TCGA-G5-6641 
"APC MUTATED" "APC MUTATED" "APC MUTATED" "APC MUTATED" "APC MUTATED" 
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  APC MUTATED       22     25     37
  APC WILD-TYPE      6      4      3
D1V5, multiclass
        clus
vv       APC MUTATED APC WILD-TYPE
  CLUS_1          22             6
  CLUS_2          25             4
  CLUS_3          37             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 CLUS_5 CLUS_6
  APC MUTATED       18     15     22      3     18      8
  APC WILD-TYPE      5      3      2      1      2      0
D1V6, multiclass
        clus
vv       APC MUTATED APC WILD-TYPE
  CLUS_1          18             5
  CLUS_2          15             3
  CLUS_3          22             2
  CLUS_4           3             1
  CLUS_5          18             2
  CLUS_6           8             0
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  APC MUTATED       14     13     20     13     46
  APC WILD-TYPE      2      0      2      0     11
D1V7, multiclass
        clus
vv       APC MUTATED APC WILD-TYPE
  CLUS_1          14             2
  CLUS_2          13             0
  CLUS_3          20             2
  CLUS_4          13             0
  CLUS_5          46            11
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  APC MUTATED       11     23      6     12     26     15     13
  APC WILD-TYPE      0      0      2      0      6      3      4
D1V8, multiclass
        clus
vv       APC MUTATED APC WILD-TYPE
  CLUS_1          11             0
  CLUS_2          23             0
  CLUS_3           6             2
  CLUS_4          12             0
  CLUS_5          26             6
  CLUS_6          15             3
  CLUS_7          13             4
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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       11     28     14      6     46
  APC WILD-TYPE      2      0      0      2      9
D1V9, multiclass
        clus
vv       APC MUTATED APC WILD-TYPE
  CLUS_1          11             2
  CLUS_2          28             0
  CLUS_3          14             0
  CLUS_4           6             2
  CLUS_5          46             9
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  APC MUTATED       19     41     45
  APC WILD-TYPE      1      3      9
D1V10, multiclass
        clus
vv       APC MUTATED APC WILD-TYPE
  CLUS_1          19             1
  CLUS_2          41             3
  CLUS_3          45             9
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  APC MUTATED        8      7     13      7
  APC WILD-TYPE      0      0      0      1
D1V11, multiclass
[1] "Remove cluster labels:" "APC WILD-TYPE"         
clus
  APC MUTATED APC WILD-TYPE 
           35             1 
 TCGA-AF-2687  TCGA-AF-4110  TCGA-AF-6655  TCGA-AF-6672  TCGA-AG-3731 
"APC MUTATED" "APC MUTATED" "APC MUTATED" "APC MUTATED" "APC MUTATED" 
 TCGA-AG-3732  TCGA-AH-6544  TCGA-AH-6547  TCGA-AH-6549  TCGA-AH-6643 
"APC MUTATED" "APC MUTATED" "APC MUTATED" "APC MUTATED" "APC MUTATED" 
 TCGA-CI-6619  TCGA-CI-6620  TCGA-CI-6621  TCGA-CI-6624  TCGA-CL-5918 
"APC MUTATED" "APC MUTATED" "APC MUTATED" "APC MUTATED" "APC MUTATED" 
 TCGA-DC-5337  TCGA-DC-5869  TCGA-DC-6157  TCGA-DC-6158  TCGA-DC-6681 
"APC MUTATED" "APC MUTATED" "APC MUTATED" "APC MUTATED" "APC MUTATED" 
 TCGA-DC-6682  TCGA-DC-6683  TCGA-DY-A1DC  TCGA-DY-A1DD  TCGA-DY-A1DG 
"APC MUTATED" "APC MUTATED" "APC MUTATED" "APC MUTATED" "APC MUTATED" 
 TCGA-DY-A1H8  TCGA-EI-6506  TCGA-F5-6464  TCGA-F5-6465  TCGA-F5-6571 
"APC MUTATED" "APC MUTATED" "APC MUTATED" "APC MUTATED" "APC MUTATED" 
 TCGA-F5-6702  TCGA-F5-6811  TCGA-F5-6812  TCGA-G5-6235  TCGA-G5-6641 
"APC MUTATED" "APC MUTATED" "APC MUTATED" "APC MUTATED" "APC MUTATED" 
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  APC MUTATED        8      9     11      5      2
  APC WILD-TYPE      0      0      1      0      0
D1V12, multiclass
[1] "Remove cluster labels:" "APC WILD-TYPE"         
clus
  APC MUTATED APC WILD-TYPE 
           35             1 
 TCGA-AF-2687  TCGA-AF-4110  TCGA-AF-6655  TCGA-AF-6672  TCGA-AG-3731 
"APC MUTATED" "APC MUTATED" "APC MUTATED" "APC MUTATED" "APC MUTATED" 
 TCGA-AG-3732  TCGA-AH-6544  TCGA-AH-6547  TCGA-AH-6549  TCGA-AH-6643 
"APC MUTATED" "APC MUTATED" "APC MUTATED" "APC MUTATED" "APC MUTATED" 
 TCGA-CI-6619  TCGA-CI-6620  TCGA-CI-6621  TCGA-CI-6624  TCGA-CL-5918 
"APC MUTATED" "APC MUTATED" "APC MUTATED" "APC MUTATED" "APC MUTATED" 
 TCGA-DC-5337  TCGA-DC-5869  TCGA-DC-6157  TCGA-DC-6158  TCGA-DC-6681 
"APC MUTATED" "APC MUTATED" "APC MUTATED" "APC MUTATED" "APC MUTATED" 
 TCGA-DC-6682  TCGA-DC-6683  TCGA-DY-A1DC  TCGA-DY-A1DD  TCGA-DY-A1DG 
"APC MUTATED" "APC MUTATED" "APC MUTATED" "APC MUTATED" "APC MUTATED" 
 TCGA-DY-A1H8  TCGA-EI-6506  TCGA-F5-6464  TCGA-F5-6465  TCGA-F5-6571 
"APC MUTATED" "APC MUTATED" "APC MUTATED" "APC MUTATED" "APC MUTATED" 
 TCGA-F5-6702  TCGA-F5-6811  TCGA-F5-6812  TCGA-G5-6235  TCGA-G5-6641 
"APC MUTATED" "APC MUTATED" "APC MUTATED" "APC MUTATED" "APC MUTATED" 

Clustering(2) Variable = CRIPAK MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CRIPAK MUTATED        0      0      0
  CRIPAK WILD-TYPE     25     21     19
D2V1, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CRIPAK MUTATED        0      0      0      0      0      0      0      0
  CRIPAK WILD-TYPE      6     13     12      9      6      9      8      2
D2V2, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CRIPAK MUTATED        7      1      1      2
  CRIPAK WILD-TYPE     44     19     18     28
D2V3, multiclass
        clus
vv       CRIPAK MUTATED CRIPAK WILD-TYPE
  CLUS_1              7               44
  CLUS_2              1               19
  CLUS_3              1               18
  CLUS_4              2               28
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CRIPAK MUTATED        5      4      2
  CRIPAK WILD-TYPE     11     19     16
D2V4, multiclass
        clus
vv       CRIPAK MUTATED CRIPAK WILD-TYPE
  CLUS_1              5               11
  CLUS_2              4               19
  CLUS_3              2               16
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CRIPAK MUTATED        0      3      5
  CRIPAK WILD-TYPE     28     26     35
D2V5, multiclass
        clus
vv       CRIPAK MUTATED CRIPAK WILD-TYPE
  CLUS_1              0               28
  CLUS_2              3               26
  CLUS_3              5               35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CRIPAK MUTATED        0      0      2      1      3      2
  CRIPAK WILD-TYPE     23     18     22      3     17      6
D2V6, multiclass
        clus
vv       CRIPAK MUTATED CRIPAK WILD-TYPE
  CLUS_1              0               23
  CLUS_2              0               18
  CLUS_3              2               22
  CLUS_4              1                3
  CLUS_5              3               17
  CLUS_6              2                6
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CRIPAK MUTATED        2      3      4      2      0
  CRIPAK WILD-TYPE     14     10     18     11     57
D2V7, multiclass
        clus
vv       CRIPAK MUTATED CRIPAK WILD-TYPE
  CLUS_1              2               14
  CLUS_2              3               10
  CLUS_3              4               18
  CLUS_4              2               11
  CLUS_5              0               57
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  CRIPAK MUTATED        2      6      1      2      0      0      0
  CRIPAK WILD-TYPE      9     17      7     10     32     18     17
D2V8, multiclass
        clus
vv       CRIPAK MUTATED CRIPAK WILD-TYPE
  CLUS_1              2                9
  CLUS_2              6               17
  CLUS_3              1                7
  CLUS_4              2               10
  CLUS_5              0               32
  CLUS_6              0               18
  CLUS_7              0               17
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CRIPAK MUTATED        2      5      3      1      0
  CRIPAK WILD-TYPE     11     23     11      7     55
D2V9, multiclass
        clus
vv       CRIPAK MUTATED CRIPAK WILD-TYPE
  CLUS_1              2               11
  CLUS_2              5               23
  CLUS_3              3               11
  CLUS_4              1                7
  CLUS_5              0               55
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CRIPAK MUTATED        4      7      0
  CRIPAK WILD-TYPE     16     37     54
D2V10, multiclass
        clus
vv       CRIPAK MUTATED CRIPAK WILD-TYPE
  CLUS_1              4               16
  CLUS_2              7               37
  CLUS_3              0               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
  CRIPAK MUTATED        3      1      1      3
  CRIPAK WILD-TYPE      5      6     12      5
D2V11, multiclass
        clus
vv       CRIPAK MUTATED CRIPAK WILD-TYPE
  CLUS_1              3                5
  CLUS_2              1                6
  CLUS_3              1               12
  CLUS_4              3                5
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CRIPAK MUTATED        2      1      3      1      1
  CRIPAK WILD-TYPE      6      8      9      4      1
D2V12, multiclass
        clus
vv       CRIPAK MUTATED CRIPAK WILD-TYPE
  CLUS_1              2                6
  CLUS_2              1                8
  CLUS_3              3                9
  CLUS_4              1                4
  CLUS_5              1                1
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(3) Variable = TP53 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TP53 MUTATED        8     15     17
  TP53 WILD-TYPE     17      6      2
D3V1, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1            8             17
  CLUS_2           15              6
  CLUS_3           17              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 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TP53 MUTATED        2      9      4      9      5      6      5      0
  TP53 WILD-TYPE      4      4      8      0      1      3      3      2
D3V2, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1            2              4
  CLUS_2            9              4
  CLUS_3            4              8
  CLUS_4            9              0
  CLUS_5            5              1
  CLUS_6            6              3
  CLUS_7            5              3
  CLUS_8            0              2
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger 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       32     16     18     22
  TP53 WILD-TYPE     19      4      1      8
D3V3, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1           32             19
  CLUS_2           16              4
  CLUS_3           18              1
  CLUS_4           22              8
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TP53 MUTATED       14     20     17
  TP53 WILD-TYPE      2      3      1
D3V4, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1           14              2
  CLUS_2           20              3
  CLUS_3           17              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       21     24     27
  TP53 WILD-TYPE      7      5     13
D3V5, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1           21              7
  CLUS_2           24              5
  CLUS_3           27             13
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- 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       15     15     16      3     15      8
  TP53 WILD-TYPE      8      3      8      1      5      0
D3V6, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1           15              8
  CLUS_2           15              3
  CLUS_3           16              8
  CLUS_4            3              1
  CLUS_5           15              5
  CLUS_6            8              0
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TP53 MUTATED       12     12     15     12     38
  TP53 WILD-TYPE      4      1      7      1     19
D3V7, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1           12              4
  CLUS_2           12              1
  CLUS_3           15              7
  CLUS_4           12              1
  CLUS_5           38             19
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  TP53 MUTATED       11     19      7     10     21     10     11
  TP53 WILD-TYPE      0      4      1      2     11      8      6
D3V8, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1           11              0
  CLUS_2           19              4
  CLUS_3            7              1
  CLUS_4           10              2
  CLUS_5           21             11
  CLUS_6           10              8
  CLUS_7           11              6
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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       10     25     11      6     35
  TP53 WILD-TYPE      3      3      3      2     20
D3V9, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1           10              3
  CLUS_2           25              3
  CLUS_3           11              3
  CLUS_4            6              2
  CLUS_5           35             20
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TP53 MUTATED       18     36     33
  TP53 WILD-TYPE      2      8     21
D3V10, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1           18              2
  CLUS_2           36              8
  CLUS_3           33             21
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TP53 MUTATED        8      5     10      8
  TP53 WILD-TYPE      0      2      3      0
D3V11, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1            8              0
  CLUS_2            5              2
  CLUS_3           10              3
  CLUS_4            8              0
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TP53 MUTATED        8      7     10      5      1
  TP53 WILD-TYPE      0      2      2      0      1
D3V12, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1            8              0
  CLUS_2            7              2
  CLUS_3           10              2
  CLUS_4            5              0
  CLUS_5            1              1
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(4) Variable = MUC4 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MUC4 MUTATED        1      0      0
  MUC4 WILD-TYPE     24     21     19
D4V1, multiclass
[1] "Remove cluster labels:" "MUC4 MUTATED"          
clus
  MUC4 MUTATED MUC4 WILD-TYPE 
             1             64 
    TCGA-AF-2689     TCGA-AF-2691     TCGA-AF-2692     TCGA-AF-3400 
"MUC4 WILD-TYPE" "MUC4 WILD-TYPE" "MUC4 WILD-TYPE" "MUC4 WILD-TYPE" 
    TCGA-AF-3913     TCGA-AG-3574     TCGA-AG-3575     TCGA-AG-3578 
"MUC4 WILD-TYPE" "MUC4 WILD-TYPE" "MUC4 WILD-TYPE" "MUC4 WILD-TYPE" 
    TCGA-AG-3580     TCGA-AG-3581     TCGA-AG-3582     TCGA-AG-3583 
"MUC4 WILD-TYPE" "MUC4 WILD-TYPE" "MUC4 WILD-TYPE" "MUC4 WILD-TYPE" 
    TCGA-AG-3584     TCGA-AG-3586     TCGA-AG-3587     TCGA-AG-3593 
"MUC4 WILD-TYPE" "MUC4 WILD-TYPE" "MUC4 WILD-TYPE" "MUC4 WILD-TYPE" 
    TCGA-AG-3594     TCGA-AG-3598     TCGA-AG-3599     TCGA-AG-3600 
"MUC4 WILD-TYPE" "MUC4 WILD-TYPE" "MUC4 WILD-TYPE" "MUC4 WILD-TYPE" 
    TCGA-AG-3601     TCGA-AG-3602     TCGA-AG-3605     TCGA-AG-3608 
"MUC4 WILD-TYPE" "MUC4 WILD-TYPE" "MUC4 WILD-TYPE" "MUC4 WILD-TYPE" 
    TCGA-AG-3609     TCGA-AG-3611     TCGA-AG-3612     TCGA-AG-3726 
"MUC4 WILD-TYPE" "MUC4 WILD-TYPE" "MUC4 WILD-TYPE" "MUC4 WILD-TYPE" 
    TCGA-AG-3727     TCGA-AG-3878     TCGA-AG-3881     TCGA-AG-3882 
"MUC4 WILD-TYPE" "MUC4 WILD-TYPE" "MUC4 WILD-TYPE" "MUC4 WILD-TYPE" 
    TCGA-AG-3883     TCGA-AG-3885     TCGA-AG-3887     TCGA-AG-3890 
"MUC4 WILD-TYPE" "MUC4 WILD-TYPE" "MUC4 WILD-TYPE" "MUC4 WILD-TYPE" 
    TCGA-AG-3892     TCGA-AG-3893     TCGA-AG-3894     TCGA-AG-3896 
"MUC4 WILD-TYPE" "MUC4 WILD-TYPE" "MUC4 WILD-TYPE" "MUC4 WILD-TYPE" 
    TCGA-AG-3898     TCGA-AG-3901     TCGA-AG-3902     TCGA-AG-3909 
"MUC4 WILD-TYPE" "MUC4 WILD-TYPE" "MUC4 WILD-TYPE" "MUC4 WILD-TYPE" 
    TCGA-AG-3999     TCGA-AG-4001     TCGA-AG-4005     TCGA-AG-4007 
"MUC4 WILD-TYPE" "MUC4 WILD-TYPE" "MUC4 WILD-TYPE" "MUC4 WILD-TYPE" 
    TCGA-AG-4008     TCGA-AG-4015     TCGA-AG-A008     TCGA-AG-A00C 
"MUC4 WILD-TYPE" "MUC4 WILD-TYPE" "MUC4 WILD-TYPE" "MUC4 WILD-TYPE" 
    TCGA-AG-A00H     TCGA-AG-A00Y     TCGA-AG-A011     TCGA-AG-A014 
"MUC4 WILD-TYPE" "MUC4 WILD-TYPE" "MUC4 WILD-TYPE" "MUC4 WILD-TYPE" 
    TCGA-AG-A015     TCGA-AG-A016     TCGA-AG-A01L     TCGA-AG-A025 
"MUC4 WILD-TYPE" "MUC4 WILD-TYPE" "MUC4 WILD-TYPE" "MUC4 WILD-TYPE" 
    TCGA-AG-A026     TCGA-AG-A02G     TCGA-AG-A02X     TCGA-AG-A032 
"MUC4 WILD-TYPE" "MUC4 WILD-TYPE" "MUC4 WILD-TYPE" "MUC4 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  MUC4 MUTATED        0      0      1      0      0      0      0      0
  MUC4 WILD-TYPE      6     13     11      9      6      9      8      2
D4V2, multiclass
[1] "Remove cluster labels:" "MUC4 MUTATED"          
clus
  MUC4 MUTATED MUC4 WILD-TYPE 
             1             64 
    TCGA-AF-2689     TCGA-AF-2691     TCGA-AF-2692     TCGA-AF-3400 
"MUC4 WILD-TYPE" "MUC4 WILD-TYPE" "MUC4 WILD-TYPE" "MUC4 WILD-TYPE" 
    TCGA-AF-3913     TCGA-AG-3574     TCGA-AG-3575     TCGA-AG-3578 
"MUC4 WILD-TYPE" "MUC4 WILD-TYPE" "MUC4 WILD-TYPE" "MUC4 WILD-TYPE" 
    TCGA-AG-3580     TCGA-AG-3581     TCGA-AG-3582     TCGA-AG-3583 
"MUC4 WILD-TYPE" "MUC4 WILD-TYPE" "MUC4 WILD-TYPE" "MUC4 WILD-TYPE" 
    TCGA-AG-3584     TCGA-AG-3586     TCGA-AG-3587     TCGA-AG-3593 
"MUC4 WILD-TYPE" "MUC4 WILD-TYPE" "MUC4 WILD-TYPE" "MUC4 WILD-TYPE" 
    TCGA-AG-3594     TCGA-AG-3598     TCGA-AG-3599     TCGA-AG-3600 
"MUC4 WILD-TYPE" "MUC4 WILD-TYPE" "MUC4 WILD-TYPE" "MUC4 WILD-TYPE" 
    TCGA-AG-3601     TCGA-AG-3602     TCGA-AG-3605     TCGA-AG-3608 
"MUC4 WILD-TYPE" "MUC4 WILD-TYPE" "MUC4 WILD-TYPE" "MUC4 WILD-TYPE" 
    TCGA-AG-3609     TCGA-AG-3611     TCGA-AG-3612     TCGA-AG-3726 
"MUC4 WILD-TYPE" "MUC4 WILD-TYPE" "MUC4 WILD-TYPE" "MUC4 WILD-TYPE" 
    TCGA-AG-3727     TCGA-AG-3878     TCGA-AG-3881     TCGA-AG-3882 
"MUC4 WILD-TYPE" "MUC4 WILD-TYPE" "MUC4 WILD-TYPE" "MUC4 WILD-TYPE" 
    TCGA-AG-3883     TCGA-AG-3885     TCGA-AG-3887     TCGA-AG-3890 
"MUC4 WILD-TYPE" "MUC4 WILD-TYPE" "MUC4 WILD-TYPE" "MUC4 WILD-TYPE" 
    TCGA-AG-3892     TCGA-AG-3893     TCGA-AG-3894     TCGA-AG-3896 
"MUC4 WILD-TYPE" "MUC4 WILD-TYPE" "MUC4 WILD-TYPE" "MUC4 WILD-TYPE" 
    TCGA-AG-3898     TCGA-AG-3901     TCGA-AG-3902     TCGA-AG-3909 
"MUC4 WILD-TYPE" "MUC4 WILD-TYPE" "MUC4 WILD-TYPE" "MUC4 WILD-TYPE" 
    TCGA-AG-3999     TCGA-AG-4001     TCGA-AG-4005     TCGA-AG-4007 
"MUC4 WILD-TYPE" "MUC4 WILD-TYPE" "MUC4 WILD-TYPE" "MUC4 WILD-TYPE" 
    TCGA-AG-4008     TCGA-AG-4015     TCGA-AG-A008     TCGA-AG-A00C 
"MUC4 WILD-TYPE" "MUC4 WILD-TYPE" "MUC4 WILD-TYPE" "MUC4 WILD-TYPE" 
    TCGA-AG-A00H     TCGA-AG-A00Y     TCGA-AG-A011     TCGA-AG-A014 
"MUC4 WILD-TYPE" "MUC4 WILD-TYPE" "MUC4 WILD-TYPE" "MUC4 WILD-TYPE" 
    TCGA-AG-A015     TCGA-AG-A016     TCGA-AG-A01L     TCGA-AG-A025 
"MUC4 WILD-TYPE" "MUC4 WILD-TYPE" "MUC4 WILD-TYPE" "MUC4 WILD-TYPE" 
    TCGA-AG-A026     TCGA-AG-A02G     TCGA-AG-A02X     TCGA-AG-A032 
"MUC4 WILD-TYPE" "MUC4 WILD-TYPE" "MUC4 WILD-TYPE" "MUC4 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MUC4 MUTATED       12      3      2      8
  MUC4 WILD-TYPE     39     17     17     22
D4V3, multiclass
        clus
vv       MUC4 MUTATED MUC4 WILD-TYPE
  CLUS_1           12             39
  CLUS_2            3             17
  CLUS_3            2             17
  CLUS_4            8             22
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MUC4 MUTATED       10     10      4
  MUC4 WILD-TYPE      6     13     14
D4V4, multiclass
        clus
vv       MUC4 MUTATED MUC4 WILD-TYPE
  CLUS_1           10              6
  CLUS_2           10             13
  CLUS_3            4             14
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MUC4 MUTATED        3      8     10
  MUC4 WILD-TYPE     25     21     30
D4V5, multiclass
        clus
vv       MUC4 MUTATED MUC4 WILD-TYPE
  CLUS_1            3             25
  CLUS_2            8             21
  CLUS_3           10             30
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MUC4 MUTATED        1      3      3      2      7      5
  MUC4 WILD-TYPE     22     15     21      2     13      3
D4V6, multiclass
        clus
vv       MUC4 MUTATED MUC4 WILD-TYPE
  CLUS_1            1             22
  CLUS_2            3             15
  CLUS_3            3             21
  CLUS_4            2              2
  CLUS_5            7             13
  CLUS_6            5              3
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MUC4 MUTATED        8      5      8      4      0
  MUC4 WILD-TYPE      8      8     14      9     57
D4V7, multiclass
        clus
vv       MUC4 MUTATED MUC4 WILD-TYPE
  CLUS_1            8              8
  CLUS_2            5              8
  CLUS_3            8             14
  CLUS_4            4              9
  CLUS_5            0             57
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  MUC4 MUTATED        7     11      3      3      0      1      0
  MUC4 WILD-TYPE      4     12      5      9     32     17     17
D4V8, multiclass
        clus
vv       MUC4 MUTATED MUC4 WILD-TYPE
  CLUS_1            7              4
  CLUS_2           11             12
  CLUS_3            3              5
  CLUS_4            3              9
  CLUS_5            0             32
  CLUS_6            1             17
  CLUS_7            0             17
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MUC4 MUTATED        5     13      5      1      1
  MUC4 WILD-TYPE      8     15      9      7     54
D4V9, multiclass
        clus
vv       MUC4 MUTATED MUC4 WILD-TYPE
  CLUS_1            5              8
  CLUS_2           13             15
  CLUS_3            5              9
  CLUS_4            1              7
  CLUS_5            1             54
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MUC4 MUTATED        8     16      1
  MUC4 WILD-TYPE     12     28     53
D4V10, multiclass
        clus
vv       MUC4 MUTATED MUC4 WILD-TYPE
  CLUS_1            8             12
  CLUS_2           16             28
  CLUS_3            1             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
  MUC4 MUTATED        5      3      7      2
  MUC4 WILD-TYPE      3      4      6      6
D4V11, multiclass
        clus
vv       MUC4 MUTATED MUC4 WILD-TYPE
  CLUS_1            5              3
  CLUS_2            3              4
  CLUS_3            7              6
  CLUS_4            2              6
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MUC4 MUTATED        6      3      5      2      1
  MUC4 WILD-TYPE      2      6      7      3      1
D4V12, multiclass
        clus
vv       MUC4 MUTATED MUC4 WILD-TYPE
  CLUS_1            6              2
  CLUS_2            3              6
  CLUS_3            5              7
  CLUS_4            2              3
  CLUS_5            1              1
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(5) Variable = TCF7L2 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TCF7L2 MUTATED        2      2      3
  TCF7L2 WILD-TYPE     23     19     16
D5V1, multiclass
        clus
vv       TCF7L2 MUTATED TCF7L2 WILD-TYPE
  CLUS_1              2               23
  CLUS_2              2               19
  CLUS_3              3               16
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  TCF7L2 MUTATED        1      0      1      1      1      0      3      0
  TCF7L2 WILD-TYPE      5     13     11      8      5      9      5      2
D5V2, multiclass
        clus
vv       TCF7L2 MUTATED TCF7L2 WILD-TYPE
  CLUS_1              1                5
  CLUS_2              0               13
  CLUS_3              1               11
  CLUS_4              1                8
  CLUS_5              1                5
  CLUS_6              0                9
  CLUS_7              3                5
  CLUS_8              0                2
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TCF7L2 MUTATED        4      2      3      4
  TCF7L2 WILD-TYPE     47     18     16     26
D5V3, multiclass
        clus
vv       TCF7L2 MUTATED TCF7L2 WILD-TYPE
  CLUS_1              4               47
  CLUS_2              2               18
  CLUS_3              3               16
  CLUS_4              4               26
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TCF7L2 MUTATED        2      3      1
  TCF7L2 WILD-TYPE     14     20     17
D5V4, multiclass
        clus
vv       TCF7L2 MUTATED TCF7L2 WILD-TYPE
  CLUS_1              2               14
  CLUS_2              3               20
  CLUS_3              1               17
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TCF7L2 MUTATED        3      3      2
  TCF7L2 WILD-TYPE     25     26     38
D5V5, multiclass
        clus
vv       TCF7L2 MUTATED TCF7L2 WILD-TYPE
  CLUS_1              3               25
  CLUS_2              3               26
  CLUS_3              2               38
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TCF7L2 MUTATED        2      2      1      0      2      1
  TCF7L2 WILD-TYPE     21     16     23      4     18      7
D5V6, multiclass
        clus
vv       TCF7L2 MUTATED TCF7L2 WILD-TYPE
  CLUS_1              2               21
  CLUS_2              2               16
  CLUS_3              1               23
  CLUS_4              0                4
  CLUS_5              2               18
  CLUS_6              1                7
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TCF7L2 MUTATED        1      1      2      2      7
  TCF7L2 WILD-TYPE     15     12     20     11     50
D5V7, multiclass
        clus
vv       TCF7L2 MUTATED TCF7L2 WILD-TYPE
  CLUS_1              1               15
  CLUS_2              1               12
  CLUS_3              2               20
  CLUS_4              2               11
  CLUS_5              7               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
  TCF7L2 MUTATED        1      3      1      1      6      0      1
  TCF7L2 WILD-TYPE     10     20      7     11     26     18     16
D5V8, multiclass
        clus
vv       TCF7L2 MUTATED TCF7L2 WILD-TYPE
  CLUS_1              1               10
  CLUS_2              3               20
  CLUS_3              1                7
  CLUS_4              1               11
  CLUS_5              6               26
  CLUS_6              0               18
  CLUS_7              1               16
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TCF7L2 MUTATED        1      5      0      0      6
  TCF7L2 WILD-TYPE     12     23     14      8     49
D5V9, multiclass
        clus
vv       TCF7L2 MUTATED TCF7L2 WILD-TYPE
  CLUS_1              1               12
  CLUS_2              5               23
  CLUS_3              0               14
  CLUS_4              0                8
  CLUS_5              6               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
  TCF7L2 MUTATED        1      5      6
  TCF7L2 WILD-TYPE     19     39     48
D5V10, multiclass
        clus
vv       TCF7L2 MUTATED TCF7L2 WILD-TYPE
  CLUS_1              1               19
  CLUS_2              5               39
  CLUS_3              6               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
  TCF7L2 MUTATED        0      1      4      1
  TCF7L2 WILD-TYPE      8      6      9      7
D5V11, multiclass
        clus
vv       TCF7L2 MUTATED TCF7L2 WILD-TYPE
  CLUS_1              0                8
  CLUS_2              1                6
  CLUS_3              4                9
  CLUS_4              1                7
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TCF7L2 MUTATED        1      2      3      0      0
  TCF7L2 WILD-TYPE      7      7      9      5      2
D5V12, multiclass
        clus
vv       TCF7L2 MUTATED TCF7L2 WILD-TYPE
  CLUS_1              1                7
  CLUS_2              2                7
  CLUS_3              3                9
  CLUS_4              0                5
  CLUS_5              0                2
[1] 5 2
[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 = FMN2 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  FMN2 MUTATED        0      2      1
  FMN2 WILD-TYPE     25     19     18
D6V1, multiclass
        clus
vv       FMN2 MUTATED FMN2 WILD-TYPE
  CLUS_1            0             25
  CLUS_2            2             19
  CLUS_3            1             18
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FMN2 MUTATED        0      1      0      1      0      0      1      0
  FMN2 WILD-TYPE      6     12     12      8      6      9      7      2
D6V2, multiclass
        clus
vv       FMN2 MUTATED FMN2 WILD-TYPE
  CLUS_1            0              6
  CLUS_2            1             12
  CLUS_3            0             12
  CLUS_4            1              8
  CLUS_5            0              6
  CLUS_6            0              9
  CLUS_7            1              7
  CLUS_8            0              2
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FMN2 MUTATED        4      0      5      5
  FMN2 WILD-TYPE     47     20     14     25
D6V3, multiclass
        clus
vv       FMN2 MUTATED FMN2 WILD-TYPE
  CLUS_1            4             47
  CLUS_2            0             20
  CLUS_3            5             14
  CLUS_4            5             25
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  FMN2 MUTATED        4      6      2
  FMN2 WILD-TYPE     12     17     16
D6V4, multiclass
        clus
vv       FMN2 MUTATED FMN2 WILD-TYPE
  CLUS_1            4             12
  CLUS_2            6             17
  CLUS_3            2             16
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  FMN2 MUTATED        2      4      4
  FMN2 WILD-TYPE     26     25     36
D6V5, multiclass
        clus
vv       FMN2 MUTATED FMN2 WILD-TYPE
  CLUS_1            2             26
  CLUS_2            4             25
  CLUS_3            4             36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  FMN2 MUTATED        0      2      2      0      4      2
  FMN2 WILD-TYPE     23     16     22      4     16      6
D6V6, multiclass
        clus
vv       FMN2 MUTATED FMN2 WILD-TYPE
  CLUS_1            0             23
  CLUS_2            2             16
  CLUS_3            2             22
  CLUS_4            0              4
  CLUS_5            4             16
  CLUS_6            2              6
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FMN2 MUTATED        1      3      2      5      3
  FMN2 WILD-TYPE     15     10     20      8     54
D6V7, multiclass
        clus
vv       FMN2 MUTATED FMN2 WILD-TYPE
  CLUS_1            1             15
  CLUS_2            3             10
  CLUS_3            2             20
  CLUS_4            5              8
  CLUS_5            3             54
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  FMN2 MUTATED        3      4      1      3      2      1      0
  FMN2 WILD-TYPE      8     19      7      9     30     17     17
D6V8, multiclass
        clus
vv       FMN2 MUTATED FMN2 WILD-TYPE
  CLUS_1            3              8
  CLUS_2            4             19
  CLUS_3            1              7
  CLUS_4            3              9
  CLUS_5            2             30
  CLUS_6            1             17
  CLUS_7            0             17
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FMN2 MUTATED        1      8      2      0      3
  FMN2 WILD-TYPE     12     20     12      8     52
D6V9, multiclass
        clus
vv       FMN2 MUTATED FMN2 WILD-TYPE
  CLUS_1            1             12
  CLUS_2            8             20
  CLUS_3            2             12
  CLUS_4            0              8
  CLUS_5            3             52
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  FMN2 MUTATED        1     10      3
  FMN2 WILD-TYPE     19     34     51
D6V10, multiclass
        clus
vv       FMN2 MUTATED FMN2 WILD-TYPE
  CLUS_1            1             19
  CLUS_2           10             34
  CLUS_3            3             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
  FMN2 MUTATED        1      0      4      2
  FMN2 WILD-TYPE      7      7      9      6
D6V11, multiclass
        clus
vv       FMN2 MUTATED FMN2 WILD-TYPE
  CLUS_1            1              7
  CLUS_2            0              7
  CLUS_3            4              9
  CLUS_4            2              6
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FMN2 MUTATED        2      2      2      1      0
  FMN2 WILD-TYPE      6      7     10      4      2
D6V12, multiclass
        clus
vv       FMN2 MUTATED FMN2 WILD-TYPE
  CLUS_1            2              6
  CLUS_2            2              7
  CLUS_3            2             10
  CLUS_4            1              4
  CLUS_5            0              2
[1] 5 2
[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 = SHROOM4 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SHROOM4 MUTATED        0      0      0
  SHROOM4 WILD-TYPE     25     21     19
D7V1, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SHROOM4 MUTATED        0      0      0      0      0      0      0      0
  SHROOM4 WILD-TYPE      6     13     12      9      6      9      8      2
D7V2, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SHROOM4 MUTATED        4      0      2      1
  SHROOM4 WILD-TYPE     47     20     17     29
D7V3, multiclass
        clus
vv       SHROOM4 MUTATED SHROOM4 WILD-TYPE
  CLUS_1               4                47
  CLUS_2               0                20
  CLUS_3               2                17
  CLUS_4               1                29
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SHROOM4 MUTATED        1      4      1
  SHROOM4 WILD-TYPE     15     19     17
D7V4, multiclass
        clus
vv       SHROOM4 MUTATED SHROOM4 WILD-TYPE
  CLUS_1               1                15
  CLUS_2               4                19
  CLUS_3               1                17
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SHROOM4 MUTATED        1      3      3
  SHROOM4 WILD-TYPE     27     26     37
D7V5, multiclass
        clus
vv       SHROOM4 MUTATED SHROOM4 WILD-TYPE
  CLUS_1               1                27
  CLUS_2               3                26
  CLUS_3               3                37
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SHROOM4 MUTATED        0      0      2      0      3      2
  SHROOM4 WILD-TYPE     23     18     22      4     17      6
D7V6, multiclass
        clus
vv       SHROOM4 MUTATED SHROOM4 WILD-TYPE
  CLUS_1               0                23
  CLUS_2               0                18
  CLUS_3               2                22
  CLUS_4               0                 4
  CLUS_5               3                17
  CLUS_6               2                 6
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SHROOM4 MUTATED        1      1      3      2      0
  SHROOM4 WILD-TYPE     15     12     19     11     57
D7V7, multiclass
        clus
vv       SHROOM4 MUTATED SHROOM4 WILD-TYPE
  CLUS_1               1                15
  CLUS_2               1                12
  CLUS_3               3                19
  CLUS_4               2                11
  CLUS_5               0                57
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  SHROOM4 MUTATED        1      2      0      4      0      0      0
  SHROOM4 WILD-TYPE     10     21      8      8     32     18     17
D7V8, multiclass
        clus
vv       SHROOM4 MUTATED SHROOM4 WILD-TYPE
  CLUS_1               1                10
  CLUS_2               2                21
  CLUS_3               0                 8
  CLUS_4               4                 8
  CLUS_5               0                32
  CLUS_6               0                18
  CLUS_7               0                17
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SHROOM4 MUTATED        1      4      2      0      0
  SHROOM4 WILD-TYPE     12     24     12      8     55
D7V9, multiclass
        clus
vv       SHROOM4 MUTATED SHROOM4 WILD-TYPE
  CLUS_1               1                12
  CLUS_2               4                24
  CLUS_3               2                12
  CLUS_4               0                 8
  CLUS_5               0                55
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SHROOM4 MUTATED        0      7      0
  SHROOM4 WILD-TYPE     20     37     54
D7V10, multiclass
        clus
vv       SHROOM4 MUTATED SHROOM4 WILD-TYPE
  CLUS_1               0                20
  CLUS_2               7                37
  CLUS_3               0                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
  SHROOM4 MUTATED        1      0      0      2
  SHROOM4 WILD-TYPE      7      7     13      6
D7V11, multiclass
        clus
vv       SHROOM4 MUTATED SHROOM4 WILD-TYPE
  CLUS_1               1                 7
  CLUS_2               0                 7
  CLUS_3               0                13
  CLUS_4               2                 6
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SHROOM4 MUTATED        0      0      1      2      0
  SHROOM4 WILD-TYPE      8      9     11      3      2
D7V12, multiclass
        clus
vv       SHROOM4 MUTATED SHROOM4 WILD-TYPE
  CLUS_1               0                 8
  CLUS_2               0                 9
  CLUS_3               1                11
  CLUS_4               2                 3
  CLUS_5               0                 2
[1] 5 2
[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 = RPTN MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RPTN MUTATED        0      0      0
  RPTN WILD-TYPE     25     21     19
D8V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RPTN MUTATED        0      0      0      0      0      0      0      0
  RPTN WILD-TYPE      6     13     12      9      6      9      8      2
D8V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RPTN MUTATED        1      1      1      1
  RPTN WILD-TYPE     50     19     18     29
D8V3, multiclass
        clus
vv       RPTN MUTATED RPTN WILD-TYPE
  CLUS_1            1             50
  CLUS_2            1             19
  CLUS_3            1             18
  CLUS_4            1             29
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RPTN MUTATED        2      2      1
  RPTN WILD-TYPE     14     21     17
D8V4, multiclass
        clus
vv       RPTN MUTATED RPTN WILD-TYPE
  CLUS_1            2             14
  CLUS_2            2             21
  CLUS_3            1             17
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RPTN MUTATED        1      0      3
  RPTN WILD-TYPE     27     29     37
D8V5, multiclass
        clus
vv       RPTN MUTATED RPTN WILD-TYPE
  CLUS_1            1             27
  CLUS_2            0             29
  CLUS_3            3             37
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  RPTN MUTATED        0      1      2      1      0      0
  RPTN WILD-TYPE     23     17     22      3     20      8
D8V6, multiclass
        clus
vv       RPTN MUTATED RPTN WILD-TYPE
  CLUS_1            0             23
  CLUS_2            1             17
  CLUS_3            2             22
  CLUS_4            1              3
  CLUS_5            0             20
  CLUS_6            0              8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RPTN MUTATED        2      1      1      1      0
  RPTN WILD-TYPE     14     12     21     12     57
D8V7, multiclass
        clus
vv       RPTN MUTATED RPTN WILD-TYPE
  CLUS_1            2             14
  CLUS_2            1             12
  CLUS_3            1             21
  CLUS_4            1             12
  CLUS_5            0             57
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  RPTN MUTATED        1      1      1      2      0      0      0
  RPTN WILD-TYPE     10     22      7     10     32     18     17
D8V8, multiclass
        clus
vv       RPTN MUTATED RPTN WILD-TYPE
  CLUS_1            1             10
  CLUS_2            1             22
  CLUS_3            1              7
  CLUS_4            2             10
  CLUS_5            0             32
  CLUS_6            0             18
  CLUS_7            0             17
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RPTN MUTATED        1      2      1      1      0
  RPTN WILD-TYPE     12     26     13      7     55
D8V9, multiclass
        clus
vv       RPTN MUTATED RPTN WILD-TYPE
  CLUS_1            1             12
  CLUS_2            2             26
  CLUS_3            1             13
  CLUS_4            1              7
  CLUS_5            0             55
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RPTN MUTATED        1      4      0
  RPTN WILD-TYPE     19     40     54
D8V10, multiclass
        clus
vv       RPTN MUTATED RPTN WILD-TYPE
  CLUS_1            1             19
  CLUS_2            4             40
  CLUS_3            0             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
  RPTN MUTATED        1      1      1      1
  RPTN WILD-TYPE      7      6     12      7
D8V11, multiclass
        clus
vv       RPTN MUTATED RPTN WILD-TYPE
  CLUS_1            1              7
  CLUS_2            1              6
  CLUS_3            1             12
  CLUS_4            1              7
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RPTN MUTATED        1      2      0      1      0
  RPTN WILD-TYPE      7      7     12      4      2
D8V12, multiclass
        clus
vv       RPTN MUTATED RPTN WILD-TYPE
  CLUS_1            1              7
  CLUS_2            2              7
  CLUS_3            0             12
  CLUS_4            1              4
  CLUS_5            0              2
[1] 5 2
[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 = NRAS MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NRAS MUTATED        2      2      1
  NRAS WILD-TYPE     23     19     18
D9V1, multiclass
        clus
vv       NRAS MUTATED NRAS WILD-TYPE
  CLUS_1            2             23
  CLUS_2            2             19
  CLUS_3            1             18
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NRAS MUTATED        1      2      1      1      0      0      0      0
  NRAS WILD-TYPE      5     11     11      8      6      9      8      2
D9V2, multiclass
        clus
vv       NRAS MUTATED NRAS WILD-TYPE
  CLUS_1            1              5
  CLUS_2            2             11
  CLUS_3            1             11
  CLUS_4            1              8
  CLUS_5            0              6
  CLUS_6            0              9
  CLUS_7            0              8
  CLUS_8            0              2
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NRAS MUTATED        7      2      1      1
  NRAS WILD-TYPE     44     18     18     29
D9V3, multiclass
        clus
vv       NRAS MUTATED NRAS WILD-TYPE
  CLUS_1            7             44
  CLUS_2            2             18
  CLUS_3            1             18
  CLUS_4            1             29
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NRAS MUTATED        2      2      2
  NRAS WILD-TYPE     14     21     16
D9V4, multiclass
        clus
vv       NRAS MUTATED NRAS WILD-TYPE
  CLUS_1            2             14
  CLUS_2            2             21
  CLUS_3            2             16
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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      4      2
  NRAS WILD-TYPE     27     25     38
D9V5, multiclass
        clus
vv       NRAS MUTATED NRAS WILD-TYPE
  CLUS_1            1             27
  CLUS_2            4             25
  CLUS_3            2             38
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  NRAS MUTATED        1      1      2      0      3      0
  NRAS WILD-TYPE     22     17     22      4     17      8
D9V6, multiclass
        clus
vv       NRAS MUTATED NRAS WILD-TYPE
  CLUS_1            1             22
  CLUS_2            1             17
  CLUS_3            2             22
  CLUS_4            0              4
  CLUS_5            3             17
  CLUS_6            0              8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NRAS MUTATED        1      1      4      0      5
  NRAS WILD-TYPE     15     12     18     13     52
D9V7, multiclass
        clus
vv       NRAS MUTATED NRAS WILD-TYPE
  CLUS_1            1             15
  CLUS_2            1             12
  CLUS_3            4             18
  CLUS_4            0             13
  CLUS_5            5             52
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  NRAS MUTATED        1      5      0      1      2      1      1
  NRAS WILD-TYPE     10     18      8     11     30     17     16
D9V8, multiclass
        clus
vv       NRAS MUTATED NRAS WILD-TYPE
  CLUS_1            1             10
  CLUS_2            5             18
  CLUS_3            0              8
  CLUS_4            1             11
  CLUS_5            2             30
  CLUS_6            1             17
  CLUS_7            1             16
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NRAS MUTATED        1      4      2      1      3
  NRAS WILD-TYPE     12     24     12      7     52
D9V9, multiclass
        clus
vv       NRAS MUTATED NRAS WILD-TYPE
  CLUS_1            1             12
  CLUS_2            4             24
  CLUS_3            2             12
  CLUS_4            1              7
  CLUS_5            3             52
[1] 5 2
[1] TRUE
[1] "dimension of contingency table 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      6      5
  NRAS WILD-TYPE     20     38     49
D9V10, multiclass
        clus
vv       NRAS MUTATED NRAS WILD-TYPE
  CLUS_1            0             20
  CLUS_2            6             38
  CLUS_3            5             49
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NRAS MUTATED        1      1      1      0
  NRAS WILD-TYPE      7      6     12      8
D9V11, multiclass
        clus
vv       NRAS MUTATED NRAS WILD-TYPE
  CLUS_1            1              7
  CLUS_2            1              6
  CLUS_3            1             12
  CLUS_4            0              8
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NRAS MUTATED        1      0      0      1      1
  NRAS WILD-TYPE      7      9     12      4      1
D9V12, multiclass
        clus
vv       NRAS MUTATED NRAS WILD-TYPE
  CLUS_1            1              7
  CLUS_2            0              9
  CLUS_3            0             12
  CLUS_4            1              4
  CLUS_5            1              1
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(10) Variable = CDH1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CDH1 MUTATED        0      1      0
  CDH1 WILD-TYPE     25     20     19
D10V1, multiclass
[1] "Remove cluster labels:" "CDH1 MUTATED"          
clus
  CDH1 MUTATED CDH1 WILD-TYPE 
             1             64 
    TCGA-AF-2689     TCGA-AF-2691     TCGA-AF-2692     TCGA-AF-3400 
"CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" 
    TCGA-AF-3913     TCGA-AG-3574     TCGA-AG-3575     TCGA-AG-3578 
"CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" 
    TCGA-AG-3580     TCGA-AG-3581     TCGA-AG-3582     TCGA-AG-3583 
"CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" 
    TCGA-AG-3584     TCGA-AG-3586     TCGA-AG-3587     TCGA-AG-3593 
"CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" 
    TCGA-AG-3594     TCGA-AG-3598     TCGA-AG-3599     TCGA-AG-3600 
"CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" 
    TCGA-AG-3601     TCGA-AG-3602     TCGA-AG-3605     TCGA-AG-3608 
"CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" 
    TCGA-AG-3609     TCGA-AG-3611     TCGA-AG-3612     TCGA-AG-3726 
"CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" 
    TCGA-AG-3727     TCGA-AG-3878     TCGA-AG-3881     TCGA-AG-3882 
"CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" 
    TCGA-AG-3883     TCGA-AG-3885     TCGA-AG-3887     TCGA-AG-3890 
"CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" 
    TCGA-AG-3893     TCGA-AG-3894     TCGA-AG-3896     TCGA-AG-3898 
"CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" 
    TCGA-AG-3901     TCGA-AG-3902     TCGA-AG-3909     TCGA-AG-3999 
"CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" 
    TCGA-AG-4001     TCGA-AG-4005     TCGA-AG-4007     TCGA-AG-4008 
"CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" 
    TCGA-AG-4015     TCGA-AG-A002     TCGA-AG-A008     TCGA-AG-A00C 
"CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" 
    TCGA-AG-A00H     TCGA-AG-A00Y     TCGA-AG-A011     TCGA-AG-A014 
"CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" 
    TCGA-AG-A015     TCGA-AG-A016     TCGA-AG-A01L     TCGA-AG-A025 
"CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" 
    TCGA-AG-A026     TCGA-AG-A02G     TCGA-AG-A02X     TCGA-AG-A032 
"CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CDH1 MUTATED        0      1      0      0      0      0      0      0
  CDH1 WILD-TYPE      6     12     12      9      6      9      8      2
D10V2, multiclass
[1] "Remove cluster labels:" "CDH1 MUTATED"          
clus
  CDH1 MUTATED CDH1 WILD-TYPE 
             1             64 
    TCGA-AF-2689     TCGA-AF-2691     TCGA-AF-2692     TCGA-AF-3400 
"CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" 
    TCGA-AF-3913     TCGA-AG-3574     TCGA-AG-3575     TCGA-AG-3578 
"CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" 
    TCGA-AG-3580     TCGA-AG-3581     TCGA-AG-3582     TCGA-AG-3583 
"CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" 
    TCGA-AG-3584     TCGA-AG-3586     TCGA-AG-3587     TCGA-AG-3593 
"CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" 
    TCGA-AG-3594     TCGA-AG-3598     TCGA-AG-3599     TCGA-AG-3600 
"CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" 
    TCGA-AG-3601     TCGA-AG-3602     TCGA-AG-3605     TCGA-AG-3608 
"CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" 
    TCGA-AG-3609     TCGA-AG-3611     TCGA-AG-3612     TCGA-AG-3726 
"CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" 
    TCGA-AG-3727     TCGA-AG-3878     TCGA-AG-3881     TCGA-AG-3882 
"CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" 
    TCGA-AG-3883     TCGA-AG-3885     TCGA-AG-3887     TCGA-AG-3890 
"CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" 
    TCGA-AG-3893     TCGA-AG-3894     TCGA-AG-3896     TCGA-AG-3898 
"CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" 
    TCGA-AG-3901     TCGA-AG-3902     TCGA-AG-3909     TCGA-AG-3999 
"CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" 
    TCGA-AG-4001     TCGA-AG-4005     TCGA-AG-4007     TCGA-AG-4008 
"CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" 
    TCGA-AG-4015     TCGA-AG-A002     TCGA-AG-A008     TCGA-AG-A00C 
"CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" 
    TCGA-AG-A00H     TCGA-AG-A00Y     TCGA-AG-A011     TCGA-AG-A014 
"CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" 
    TCGA-AG-A015     TCGA-AG-A016     TCGA-AG-A01L     TCGA-AG-A025 
"CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" 
    TCGA-AG-A026     TCGA-AG-A02G     TCGA-AG-A02X     TCGA-AG-A032 
"CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" "CDH1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CDH1 MUTATED        6      1      1      4
  CDH1 WILD-TYPE     45     19     18     26
D10V3, multiclass
        clus
vv       CDH1 MUTATED CDH1 WILD-TYPE
  CLUS_1            6             45
  CLUS_2            1             19
  CLUS_3            1             18
  CLUS_4            4             26
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CDH1 MUTATED        5      3      3
  CDH1 WILD-TYPE     11     20     15
D10V4, multiclass
        clus
vv       CDH1 MUTATED CDH1 WILD-TYPE
  CLUS_1            5             11
  CLUS_2            3             20
  CLUS_3            3             15
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CDH1 MUTATED        2      3      4
  CDH1 WILD-TYPE     26     26     36
D10V5, multiclass
        clus
vv       CDH1 MUTATED CDH1 WILD-TYPE
  CLUS_1            2             26
  CLUS_2            3             26
  CLUS_3            4             36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CDH1 MUTATED        1      2      2      0      2      2
  CDH1 WILD-TYPE     22     16     22      4     18      6
D10V6, multiclass
        clus
vv       CDH1 MUTATED CDH1 WILD-TYPE
  CLUS_1            1             22
  CLUS_2            2             16
  CLUS_3            2             22
  CLUS_4            0              4
  CLUS_5            2             18
  CLUS_6            2              6
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CDH1 MUTATED        3      3      3      2      1
  CDH1 WILD-TYPE     13     10     19     11     56
D10V7, multiclass
        clus
vv       CDH1 MUTATED CDH1 WILD-TYPE
  CLUS_1            3             13
  CLUS_2            3             10
  CLUS_3            3             19
  CLUS_4            2             11
  CLUS_5            1             56
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  CDH1 MUTATED        1      6      1      3      0      1      0
  CDH1 WILD-TYPE     10     17      7      9     32     17     17
D10V8, multiclass
        clus
vv       CDH1 MUTATED CDH1 WILD-TYPE
  CLUS_1            1             10
  CLUS_2            6             17
  CLUS_3            1              7
  CLUS_4            3              9
  CLUS_5            0             32
  CLUS_6            1             17
  CLUS_7            0             17
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CDH1 MUTATED        1      6      4      0      1
  CDH1 WILD-TYPE     12     22     10      8     54
D10V9, multiclass
        clus
vv       CDH1 MUTATED CDH1 WILD-TYPE
  CLUS_1            1             12
  CLUS_2            6             22
  CLUS_3            4             10
  CLUS_4            0              8
  CLUS_5            1             54
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CDH1 MUTATED        4      7      1
  CDH1 WILD-TYPE     16     37     53
D10V10, multiclass
        clus
vv       CDH1 MUTATED CDH1 WILD-TYPE
  CLUS_1            4             16
  CLUS_2            7             37
  CLUS_3            1             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
  CDH1 MUTATED        3      1      2      3
  CDH1 WILD-TYPE      5      6     11      5
D10V11, multiclass
        clus
vv       CDH1 MUTATED CDH1 WILD-TYPE
  CLUS_1            3              5
  CLUS_2            1              6
  CLUS_3            2             11
  CLUS_4            3              5
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CDH1 MUTATED        2      1      4      1      1
  CDH1 WILD-TYPE      6      8      8      4      1
D10V12, multiclass
        clus
vv       CDH1 MUTATED CDH1 WILD-TYPE
  CLUS_1            2              6
  CLUS_2            1              8
  CLUS_3            4              8
  CLUS_4            1              4
  CLUS_5            1              1
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(11) Variable = ARID1A MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ARID1A MUTATED        3      2      0
  ARID1A WILD-TYPE     22     19     19
D11V1, multiclass
        clus
vv       ARID1A MUTATED ARID1A WILD-TYPE
  CLUS_1              3               22
  CLUS_2              2               19
  CLUS_3              0               19
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ARID1A MUTATED        1      1      1      0      0      1      0      1
  ARID1A WILD-TYPE      5     12     11      9      6      8      8      1
D11V2, multiclass
        clus
vv       ARID1A MUTATED ARID1A WILD-TYPE
  CLUS_1              1                5
  CLUS_2              1               12
  CLUS_3              1               11
  CLUS_4              0                9
  CLUS_5              0                6
  CLUS_6              1                8
  CLUS_7              0                8
  CLUS_8              1                1
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ARID1A MUTATED        6      3      1      1
  ARID1A WILD-TYPE     45     17     18     29
D11V3, multiclass
        clus
vv       ARID1A MUTATED ARID1A WILD-TYPE
  CLUS_1              6               45
  CLUS_2              3               17
  CLUS_3              1               18
  CLUS_4              1               29
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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      1      2
  ARID1A WILD-TYPE     13     22     16
D11V4, multiclass
        clus
vv       ARID1A MUTATED ARID1A WILD-TYPE
  CLUS_1              3               13
  CLUS_2              1               22
  CLUS_3              2               16
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ARID1A MUTATED        2      1      2
  ARID1A WILD-TYPE     26     28     38
D11V5, multiclass
        clus
vv       ARID1A MUTATED ARID1A WILD-TYPE
  CLUS_1              2               26
  CLUS_2              1               28
  CLUS_3              2               38
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ARID1A MUTATED        2      0      0      1      1      1
  ARID1A WILD-TYPE     21     18     24      3     19      7
D11V6, multiclass
        clus
vv       ARID1A MUTATED ARID1A WILD-TYPE
  CLUS_1              2               21
  CLUS_2              0               18
  CLUS_3              0               24
  CLUS_4              1                3
  CLUS_5              1               19
  CLUS_6              1                7
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ARID1A MUTATED        2      2      1      1      5
  ARID1A WILD-TYPE     14     11     21     12     52
D11V7, multiclass
        clus
vv       ARID1A MUTATED ARID1A WILD-TYPE
  CLUS_1              2               14
  CLUS_2              2               11
  CLUS_3              1               21
  CLUS_4              1               12
  CLUS_5              5               52
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will 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        2      3      0      1      2      1      2
  ARID1A WILD-TYPE      9     20      8     11     30     17     15
D11V8, multiclass
        clus
vv       ARID1A MUTATED ARID1A WILD-TYPE
  CLUS_1              2                9
  CLUS_2              3               20
  CLUS_3              0                8
  CLUS_4              1               11
  CLUS_5              2               30
  CLUS_6              1               17
  CLUS_7              2               15
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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        1      4      2      0      3
  ARID1A WILD-TYPE     12     24     12      8     52
D11V9, multiclass
        clus
vv       ARID1A MUTATED ARID1A WILD-TYPE
  CLUS_1              1               12
  CLUS_2              4               24
  CLUS_3              2               12
  CLUS_4              0                8
  CLUS_5              3               52
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ARID1A MUTATED        2      5      3
  ARID1A WILD-TYPE     18     39     51
D11V10, multiclass
        clus
vv       ARID1A MUTATED ARID1A WILD-TYPE
  CLUS_1              2               18
  CLUS_2              5               39
  CLUS_3              3               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
  ARID1A MUTATED        2      0      1      1
  ARID1A WILD-TYPE      6      7     12      7
D11V11, multiclass
        clus
vv       ARID1A MUTATED ARID1A WILD-TYPE
  CLUS_1              2                6
  CLUS_2              0                7
  CLUS_3              1               12
  CLUS_4              1                7
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ARID1A MUTATED        3      0      1      0      0
  ARID1A WILD-TYPE      5      9     11      5      2
D11V12, multiclass
        clus
vv       ARID1A MUTATED ARID1A WILD-TYPE
  CLUS_1              3                5
  CLUS_2              0                9
  CLUS_3              1               11
  CLUS_4              0                5
  CLUS_5              0                2
[1] 5 2
[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 = RBM38 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RBM38 MUTATED        0      0      0
  RBM38 WILD-TYPE     25     21     19
D12V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RBM38 MUTATED        0      0      0      0      0      0      0      0
  RBM38 WILD-TYPE      6     13     12      9      6      9      8      2
D12V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RBM38 MUTATED        4      1      1      2
  RBM38 WILD-TYPE     47     19     18     28
D12V3, multiclass
        clus
vv       RBM38 MUTATED RBM38 WILD-TYPE
  CLUS_1             4              47
  CLUS_2             1              19
  CLUS_3             1              18
  CLUS_4             2              28
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RBM38 MUTATED        2      3      3
  RBM38 WILD-TYPE     14     20     15
D12V4, multiclass
        clus
vv       RBM38 MUTATED RBM38 WILD-TYPE
  CLUS_1             2              14
  CLUS_2             3              20
  CLUS_3             3              15
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RBM38 MUTATED        2      3      0
  RBM38 WILD-TYPE     26     26     40
D12V5, multiclass
        clus
vv       RBM38 MUTATED RBM38 WILD-TYPE
  CLUS_1             2              26
  CLUS_2             3              26
  CLUS_3             0              40
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  RBM38 MUTATED        0      1      1      0      2      1
  RBM38 WILD-TYPE     23     17     23      4     18      7
D12V6, multiclass
        clus
vv       RBM38 MUTATED RBM38 WILD-TYPE
  CLUS_1             0              23
  CLUS_2             1              17
  CLUS_3             1              23
  CLUS_4             0               4
  CLUS_5             2              18
  CLUS_6             1               7
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RBM38 MUTATED        4      1      3      0      0
  RBM38 WILD-TYPE     12     12     19     13     57
D12V7, multiclass
        clus
vv       RBM38 MUTATED RBM38 WILD-TYPE
  CLUS_1             4              12
  CLUS_2             1              12
  CLUS_3             3              19
  CLUS_4             0              13
  CLUS_5             0              57
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  RBM38 MUTATED        3      3      1      1      0      0      0
  RBM38 WILD-TYPE      8     20      7     11     32     18     17
D12V8, multiclass
        clus
vv       RBM38 MUTATED RBM38 WILD-TYPE
  CLUS_1             3               8
  CLUS_2             3              20
  CLUS_3             1               7
  CLUS_4             1              11
  CLUS_5             0              32
  CLUS_6             0              18
  CLUS_7             0              17
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RBM38 MUTATED        3      4      1      0      0
  RBM38 WILD-TYPE     10     24     13      8     55
D12V9, multiclass
        clus
vv       RBM38 MUTATED RBM38 WILD-TYPE
  CLUS_1             3              10
  CLUS_2             4              24
  CLUS_3             1              13
  CLUS_4             0               8
  CLUS_5             0              55
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RBM38 MUTATED        3      5      0
  RBM38 WILD-TYPE     17     39     54
D12V10, multiclass
        clus
vv       RBM38 MUTATED RBM38 WILD-TYPE
  CLUS_1             3              17
  CLUS_2             5              39
  CLUS_3             0              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
  RBM38 MUTATED        3      1      2      1
  RBM38 WILD-TYPE      5      6     11      7
D12V11, multiclass
        clus
vv       RBM38 MUTATED RBM38 WILD-TYPE
  CLUS_1             3               5
  CLUS_2             1               6
  CLUS_3             2              11
  CLUS_4             1               7
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RBM38 MUTATED        3      1      2      0      1
  RBM38 WILD-TYPE      5      8     10      5      1
D12V12, multiclass
        clus
vv       RBM38 MUTATED RBM38 WILD-TYPE
  CLUS_1             3               5
  CLUS_2             1               8
  CLUS_3             2              10
  CLUS_4             0               5
  CLUS_5             1               1
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(13) Variable = SMAD2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SMAD2 MUTATED        2      1      1
  SMAD2 WILD-TYPE     23     20     18
D13V1, multiclass
        clus
vv       SMAD2 MUTATED SMAD2 WILD-TYPE
  CLUS_1             2              23
  CLUS_2             1              20
  CLUS_3             1              18
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SMAD2 MUTATED        0      0      1      0      0      2      1      0
  SMAD2 WILD-TYPE      6     13     11      9      6      7      7      2
D13V2, multiclass
        clus
vv       SMAD2 MUTATED SMAD2 WILD-TYPE
  CLUS_1             0               6
  CLUS_2             0              13
  CLUS_3             1              11
  CLUS_4             0               9
  CLUS_5             0               6
  CLUS_6             2               7
  CLUS_7             1               7
  CLUS_8             0               2
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SMAD2 MUTATED        6      0      1      0
  SMAD2 WILD-TYPE     45     20     18     30
D13V3, multiclass
        clus
vv       SMAD2 MUTATED SMAD2 WILD-TYPE
  CLUS_1             6              45
  CLUS_2             0              20
  CLUS_3             1              18
  CLUS_4             0              30
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SMAD2 MUTATED        1      1      1
  SMAD2 WILD-TYPE     15     22     17
D13V4, multiclass
        clus
vv       SMAD2 MUTATED SMAD2 WILD-TYPE
  CLUS_1             1              15
  CLUS_2             1              22
  CLUS_3             1              17
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SMAD2 MUTATED        0      3      2
  SMAD2 WILD-TYPE     28     26     38
D13V5, multiclass
        clus
vv       SMAD2 MUTATED SMAD2 WILD-TYPE
  CLUS_1             0              28
  CLUS_2             3              26
  CLUS_3             2              38
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SMAD2 MUTATED        0      2      0      0      3      0
  SMAD2 WILD-TYPE     23     16     24      4     17      8
D13V6, multiclass
        clus
vv       SMAD2 MUTATED SMAD2 WILD-TYPE
  CLUS_1             0              23
  CLUS_2             2              16
  CLUS_3             0              24
  CLUS_4             0               4
  CLUS_5             3              17
  CLUS_6             0               8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SMAD2 MUTATED        1      1      1      0      4
  SMAD2 WILD-TYPE     15     12     21     13     53
D13V7, multiclass
        clus
vv       SMAD2 MUTATED SMAD2 WILD-TYPE
  CLUS_1             1              15
  CLUS_2             1              12
  CLUS_3             1              21
  CLUS_4             0              13
  CLUS_5             4              53
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  SMAD2 MUTATED        0      2      0      0      2      1      2
  SMAD2 WILD-TYPE     11     21      8     12     30     17     15
D13V8, multiclass
        clus
vv       SMAD2 MUTATED SMAD2 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             2              21
  CLUS_3             0               8
  CLUS_4             0              12
  CLUS_5             2              30
  CLUS_6             1              17
  CLUS_7             2              15
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SMAD2 MUTATED        0      1      1      0      5
  SMAD2 WILD-TYPE     13     27     13      8     50
D13V9, multiclass
        clus
vv       SMAD2 MUTATED SMAD2 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             1              27
  CLUS_3             1              13
  CLUS_4             0               8
  CLUS_5             5              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
  SMAD2 MUTATED        0      2      5
  SMAD2 WILD-TYPE     20     42     49
D13V10, multiclass
        clus
vv       SMAD2 MUTATED SMAD2 WILD-TYPE
  CLUS_1             0              20
  CLUS_2             2              42
  CLUS_3             5              49
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SMAD2 MUTATED        0      1      1      0
  SMAD2 WILD-TYPE      8      6     12      8
D13V11, multiclass
[1] "Remove cluster labels:" "SMAD2 MUTATED"         
clus
  SMAD2 MUTATED SMAD2 WILD-TYPE 
              2              34 
     TCGA-AF-2687      TCGA-AF-4110      TCGA-AF-6655      TCGA-AF-6672 
"SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" 
     TCGA-AG-3731      TCGA-AG-3732      TCGA-AH-6544      TCGA-AH-6547 
"SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" 
     TCGA-AH-6549      TCGA-AH-6643      TCGA-CI-6619      TCGA-CI-6620 
"SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" 
     TCGA-CI-6621      TCGA-CI-6624      TCGA-CL-5918      TCGA-DC-5337 
"SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" 
     TCGA-DC-5869      TCGA-DC-6157      TCGA-DC-6158      TCGA-DC-6681 
"SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" 
     TCGA-DC-6682      TCGA-DC-6683      TCGA-DY-A1DC      TCGA-DY-A1DD 
"SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" 
     TCGA-DY-A1DG      TCGA-DY-A1H8      TCGA-EI-6506      TCGA-EI-6507 
"SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" 
     TCGA-F5-6464      TCGA-F5-6571      TCGA-F5-6702      TCGA-F5-6811 
"SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" 
     TCGA-F5-6812      TCGA-G5-6641 
"SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SMAD2 MUTATED        0      0      1      0      1
  SMAD2 WILD-TYPE      8      9     11      5      1
D13V12, multiclass
[1] "Remove cluster labels:" "SMAD2 MUTATED"         
clus
  SMAD2 MUTATED SMAD2 WILD-TYPE 
              2              34 
     TCGA-AF-2687      TCGA-AF-4110      TCGA-AF-6655      TCGA-AF-6672 
"SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" 
     TCGA-AG-3731      TCGA-AG-3732      TCGA-AH-6544      TCGA-AH-6547 
"SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" 
     TCGA-AH-6549      TCGA-AH-6643      TCGA-CI-6619      TCGA-CI-6620 
"SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" 
     TCGA-CI-6621      TCGA-CI-6624      TCGA-CL-5918      TCGA-DC-5337 
"SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" 
     TCGA-DC-5869      TCGA-DC-6157      TCGA-DC-6158      TCGA-DC-6681 
"SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" 
     TCGA-DC-6682      TCGA-DC-6683      TCGA-DY-A1DC      TCGA-DY-A1DD 
"SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" 
     TCGA-DY-A1DG      TCGA-DY-A1H8      TCGA-EI-6506      TCGA-EI-6507 
"SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" 
     TCGA-F5-6464      TCGA-F5-6571      TCGA-F5-6702      TCGA-F5-6811 
"SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" 
     TCGA-F5-6812      TCGA-G5-6641 
"SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" 

Clustering(14) Variable = VCX2 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  VCX2 MUTATED        0      0      0
  VCX2 WILD-TYPE     25     21     19
D14V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  VCX2 MUTATED        0      0      0      0      0      0      0      0
  VCX2 WILD-TYPE      6     13     12      9      6      9      8      2
D14V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  VCX2 MUTATED        2      0      1      2
  VCX2 WILD-TYPE     49     20     18     28
D14V3, multiclass
        clus
vv       VCX2 MUTATED VCX2 WILD-TYPE
  CLUS_1            2             49
  CLUS_2            0             20
  CLUS_3            1             18
  CLUS_4            2             28
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  VCX2 MUTATED        3      1      1
  VCX2 WILD-TYPE     13     22     17
D14V4, multiclass
        clus
vv       VCX2 MUTATED VCX2 WILD-TYPE
  CLUS_1            3             13
  CLUS_2            1             22
  CLUS_3            1             17
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  VCX2 MUTATED        1      2      1
  VCX2 WILD-TYPE     27     27     39
D14V5, multiclass
        clus
vv       VCX2 MUTATED VCX2 WILD-TYPE
  CLUS_1            1             27
  CLUS_2            2             27
  CLUS_3            1             39
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  VCX2 MUTATED        0      1      0      0      2      1
  VCX2 WILD-TYPE     23     17     24      4     18      7
D14V6, multiclass
        clus
vv       VCX2 MUTATED VCX2 WILD-TYPE
  CLUS_1            0             23
  CLUS_2            1             17
  CLUS_3            0             24
  CLUS_4            0              4
  CLUS_5            2             18
  CLUS_6            1              7
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  VCX2 MUTATED        1      1      1      2      0
  VCX2 WILD-TYPE     15     12     21     11     57
D14V7, multiclass
        clus
vv       VCX2 MUTATED VCX2 WILD-TYPE
  CLUS_1            1             15
  CLUS_2            1             12
  CLUS_3            1             21
  CLUS_4            2             11
  CLUS_5            0             57
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  VCX2 MUTATED        1      2      1      1      0      0      0
  VCX2 WILD-TYPE     10     21      7     11     32     18     17
D14V8, multiclass
        clus
vv       VCX2 MUTATED VCX2 WILD-TYPE
  CLUS_1            1             10
  CLUS_2            2             21
  CLUS_3            1              7
  CLUS_4            1             11
  CLUS_5            0             32
  CLUS_6            0             18
  CLUS_7            0             17
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  VCX2 MUTATED        2      2      1      0      0
  VCX2 WILD-TYPE     11     26     13      8     55
D14V9, multiclass
        clus
vv       VCX2 MUTATED VCX2 WILD-TYPE
  CLUS_1            2             11
  CLUS_2            2             26
  CLUS_3            1             13
  CLUS_4            0              8
  CLUS_5            0             55
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  VCX2 MUTATED        3      2      0
  VCX2 WILD-TYPE     17     42     54
D14V10, multiclass
        clus
vv       VCX2 MUTATED VCX2 WILD-TYPE
  CLUS_1            3             17
  CLUS_2            2             42
  CLUS_3            0             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
  VCX2 MUTATED        0      1      2      2
  VCX2 WILD-TYPE      8      6     11      6
D14V11, multiclass
        clus
vv       VCX2 MUTATED VCX2 WILD-TYPE
  CLUS_1            0              8
  CLUS_2            1              6
  CLUS_3            2             11
  CLUS_4            2              6
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  VCX2 MUTATED        2      2      0      1      0
  VCX2 WILD-TYPE      6      7     12      4      2
D14V12, multiclass
        clus
vv       VCX2 MUTATED VCX2 WILD-TYPE
  CLUS_1            2              6
  CLUS_2            2              7
  CLUS_3            0             12
  CLUS_4            1              4
  CLUS_5            0              2
[1] 5 2
[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 = ERBB2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ERBB2 MUTATED        1      1      1
  ERBB2 WILD-TYPE     24     20     18
D15V1, multiclass
        clus
vv       ERBB2 MUTATED ERBB2 WILD-TYPE
  CLUS_1             1              24
  CLUS_2             1              20
  CLUS_3             1              18
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ERBB2 MUTATED        0      1      1      1      0      0      0      0
  ERBB2 WILD-TYPE      6     12     11      8      6      9      8      2
D15V2, multiclass
        clus
vv       ERBB2 MUTATED ERBB2 WILD-TYPE
  CLUS_1             0               6
  CLUS_2             1              12
  CLUS_3             1              11
  CLUS_4             1               8
  CLUS_5             0               6
  CLUS_6             0               9
  CLUS_7             0               8
  CLUS_8             0               2
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ERBB2 MUTATED        3      1      0      4
  ERBB2 WILD-TYPE     48     19     19     26
D15V3, multiclass
        clus
vv       ERBB2 MUTATED ERBB2 WILD-TYPE
  CLUS_1             3              48
  CLUS_2             1              19
  CLUS_3             0              19
  CLUS_4             4              26
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        0      4      1
  ERBB2 WILD-TYPE     16     19     17
D15V4, multiclass
        clus
vv       ERBB2 MUTATED ERBB2 WILD-TYPE
  CLUS_1             0              16
  CLUS_2             4              19
  CLUS_3             1              17
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ERBB2 MUTATED        2      3      1
  ERBB2 WILD-TYPE     26     26     39
D15V5, multiclass
        clus
vv       ERBB2 MUTATED ERBB2 WILD-TYPE
  CLUS_1             2              26
  CLUS_2             3              26
  CLUS_3             1              39
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ERBB2 MUTATED        1      1      1      0      3      0
  ERBB2 WILD-TYPE     22     17     23      4     17      8
D15V6, multiclass
        clus
vv       ERBB2 MUTATED ERBB2 WILD-TYPE
  CLUS_1             1              22
  CLUS_2             1              17
  CLUS_3             1              23
  CLUS_4             0               4
  CLUS_5             3              17
  CLUS_6             0               8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ERBB2 MUTATED        2      3      2      0      1
  ERBB2 WILD-TYPE     14     10     20     13     56
D15V7, multiclass
        clus
vv       ERBB2 MUTATED ERBB2 WILD-TYPE
  CLUS_1             2              14
  CLUS_2             3              10
  CLUS_3             2              20
  CLUS_4             0              13
  CLUS_5             1              56
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  ERBB2 MUTATED        0      4      2      0      1      1      0
  ERBB2 WILD-TYPE     11     19      6     12     31     17     17
D15V8, multiclass
        clus
vv       ERBB2 MUTATED ERBB2 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             4              19
  CLUS_3             2               6
  CLUS_4             0              12
  CLUS_5             1              31
  CLUS_6             1              17
  CLUS_7             0              17
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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        2      2      1      0      3
  ERBB2 WILD-TYPE     11     26     13      8     52
D15V9, multiclass
        clus
vv       ERBB2 MUTATED ERBB2 WILD-TYPE
  CLUS_1             2              11
  CLUS_2             2              26
  CLUS_3             1              13
  CLUS_4             0               8
  CLUS_5             3              52
[1] 5 2
[1] TRUE
[1] "dimension of contingency table 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        0      5      3
  ERBB2 WILD-TYPE     20     39     51
D15V10, multiclass
        clus
vv       ERBB2 MUTATED ERBB2 WILD-TYPE
  CLUS_1             0              20
  CLUS_2             5              39
  CLUS_3             3              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
  ERBB2 MUTATED        0      1      1      1
  ERBB2 WILD-TYPE      8      6     12      7
D15V11, multiclass
        clus
vv       ERBB2 MUTATED ERBB2 WILD-TYPE
  CLUS_1             0               8
  CLUS_2             1               6
  CLUS_3             1              12
  CLUS_4             1               7
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ERBB2 MUTATED        0      2      1      0      0
  ERBB2 WILD-TYPE      8      7     11      5      2
D15V12, multiclass
        clus
vv       ERBB2 MUTATED ERBB2 WILD-TYPE
  CLUS_1             0               8
  CLUS_2             2               7
  CLUS_3             1              11
  CLUS_4             0               5
  CLUS_5             0               2
[1] 5 2
[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 = RBM10 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RBM10 MUTATED        2      1      1
  RBM10 WILD-TYPE     23     20     18
D16V1, multiclass
        clus
vv       RBM10 MUTATED RBM10 WILD-TYPE
  CLUS_1             2              23
  CLUS_2             1              20
  CLUS_3             1              18
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RBM10 MUTATED        1      1      0      1      0      1      0      0
  RBM10 WILD-TYPE      5     12     12      8      6      8      8      2
D16V2, multiclass
        clus
vv       RBM10 MUTATED RBM10 WILD-TYPE
  CLUS_1             1               5
  CLUS_2             1              12
  CLUS_3             0              12
  CLUS_4             1               8
  CLUS_5             0               6
  CLUS_6             1               8
  CLUS_7             0               8
  CLUS_8             0               2
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RBM10 MUTATED        3      1      0      1
  RBM10 WILD-TYPE     48     19     19     29
D16V3, multiclass
        clus
vv       RBM10 MUTATED RBM10 WILD-TYPE
  CLUS_1             3              48
  CLUS_2             1              19
  CLUS_3             0              19
  CLUS_4             1              29
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        0      0      1
  RBM10 WILD-TYPE     16     23     17
D16V4, multiclass
[1] "Remove cluster labels:" "RBM10 MUTATED"         
clus
  RBM10 MUTATED RBM10 WILD-TYPE 
              1              56 
     TCGA-AF-2687      TCGA-AF-2693      TCGA-AF-4110      TCGA-AF-6136 
"RBM10 WILD-TYPE" "RBM10 WILD-TYPE" "RBM10 WILD-TYPE" "RBM10 WILD-TYPE" 
     TCGA-AF-6655      TCGA-AF-6672      TCGA-AG-3731      TCGA-AG-3732 
"RBM10 WILD-TYPE" "RBM10 WILD-TYPE" "RBM10 WILD-TYPE" "RBM10 WILD-TYPE" 
     TCGA-AG-3742      TCGA-AG-A01W      TCGA-AG-A01Y      TCGA-AG-A020 
"RBM10 WILD-TYPE" "RBM10 WILD-TYPE" "RBM10 WILD-TYPE" "RBM10 WILD-TYPE" 
     TCGA-AG-A026      TCGA-AG-A02N      TCGA-AG-A036      TCGA-AH-6544 
"RBM10 WILD-TYPE" "RBM10 WILD-TYPE" "RBM10 WILD-TYPE" "RBM10 WILD-TYPE" 
     TCGA-AH-6547      TCGA-AH-6549      TCGA-AH-6643      TCGA-AH-6644 
"RBM10 WILD-TYPE" "RBM10 WILD-TYPE" "RBM10 WILD-TYPE" "RBM10 WILD-TYPE" 
     TCGA-CI-6619      TCGA-CI-6620      TCGA-CI-6621      TCGA-CI-6622 
"RBM10 WILD-TYPE" "RBM10 WILD-TYPE" "RBM10 WILD-TYPE" "RBM10 WILD-TYPE" 
     TCGA-CI-6624      TCGA-CL-5917      TCGA-CL-5918      TCGA-DC-5337 
"RBM10 WILD-TYPE" "RBM10 WILD-TYPE" "RBM10 WILD-TYPE" "RBM10 WILD-TYPE" 
     TCGA-DC-5869      TCGA-DC-6155      TCGA-DC-6157      TCGA-DC-6158 
"RBM10 WILD-TYPE" "RBM10 WILD-TYPE" "RBM10 WILD-TYPE" "RBM10 WILD-TYPE" 
     TCGA-DC-6160      TCGA-DC-6681      TCGA-DC-6682      TCGA-DC-6683 
"RBM10 WILD-TYPE" "RBM10 WILD-TYPE" "RBM10 WILD-TYPE" "RBM10 WILD-TYPE" 
     TCGA-DT-5265      TCGA-DY-A0XA      TCGA-DY-A1DC      TCGA-DY-A1DD 
"RBM10 WILD-TYPE" "RBM10 WILD-TYPE" "RBM10 WILD-TYPE" "RBM10 WILD-TYPE" 
     TCGA-DY-A1DF      TCGA-DY-A1DG      TCGA-DY-A1H8      TCGA-EF-5830 
"RBM10 WILD-TYPE" "RBM10 WILD-TYPE" "RBM10 WILD-TYPE" "RBM10 WILD-TYPE" 
     TCGA-EI-6506      TCGA-EI-6507      TCGA-EI-6508      TCGA-F5-6464 
"RBM10 WILD-TYPE" "RBM10 WILD-TYPE" "RBM10 WILD-TYPE" "RBM10 WILD-TYPE" 
     TCGA-F5-6465      TCGA-F5-6571      TCGA-F5-6702      TCGA-F5-6811 
"RBM10 WILD-TYPE" "RBM10 WILD-TYPE" "RBM10 WILD-TYPE" "RBM10 WILD-TYPE" 
     TCGA-F5-6812      TCGA-F5-6813      TCGA-G5-6235      TCGA-G5-6641 
"RBM10 WILD-TYPE" "RBM10 WILD-TYPE" "RBM10 WILD-TYPE" "RBM10 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RBM10 MUTATED        1      1      2
  RBM10 WILD-TYPE     27     28     38
D16V5, multiclass
        clus
vv       RBM10 MUTATED RBM10 WILD-TYPE
  CLUS_1             1              27
  CLUS_2             1              28
  CLUS_3             2              38
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  RBM10 MUTATED        1      0      2      0      1      0
  RBM10 WILD-TYPE     22     18     22      4     19      8
D16V6, multiclass
        clus
vv       RBM10 MUTATED RBM10 WILD-TYPE
  CLUS_1             1              22
  CLUS_2             0              18
  CLUS_3             2              22
  CLUS_4             0               4
  CLUS_5             1              19
  CLUS_6             0               8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RBM10 MUTATED        0      1      1      0      2
  RBM10 WILD-TYPE     16     12     21     13     55
D16V7, multiclass
        clus
vv       RBM10 MUTATED RBM10 WILD-TYPE
  CLUS_1             0              16
  CLUS_2             1              12
  CLUS_3             1              21
  CLUS_4             0              13
  CLUS_5             2              55
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will 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        0      2      0      0      2      0      0
  RBM10 WILD-TYPE     11     21      8     12     30     18     17
D16V8, multiclass
        clus
vv       RBM10 MUTATED RBM10 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             2              21
  CLUS_3             0               8
  CLUS_4             0              12
  CLUS_5             2              30
  CLUS_6             0              18
  CLUS_7             0              17
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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        0      1      0      1      3
  RBM10 WILD-TYPE     13     27     14      7     52
D16V9, multiclass
        clus
vv       RBM10 MUTATED RBM10 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             1              27
  CLUS_3             0              14
  CLUS_4             1               7
  CLUS_5             3              52
[1] 5 2
[1] TRUE
[1] "dimension of contingency table 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        1      1      3
  RBM10 WILD-TYPE     19     43     51
D16V10, multiclass
        clus
vv       RBM10 MUTATED RBM10 WILD-TYPE
  CLUS_1             1              19
  CLUS_2             1              43
  CLUS_3             3              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
  RBM10 MUTATED        0      0      0      0
  RBM10 WILD-TYPE      8      7     13      8
D16V11, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RBM10 MUTATED        0      0      0      0      0
  RBM10 WILD-TYPE      8      9     12      5      2
D16V12, multiclass

Clustering(17) Variable = PON3 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PON3 MUTATED        0      0      0
  PON3 WILD-TYPE     25     21     19
D17V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PON3 MUTATED        0      0      0      0      0      0      0      0
  PON3 WILD-TYPE      6     13     12      9      6      9      8      2
D17V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PON3 MUTATED        1      1      2      0
  PON3 WILD-TYPE     50     19     17     30
D17V3, multiclass
        clus
vv       PON3 MUTATED PON3 WILD-TYPE
  CLUS_1            1             50
  CLUS_2            1             19
  CLUS_3            2             17
  CLUS_4            0             30
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PON3 MUTATED        1      1      2
  PON3 WILD-TYPE     15     22     16
D17V4, multiclass
        clus
vv       PON3 MUTATED PON3 WILD-TYPE
  CLUS_1            1             15
  CLUS_2            1             22
  CLUS_3            2             16
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PON3 MUTATED        0      1      1
  PON3 WILD-TYPE     28     28     39
D17V5, multiclass
[1] "Remove cluster labels:" "PON3 MUTATED"          
clus
  PON3 MUTATED PON3 WILD-TYPE 
             2             95 
    TCGA-AF-2689     TCGA-AF-3400     TCGA-AF-3913     TCGA-AF-5654 
"PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" 
    TCGA-AF-6136     TCGA-AF-6655     TCGA-AF-6672     TCGA-AG-3574 
"PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" 
    TCGA-AG-3578     TCGA-AG-3580     TCGA-AG-3581     TCGA-AG-3582 
"PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" 
    TCGA-AG-3583     TCGA-AG-3584     TCGA-AG-3586     TCGA-AG-3587 
"PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" 
    TCGA-AG-3593     TCGA-AG-3594     TCGA-AG-3598     TCGA-AG-3599 
"PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" 
    TCGA-AG-3600     TCGA-AG-3601     TCGA-AG-3602     TCGA-AG-3605 
"PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" 
    TCGA-AG-3609     TCGA-AG-3612     TCGA-AG-3727     TCGA-AG-3731 
"PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" 
    TCGA-AG-3742     TCGA-AG-3878     TCGA-AG-3881     TCGA-AG-3882 
"PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" 
    TCGA-AG-3885     TCGA-AG-3893     TCGA-AG-3896     TCGA-AG-3898 
"PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" 
    TCGA-AG-3901     TCGA-AG-3902     TCGA-AG-4001     TCGA-AG-4005 
"PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" 
    TCGA-AG-4007     TCGA-AG-4008     TCGA-AG-4015     TCGA-AG-A002 
"PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" 
    TCGA-AG-A008     TCGA-AG-A00C     TCGA-AG-A00H     TCGA-AG-A00Y 
"PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" 
    TCGA-AG-A011     TCGA-AG-A014     TCGA-AG-A015     TCGA-AG-A016 
"PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" 
    TCGA-AG-A01W     TCGA-AG-A01Y     TCGA-AG-A020     TCGA-AG-A026 
"PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" 
    TCGA-AG-A02G     TCGA-AG-A02N     TCGA-AG-A02X     TCGA-AG-A036 
"PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" 
    TCGA-AH-6544     TCGA-AH-6547     TCGA-AH-6549     TCGA-AH-6643 
"PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" 
    TCGA-AH-6644     TCGA-CI-6621     TCGA-DC-5337     TCGA-DC-5869 
"PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" 
    TCGA-DC-6155     TCGA-DC-6157     TCGA-DC-6158     TCGA-DC-6160 
"PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" 
    TCGA-DC-6681     TCGA-DC-6682     TCGA-DC-6683     TCGA-DT-5265 
"PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" 
    TCGA-DY-A0XA     TCGA-DY-A1DC     TCGA-DY-A1DD     TCGA-DY-A1DF 
"PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" 
    TCGA-DY-A1H8     TCGA-EF-5830     TCGA-EI-6506     TCGA-EI-6507 
"PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" 
    TCGA-EI-6508     TCGA-EI-6510     TCGA-F5-6464     TCGA-F5-6465 
"PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" 
    TCGA-F5-6571     TCGA-F5-6702     TCGA-F5-6811     TCGA-F5-6812 
"PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" 
    TCGA-F5-6813     TCGA-G5-6235     TCGA-G5-6641 
"PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PON3 MUTATED        0      0      0      0      1      1
  PON3 WILD-TYPE     23     18     24      4     19      7
D17V6, multiclass
[1] "Remove cluster labels:" "PON3 MUTATED"          
clus
  PON3 MUTATED PON3 WILD-TYPE 
             2             95 
    TCGA-AF-2689     TCGA-AF-3400     TCGA-AF-3913     TCGA-AF-5654 
"PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" 
    TCGA-AF-6136     TCGA-AF-6655     TCGA-AF-6672     TCGA-AG-3574 
"PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" 
    TCGA-AG-3578     TCGA-AG-3580     TCGA-AG-3581     TCGA-AG-3582 
"PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" 
    TCGA-AG-3583     TCGA-AG-3584     TCGA-AG-3586     TCGA-AG-3587 
"PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" 
    TCGA-AG-3593     TCGA-AG-3594     TCGA-AG-3598     TCGA-AG-3599 
"PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" 
    TCGA-AG-3600     TCGA-AG-3601     TCGA-AG-3602     TCGA-AG-3605 
"PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" 
    TCGA-AG-3609     TCGA-AG-3612     TCGA-AG-3727     TCGA-AG-3731 
"PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" 
    TCGA-AG-3742     TCGA-AG-3878     TCGA-AG-3881     TCGA-AG-3882 
"PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" 
    TCGA-AG-3885     TCGA-AG-3893     TCGA-AG-3896     TCGA-AG-3898 
"PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" 
    TCGA-AG-3901     TCGA-AG-3902     TCGA-AG-4001     TCGA-AG-4005 
"PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" 
    TCGA-AG-4007     TCGA-AG-4008     TCGA-AG-4015     TCGA-AG-A002 
"PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" 
    TCGA-AG-A008     TCGA-AG-A00C     TCGA-AG-A00H     TCGA-AG-A00Y 
"PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" 
    TCGA-AG-A011     TCGA-AG-A014     TCGA-AG-A015     TCGA-AG-A016 
"PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" 
    TCGA-AG-A01W     TCGA-AG-A01Y     TCGA-AG-A020     TCGA-AG-A026 
"PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" 
    TCGA-AG-A02G     TCGA-AG-A02N     TCGA-AG-A02X     TCGA-AG-A036 
"PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" 
    TCGA-AH-6544     TCGA-AH-6547     TCGA-AH-6549     TCGA-AH-6643 
"PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" 
    TCGA-AH-6644     TCGA-CI-6621     TCGA-DC-5337     TCGA-DC-5869 
"PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" 
    TCGA-DC-6155     TCGA-DC-6157     TCGA-DC-6158     TCGA-DC-6160 
"PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" 
    TCGA-DC-6681     TCGA-DC-6682     TCGA-DC-6683     TCGA-DT-5265 
"PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" 
    TCGA-DY-A0XA     TCGA-DY-A1DC     TCGA-DY-A1DD     TCGA-DY-A1DF 
"PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" 
    TCGA-DY-A1H8     TCGA-EF-5830     TCGA-EI-6506     TCGA-EI-6507 
"PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" 
    TCGA-EI-6508     TCGA-EI-6510     TCGA-F5-6464     TCGA-F5-6465 
"PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" 
    TCGA-F5-6571     TCGA-F5-6702     TCGA-F5-6811     TCGA-F5-6812 
"PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" 
    TCGA-F5-6813     TCGA-G5-6235     TCGA-G5-6641 
"PON3 WILD-TYPE" "PON3 WILD-TYPE" "PON3 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PON3 MUTATED        0      1      1      2      0
  PON3 WILD-TYPE     16     12     21     11     57
D17V7, multiclass
        clus
vv       PON3 MUTATED PON3 WILD-TYPE
  CLUS_1            0             16
  CLUS_2            1             12
  CLUS_3            1             21
  CLUS_4            2             11
  CLUS_5            0             57
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  PON3 MUTATED        0      2      0      2      0      0      0
  PON3 WILD-TYPE     11     21      8     10     32     18     17
D17V8, multiclass
        clus
vv       PON3 MUTATED PON3 WILD-TYPE
  CLUS_1            0             11
  CLUS_2            2             21
  CLUS_3            0              8
  CLUS_4            2             10
  CLUS_5            0             32
  CLUS_6            0             18
  CLUS_7            0             17
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PON3 MUTATED        0      2      2      0      0
  PON3 WILD-TYPE     13     26     12      8     55
D17V9, multiclass
        clus
vv       PON3 MUTATED PON3 WILD-TYPE
  CLUS_1            0             13
  CLUS_2            2             26
  CLUS_3            2             12
  CLUS_4            0              8
  CLUS_5            0             55
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PON3 MUTATED        0      4      0
  PON3 WILD-TYPE     20     40     54
D17V10, multiclass
        clus
vv       PON3 MUTATED PON3 WILD-TYPE
  CLUS_1            0             20
  CLUS_2            4             40
  CLUS_3            0             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
  PON3 MUTATED        1      0      0      2
  PON3 WILD-TYPE      7      7     13      6
D17V11, multiclass
        clus
vv       PON3 MUTATED PON3 WILD-TYPE
  CLUS_1            1              7
  CLUS_2            0              7
  CLUS_3            0             13
  CLUS_4            2              6
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PON3 MUTATED        1      0      1      1      0
  PON3 WILD-TYPE      7      9     11      4      2
D17V12, multiclass
        clus
vv       PON3 MUTATED PON3 WILD-TYPE
  CLUS_1            1              7
  CLUS_2            0              9
  CLUS_3            1             11
  CLUS_4            1              4
  CLUS_5            0              2
[1] 5 2
[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 = HIST2H2AC MUTATION ANALYSIS
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3
  HIST2H2AC MUTATED        0      0      0
  HIST2H2AC WILD-TYPE     25     21     19
D18V1, multiclass
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  HIST2H2AC MUTATED        0      0      0      0      0      0      0      0
  HIST2H2AC WILD-TYPE      6     13     12      9      6      9      8      2
D18V2, multiclass
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4
  HIST2H2AC MUTATED        1      2      0      0
  HIST2H2AC WILD-TYPE     50     18     19     30
D18V3, multiclass
        clus
vv       HIST2H2AC MUTATED HIST2H2AC WILD-TYPE
  CLUS_1                 1                  50
  CLUS_2                 2                  18
  CLUS_3                 0                  19
  CLUS_4                 0                  30
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3
  HIST2H2AC MUTATED        1      2      0
  HIST2H2AC WILD-TYPE     15     21     18
D18V4, multiclass
        clus
vv       HIST2H2AC MUTATED HIST2H2AC WILD-TYPE
  CLUS_1                 1                  15
  CLUS_2                 2                  21
  CLUS_3                 0                  18
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3
  HIST2H2AC MUTATED        1      0      0
  HIST2H2AC WILD-TYPE     27     29     40
D18V5, multiclass
[1] "Remove cluster labels:" "HIST2H2AC MUTATED"     
clus
  HIST2H2AC MUTATED HIST2H2AC WILD-TYPE 
                  1                  96 
         TCGA-AF-2689          TCGA-AF-3400          TCGA-AF-3913 
"HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" 
         TCGA-AF-5654          TCGA-AF-6136          TCGA-AF-6655 
"HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" 
         TCGA-AF-6672          TCGA-AG-3574          TCGA-AG-3578 
"HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" 
         TCGA-AG-3580          TCGA-AG-3581          TCGA-AG-3582 
"HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" 
         TCGA-AG-3583          TCGA-AG-3584          TCGA-AG-3586 
"HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" 
         TCGA-AG-3587          TCGA-AG-3593          TCGA-AG-3594 
"HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" 
         TCGA-AG-3598          TCGA-AG-3599          TCGA-AG-3600 
"HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" 
         TCGA-AG-3601          TCGA-AG-3602          TCGA-AG-3605 
"HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" 
         TCGA-AG-3609          TCGA-AG-3612          TCGA-AG-3727 
"HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" 
         TCGA-AG-3731          TCGA-AG-3742          TCGA-AG-3878 
"HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" 
         TCGA-AG-3881          TCGA-AG-3882          TCGA-AG-3885 
"HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" 
         TCGA-AG-3893          TCGA-AG-3896          TCGA-AG-3898 
"HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" 
         TCGA-AG-3901          TCGA-AG-3902          TCGA-AG-4001 
"HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" 
         TCGA-AG-4005          TCGA-AG-4007          TCGA-AG-4008 
"HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" 
         TCGA-AG-4015          TCGA-AG-A002          TCGA-AG-A008 
"HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" 
         TCGA-AG-A00C          TCGA-AG-A00H          TCGA-AG-A00Y 
"HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" 
         TCGA-AG-A011          TCGA-AG-A014          TCGA-AG-A015 
"HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" 
         TCGA-AG-A016          TCGA-AG-A01W          TCGA-AG-A01Y 
"HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" 
         TCGA-AG-A020          TCGA-AG-A026          TCGA-AG-A02G 
"HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" 
         TCGA-AG-A02N          TCGA-AG-A02X          TCGA-AG-A036 
"HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" 
         TCGA-AH-6544          TCGA-AH-6547          TCGA-AH-6549 
"HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" 
         TCGA-AH-6643          TCGA-AH-6644          TCGA-CI-6621 
"HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" 
         TCGA-CL-5918          TCGA-DC-5337          TCGA-DC-5869 
"HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" 
         TCGA-DC-6155          TCGA-DC-6157          TCGA-DC-6158 
"HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" 
         TCGA-DC-6160          TCGA-DC-6681          TCGA-DC-6682 
"HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" 
         TCGA-DC-6683          TCGA-DT-5265          TCGA-DY-A0XA 
"HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" 
         TCGA-DY-A1DC          TCGA-DY-A1DD          TCGA-DY-A1DF 
"HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" 
         TCGA-DY-A1DG          TCGA-DY-A1H8          TCGA-EF-5830 
"HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" 
         TCGA-EI-6506          TCGA-EI-6507          TCGA-EI-6508 
"HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" 
         TCGA-EI-6510          TCGA-F5-6464          TCGA-F5-6465 
"HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" 
         TCGA-F5-6571          TCGA-F5-6702          TCGA-F5-6811 
"HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" 
         TCGA-F5-6813          TCGA-G5-6235          TCGA-G5-6641 
"HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" 
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  HIST2H2AC MUTATED        0      0      0      0      0      1
  HIST2H2AC WILD-TYPE     23     18     24      4     20      7
D18V6, multiclass
[1] "Remove cluster labels:" "HIST2H2AC MUTATED"     
clus
  HIST2H2AC MUTATED HIST2H2AC WILD-TYPE 
                  1                  96 
         TCGA-AF-2689          TCGA-AF-3400          TCGA-AF-3913 
"HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" 
         TCGA-AF-5654          TCGA-AF-6136          TCGA-AF-6655 
"HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" 
         TCGA-AF-6672          TCGA-AG-3574          TCGA-AG-3578 
"HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" 
         TCGA-AG-3580          TCGA-AG-3581          TCGA-AG-3582 
"HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" 
         TCGA-AG-3583          TCGA-AG-3584          TCGA-AG-3586 
"HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" 
         TCGA-AG-3587          TCGA-AG-3593          TCGA-AG-3594 
"HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" 
         TCGA-AG-3598          TCGA-AG-3599          TCGA-AG-3600 
"HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" 
         TCGA-AG-3601          TCGA-AG-3602          TCGA-AG-3605 
"HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" 
         TCGA-AG-3609          TCGA-AG-3612          TCGA-AG-3727 
"HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" 
         TCGA-AG-3731          TCGA-AG-3742          TCGA-AG-3878 
"HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" 
         TCGA-AG-3881          TCGA-AG-3882          TCGA-AG-3885 
"HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" 
         TCGA-AG-3893          TCGA-AG-3896          TCGA-AG-3898 
"HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" 
         TCGA-AG-3901          TCGA-AG-3902          TCGA-AG-4001 
"HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" 
         TCGA-AG-4005          TCGA-AG-4007          TCGA-AG-4008 
"HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" 
         TCGA-AG-4015          TCGA-AG-A002          TCGA-AG-A008 
"HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" 
         TCGA-AG-A00C          TCGA-AG-A00H          TCGA-AG-A00Y 
"HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" 
         TCGA-AG-A011          TCGA-AG-A014          TCGA-AG-A015 
"HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" 
         TCGA-AG-A016          TCGA-AG-A01W          TCGA-AG-A01Y 
"HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" 
         TCGA-AG-A020          TCGA-AG-A026          TCGA-AG-A02G 
"HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" 
         TCGA-AG-A02N          TCGA-AG-A02X          TCGA-AG-A036 
"HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" 
         TCGA-AH-6544          TCGA-AH-6547          TCGA-AH-6549 
"HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" 
         TCGA-AH-6643          TCGA-AH-6644          TCGA-CI-6621 
"HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" 
         TCGA-CL-5918          TCGA-DC-5337          TCGA-DC-5869 
"HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" 
         TCGA-DC-6155          TCGA-DC-6157          TCGA-DC-6158 
"HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" 
         TCGA-DC-6160          TCGA-DC-6681          TCGA-DC-6682 
"HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" 
         TCGA-DC-6683          TCGA-DT-5265          TCGA-DY-A0XA 
"HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" 
         TCGA-DY-A1DC          TCGA-DY-A1DD          TCGA-DY-A1DF 
"HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" 
         TCGA-DY-A1DG          TCGA-DY-A1H8          TCGA-EF-5830 
"HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" 
         TCGA-EI-6506          TCGA-EI-6507          TCGA-EI-6508 
"HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" 
         TCGA-EI-6510          TCGA-F5-6464          TCGA-F5-6465 
"HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" 
         TCGA-F5-6571          TCGA-F5-6702          TCGA-F5-6811 
"HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" 
         TCGA-F5-6813          TCGA-G5-6235          TCGA-G5-6641 
"HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" "HIST2H2AC WILD-TYPE" 
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HIST2H2AC MUTATED        2      1      0      0      0
  HIST2H2AC WILD-TYPE     14     12     22     13     57
D18V7, multiclass
        clus
vv       HIST2H2AC MUTATED HIST2H2AC WILD-TYPE
  CLUS_1                 2                  14
  CLUS_2                 1                  12
  CLUS_3                 0                  22
  CLUS_4                 0                  13
  CLUS_5                 0                  57
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  HIST2H2AC MUTATED        2      1      0      0      0      0      0
  HIST2H2AC WILD-TYPE      9     22      8     12     32     18     17
D18V8, multiclass
        clus
vv       HIST2H2AC MUTATED HIST2H2AC WILD-TYPE
  CLUS_1                 2                   9
  CLUS_2                 1                  22
  CLUS_3                 0                   8
  CLUS_4                 0                  12
  CLUS_5                 0                  32
  CLUS_6                 0                  18
  CLUS_7                 0                  17
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HIST2H2AC MUTATED        3      0      0      0      0
  HIST2H2AC WILD-TYPE     10     28     14      8     55
D18V9, multiclass
        clus
vv       HIST2H2AC MUTATED HIST2H2AC WILD-TYPE
  CLUS_1                 3                  10
  CLUS_2                 0                  28
  CLUS_3                 0                  14
  CLUS_4                 0                   8
  CLUS_5                 0                  55
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3
  HIST2H2AC MUTATED        1      2      0
  HIST2H2AC WILD-TYPE     19     42     54
D18V10, multiclass
        clus
vv       HIST2H2AC MUTATED HIST2H2AC WILD-TYPE
  CLUS_1                 1                  19
  CLUS_2                 2                  42
  CLUS_3                 0                  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
  HIST2H2AC MUTATED        1      2      0      0
  HIST2H2AC WILD-TYPE      7      5     13      8
D18V11, multiclass
        clus
vv       HIST2H2AC MUTATED HIST2H2AC WILD-TYPE
  CLUS_1                 1                   7
  CLUS_2                 2                   5
  CLUS_3                 0                  13
  CLUS_4                 0                   8
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HIST2H2AC MUTATED        1      2      0      0      0
  HIST2H2AC WILD-TYPE      7      7     12      5      2
D18V12, multiclass
        clus
vv       HIST2H2AC MUTATED HIST2H2AC WILD-TYPE
  CLUS_1                 1                   7
  CLUS_2                 2                   7
  CLUS_3                 0                  12
  CLUS_4                 0                   5
  CLUS_5                 0                   2
[1] 5 2
[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 = CTNNB1 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CTNNB1 MUTATED        0      3      0
  CTNNB1 WILD-TYPE     25     18     19
D19V1, multiclass
        clus
vv       CTNNB1 MUTATED CTNNB1 WILD-TYPE
  CLUS_1              0               25
  CLUS_2              3               18
  CLUS_3              0               19
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CTNNB1 MUTATED        0      3      0      0      0      0      0      0
  CTNNB1 WILD-TYPE      6     10     12      9      6      9      8      2
D19V2, multiclass
        clus
vv       CTNNB1 MUTATED CTNNB1 WILD-TYPE
  CLUS_1              0                6
  CLUS_2              3               10
  CLUS_3              0               12
  CLUS_4              0                9
  CLUS_5              0                6
  CLUS_6              0                9
  CLUS_7              0                8
  CLUS_8              0                2
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CTNNB1 MUTATED        7      3      3      6
  CTNNB1 WILD-TYPE     44     17     16     24
D19V3, multiclass
        clus
vv       CTNNB1 MUTATED CTNNB1 WILD-TYPE
  CLUS_1              7               44
  CLUS_2              3               17
  CLUS_3              3               16
  CLUS_4              6               24
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CTNNB1 MUTATED        4      8      4
  CTNNB1 WILD-TYPE     12     15     14
D19V4, multiclass
        clus
vv       CTNNB1 MUTATED CTNNB1 WILD-TYPE
  CLUS_1              4               12
  CLUS_2              8               15
  CLUS_3              4               14
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CTNNB1 MUTATED        4      5      5
  CTNNB1 WILD-TYPE     24     24     35
D19V5, multiclass
        clus
vv       CTNNB1 MUTATED CTNNB1 WILD-TYPE
  CLUS_1              4               24
  CLUS_2              5               24
  CLUS_3              5               35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- 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        0      4      3      1      3      3
  CTNNB1 WILD-TYPE     23     14     21      3     17      5
D19V6, multiclass
        clus
vv       CTNNB1 MUTATED CTNNB1 WILD-TYPE
  CLUS_1              0               23
  CLUS_2              4               14
  CLUS_3              3               21
  CLUS_4              1                3
  CLUS_5              3               17
  CLUS_6              3                5
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CTNNB1 MUTATED        6      3      3      3      4
  CTNNB1 WILD-TYPE     10     10     19     10     53
D19V7, multiclass
        clus
vv       CTNNB1 MUTATED CTNNB1 WILD-TYPE
  CLUS_1              6               10
  CLUS_2              3               10
  CLUS_3              3               19
  CLUS_4              3               10
  CLUS_5              4               53
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  CTNNB1 MUTATED        5      5      1      4      0      4      0
  CTNNB1 WILD-TYPE      6     18      7      8     32     14     17
D19V8, multiclass
        clus
vv       CTNNB1 MUTATED CTNNB1 WILD-TYPE
  CLUS_1              5                6
  CLUS_2              5               18
  CLUS_3              1                7
  CLUS_4              4                8
  CLUS_5              0               32
  CLUS_6              4               14
  CLUS_7              0               17
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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        2      9      4      0      4
  CTNNB1 WILD-TYPE     11     19     10      8     51
D19V9, multiclass
        clus
vv       CTNNB1 MUTATED CTNNB1 WILD-TYPE
  CLUS_1              2               11
  CLUS_2              9               19
  CLUS_3              4               10
  CLUS_4              0                8
  CLUS_5              4               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
  CTNNB1 MUTATED        0     15      4
  CTNNB1 WILD-TYPE     20     29     50
D19V10, multiclass
        clus
vv       CTNNB1 MUTATED CTNNB1 WILD-TYPE
  CLUS_1              0               20
  CLUS_2             15               29
  CLUS_3              4               50
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CTNNB1 MUTATED        2      2      3      2
  CTNNB1 WILD-TYPE      6      5     10      6
D19V11, multiclass
        clus
vv       CTNNB1 MUTATED CTNNB1 WILD-TYPE
  CLUS_1              2                6
  CLUS_2              2                5
  CLUS_3              3               10
  CLUS_4              2                6
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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      3      2      1      2
  CTNNB1 WILD-TYPE      7      6     10      4      0
D19V12, multiclass
        clus
vv       CTNNB1 MUTATED CTNNB1 WILD-TYPE
  CLUS_1              1                7
  CLUS_2              3                6
  CLUS_3              2               10
  CLUS_4              1                4
  CLUS_5              2                0
[1] 5 2
[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 = KIAA1804 MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  KIAA1804 MUTATED        3      4      1
  KIAA1804 WILD-TYPE     22     17     18
D20V1, multiclass
        clus
vv       KIAA1804 MUTATED KIAA1804 WILD-TYPE
  CLUS_1                3                 22
  CLUS_2                4                 17
  CLUS_3                1                 18
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KIAA1804 MUTATED        0      1      3      1      0      2      1      0
  KIAA1804 WILD-TYPE      6     12      9      8      6      7      7      2
D20V2, multiclass
        clus
vv       KIAA1804 MUTATED KIAA1804 WILD-TYPE
  CLUS_1                0                  6
  CLUS_2                1                 12
  CLUS_3                3                  9
  CLUS_4                1                  8
  CLUS_5                0                  6
  CLUS_6                2                  7
  CLUS_7                1                  7
  CLUS_8                0                  2
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KIAA1804 MUTATED        9      0      0      1
  KIAA1804 WILD-TYPE     42     20     19     29
D20V3, multiclass
        clus
vv       KIAA1804 MUTATED KIAA1804 WILD-TYPE
  CLUS_1                9                 42
  CLUS_2                0                 20
  CLUS_3                0                 19
  CLUS_4                1                 29
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  KIAA1804 MUTATED        0      0      2
  KIAA1804 WILD-TYPE     16     23     16
D20V4, multiclass
[1] "Remove cluster labels:" "KIAA1804 MUTATED"      
clus
  KIAA1804 MUTATED KIAA1804 WILD-TYPE 
                 2                 55 
        TCGA-AF-2687         TCGA-AF-2693         TCGA-AF-4110 
"KIAA1804 WILD-TYPE" "KIAA1804 WILD-TYPE" "KIAA1804 WILD-TYPE" 
        TCGA-AF-6136         TCGA-AF-6655         TCGA-AF-6672 
"KIAA1804 WILD-TYPE" "KIAA1804 WILD-TYPE" "KIAA1804 WILD-TYPE" 
        TCGA-AG-3731         TCGA-AG-3732         TCGA-AG-3742 
"KIAA1804 WILD-TYPE" "KIAA1804 WILD-TYPE" "KIAA1804 WILD-TYPE" 
        TCGA-AG-A01W         TCGA-AG-A01Y         TCGA-AG-A020 
"KIAA1804 WILD-TYPE" "KIAA1804 WILD-TYPE" "KIAA1804 WILD-TYPE" 
        TCGA-AG-A026         TCGA-AG-A036         TCGA-AH-6544 
"KIAA1804 WILD-TYPE" "KIAA1804 WILD-TYPE" "KIAA1804 WILD-TYPE" 
        TCGA-AH-6547         TCGA-AH-6549         TCGA-AH-6643 
"KIAA1804 WILD-TYPE" "KIAA1804 WILD-TYPE" "KIAA1804 WILD-TYPE" 
        TCGA-AH-6644         TCGA-CI-6619         TCGA-CI-6620 
"KIAA1804 WILD-TYPE" "KIAA1804 WILD-TYPE" "KIAA1804 WILD-TYPE" 
        TCGA-CI-6621         TCGA-CI-6622         TCGA-CI-6624 
"KIAA1804 WILD-TYPE" "KIAA1804 WILD-TYPE" "KIAA1804 WILD-TYPE" 
        TCGA-CL-5917         TCGA-CL-5918         TCGA-DC-5337 
"KIAA1804 WILD-TYPE" "KIAA1804 WILD-TYPE" "KIAA1804 WILD-TYPE" 
        TCGA-DC-5869         TCGA-DC-6155         TCGA-DC-6157 
"KIAA1804 WILD-TYPE" "KIAA1804 WILD-TYPE" "KIAA1804 WILD-TYPE" 
        TCGA-DC-6158         TCGA-DC-6160         TCGA-DC-6681 
"KIAA1804 WILD-TYPE" "KIAA1804 WILD-TYPE" "KIAA1804 WILD-TYPE" 
        TCGA-DC-6682         TCGA-DC-6683         TCGA-DT-5265 
"KIAA1804 WILD-TYPE" "KIAA1804 WILD-TYPE" "KIAA1804 WILD-TYPE" 
        TCGA-DY-A0XA         TCGA-DY-A1DC         TCGA-DY-A1DD 
"KIAA1804 WILD-TYPE" "KIAA1804 WILD-TYPE" "KIAA1804 WILD-TYPE" 
        TCGA-DY-A1DF         TCGA-DY-A1DG         TCGA-DY-A1H8 
"KIAA1804 WILD-TYPE" "KIAA1804 WILD-TYPE" "KIAA1804 WILD-TYPE" 
        TCGA-EF-5830         TCGA-EI-6506         TCGA-EI-6507 
"KIAA1804 WILD-TYPE" "KIAA1804 WILD-TYPE" "KIAA1804 WILD-TYPE" 
        TCGA-EI-6510         TCGA-F5-6464         TCGA-F5-6465 
"KIAA1804 WILD-TYPE" "KIAA1804 WILD-TYPE" "KIAA1804 WILD-TYPE" 
        TCGA-F5-6571         TCGA-F5-6702         TCGA-F5-6811 
"KIAA1804 WILD-TYPE" "KIAA1804 WILD-TYPE" "KIAA1804 WILD-TYPE" 
        TCGA-F5-6812         TCGA-F5-6813         TCGA-G5-6235 
"KIAA1804 WILD-TYPE" "KIAA1804 WILD-TYPE" "KIAA1804 WILD-TYPE" 
        TCGA-G5-6641 
"KIAA1804 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  KIAA1804 MUTATED        2      2      5
  KIAA1804 WILD-TYPE     26     27     35
D20V5, multiclass
        clus
vv       KIAA1804 MUTATED KIAA1804 WILD-TYPE
  CLUS_1                2                 26
  CLUS_2                2                 27
  CLUS_3                5                 35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  KIAA1804 MUTATED        3      0      3      1      2      0
  KIAA1804 WILD-TYPE     20     18     21      3     18      8
D20V6, multiclass
        clus
vv       KIAA1804 MUTATED KIAA1804 WILD-TYPE
  CLUS_1                3                 20
  CLUS_2                0                 18
  CLUS_3                3                 21
  CLUS_4                1                  3
  CLUS_5                2                 18
  CLUS_6                0                  8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KIAA1804 MUTATED        0      1      3      0      6
  KIAA1804 WILD-TYPE     16     12     19     13     51
D20V7, multiclass
        clus
vv       KIAA1804 MUTATED KIAA1804 WILD-TYPE
  CLUS_1                0                 16
  CLUS_2                1                 12
  CLUS_3                3                 19
  CLUS_4                0                 13
  CLUS_5                6                 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
  KIAA1804 MUTATED        0      2      0      0      3      4      1
  KIAA1804 WILD-TYPE     11     21      8     12     29     14     16
D20V8, multiclass
        clus
vv       KIAA1804 MUTATED KIAA1804 WILD-TYPE
  CLUS_1                0                 11
  CLUS_2                2                 21
  CLUS_3                0                  8
  CLUS_4                0                 12
  CLUS_5                3                 29
  CLUS_6                4                 14
  CLUS_7                1                 16
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KIAA1804 MUTATED        0      0      1      0      9
  KIAA1804 WILD-TYPE     13     28     13      8     46
D20V9, multiclass
        clus
vv       KIAA1804 MUTATED KIAA1804 WILD-TYPE
  CLUS_1                0                 13
  CLUS_2                0                 28
  CLUS_3                1                 13
  CLUS_4                0                  8
  CLUS_5                9                 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
  KIAA1804 MUTATED        1      0      9
  KIAA1804 WILD-TYPE     19     44     45
D20V10, multiclass
        clus
vv       KIAA1804 MUTATED KIAA1804 WILD-TYPE
  CLUS_1                1                 19
  CLUS_2                0                 44
  CLUS_3                9                 45
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KIAA1804 MUTATED        0      0      0      0
  KIAA1804 WILD-TYPE      8      7     13      8
D20V11, multiclass
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KIAA1804 MUTATED        0      0      0      0      0
  KIAA1804 WILD-TYPE      8      9     12      5      2
D20V12, multiclass

Clustering(21) Variable = OXSM MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  OXSM MUTATED        0      1      0
  OXSM WILD-TYPE     25     20     19
D21V1, multiclass
[1] "Remove cluster labels:" "OXSM MUTATED"          
clus
  OXSM MUTATED OXSM WILD-TYPE 
             1             64 
    TCGA-AF-2689     TCGA-AF-2691     TCGA-AF-2692     TCGA-AF-3400 
"OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" 
    TCGA-AF-3913     TCGA-AG-3574     TCGA-AG-3575     TCGA-AG-3578 
"OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" 
    TCGA-AG-3580     TCGA-AG-3581     TCGA-AG-3582     TCGA-AG-3583 
"OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" 
    TCGA-AG-3584     TCGA-AG-3586     TCGA-AG-3587     TCGA-AG-3593 
"OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" 
    TCGA-AG-3594     TCGA-AG-3598     TCGA-AG-3599     TCGA-AG-3600 
"OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" 
    TCGA-AG-3601     TCGA-AG-3602     TCGA-AG-3605     TCGA-AG-3608 
"OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" 
    TCGA-AG-3609     TCGA-AG-3611     TCGA-AG-3612     TCGA-AG-3726 
"OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" 
    TCGA-AG-3727     TCGA-AG-3878     TCGA-AG-3881     TCGA-AG-3882 
"OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" 
    TCGA-AG-3883     TCGA-AG-3885     TCGA-AG-3887     TCGA-AG-3890 
"OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" 
    TCGA-AG-3893     TCGA-AG-3894     TCGA-AG-3896     TCGA-AG-3898 
"OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" 
    TCGA-AG-3901     TCGA-AG-3902     TCGA-AG-3909     TCGA-AG-3999 
"OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" 
    TCGA-AG-4001     TCGA-AG-4005     TCGA-AG-4007     TCGA-AG-4008 
"OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" 
    TCGA-AG-4015     TCGA-AG-A002     TCGA-AG-A008     TCGA-AG-A00C 
"OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" 
    TCGA-AG-A00H     TCGA-AG-A00Y     TCGA-AG-A011     TCGA-AG-A014 
"OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" 
    TCGA-AG-A015     TCGA-AG-A016     TCGA-AG-A01L     TCGA-AG-A025 
"OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" 
    TCGA-AG-A026     TCGA-AG-A02G     TCGA-AG-A02X     TCGA-AG-A032 
"OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OXSM MUTATED        0      1      0      0      0      0      0      0
  OXSM WILD-TYPE      6     12     12      9      6      9      8      2
D21V2, multiclass
[1] "Remove cluster labels:" "OXSM MUTATED"          
clus
  OXSM MUTATED OXSM WILD-TYPE 
             1             64 
    TCGA-AF-2689     TCGA-AF-2691     TCGA-AF-2692     TCGA-AF-3400 
"OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" 
    TCGA-AF-3913     TCGA-AG-3574     TCGA-AG-3575     TCGA-AG-3578 
"OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" 
    TCGA-AG-3580     TCGA-AG-3581     TCGA-AG-3582     TCGA-AG-3583 
"OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" 
    TCGA-AG-3584     TCGA-AG-3586     TCGA-AG-3587     TCGA-AG-3593 
"OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" 
    TCGA-AG-3594     TCGA-AG-3598     TCGA-AG-3599     TCGA-AG-3600 
"OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" 
    TCGA-AG-3601     TCGA-AG-3602     TCGA-AG-3605     TCGA-AG-3608 
"OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" 
    TCGA-AG-3609     TCGA-AG-3611     TCGA-AG-3612     TCGA-AG-3726 
"OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" 
    TCGA-AG-3727     TCGA-AG-3878     TCGA-AG-3881     TCGA-AG-3882 
"OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" 
    TCGA-AG-3883     TCGA-AG-3885     TCGA-AG-3887     TCGA-AG-3890 
"OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" 
    TCGA-AG-3893     TCGA-AG-3894     TCGA-AG-3896     TCGA-AG-3898 
"OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" 
    TCGA-AG-3901     TCGA-AG-3902     TCGA-AG-3909     TCGA-AG-3999 
"OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" 
    TCGA-AG-4001     TCGA-AG-4005     TCGA-AG-4007     TCGA-AG-4008 
"OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" 
    TCGA-AG-4015     TCGA-AG-A002     TCGA-AG-A008     TCGA-AG-A00C 
"OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" 
    TCGA-AG-A00H     TCGA-AG-A00Y     TCGA-AG-A011     TCGA-AG-A014 
"OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" 
    TCGA-AG-A015     TCGA-AG-A016     TCGA-AG-A01L     TCGA-AG-A025 
"OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" 
    TCGA-AG-A026     TCGA-AG-A02G     TCGA-AG-A02X     TCGA-AG-A032 
"OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  OXSM MUTATED        2      0      1      1
  OXSM WILD-TYPE     49     20     18     29
D21V3, multiclass
        clus
vv       OXSM MUTATED OXSM WILD-TYPE
  CLUS_1            2             49
  CLUS_2            0             20
  CLUS_3            1             18
  CLUS_4            1             29
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  OXSM MUTATED        0      1      2
  OXSM WILD-TYPE     16     22     16
D21V4, multiclass
        clus
vv       OXSM MUTATED OXSM WILD-TYPE
  CLUS_1            0             16
  CLUS_2            1             22
  CLUS_3            2             16
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  OXSM MUTATED        1      2      0
  OXSM WILD-TYPE     27     27     40
D21V5, multiclass
        clus
vv       OXSM MUTATED OXSM WILD-TYPE
  CLUS_1            1             27
  CLUS_2            2             27
  CLUS_3            0             40
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  OXSM MUTATED        0      1      0      0      2      0
  OXSM WILD-TYPE     23     17     24      4     18      8
D21V6, multiclass
        clus
vv       OXSM MUTATED OXSM WILD-TYPE
  CLUS_1            0             23
  CLUS_2            1             17
  CLUS_3            0             24
  CLUS_4            0              4
  CLUS_5            2             18
  CLUS_6            0              8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OXSM MUTATED        1      0      1      1      1
  OXSM WILD-TYPE     15     13     21     12     56
D21V7, multiclass
        clus
vv       OXSM MUTATED OXSM WILD-TYPE
  CLUS_1            1             15
  CLUS_2            0             13
  CLUS_3            1             21
  CLUS_4            1             12
  CLUS_5            1             56
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  OXSM MUTATED        1      0      1      1      0      1      0
  OXSM WILD-TYPE     10     23      7     11     32     17     17
D21V8, multiclass
        clus
vv       OXSM MUTATED OXSM WILD-TYPE
  CLUS_1            1             10
  CLUS_2            0             23
  CLUS_3            1              7
  CLUS_4            1             11
  CLUS_5            0             32
  CLUS_6            1             17
  CLUS_7            0             17
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OXSM MUTATED        1      1      1      0      1
  OXSM WILD-TYPE     12     27     13      8     54
D21V9, multiclass
        clus
vv       OXSM MUTATED OXSM WILD-TYPE
  CLUS_1            1             12
  CLUS_2            1             27
  CLUS_3            1             13
  CLUS_4            0              8
  CLUS_5            1             54
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  OXSM MUTATED        0      3      1
  OXSM WILD-TYPE     20     41     53
D21V10, multiclass
        clus
vv       OXSM MUTATED OXSM WILD-TYPE
  CLUS_1            0             20
  CLUS_2            3             41
  CLUS_3            1             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
  OXSM MUTATED        0      0      1      1
  OXSM WILD-TYPE      8      7     12      7
D21V11, multiclass
[1] "Remove cluster labels:" "OXSM MUTATED"          
clus
  OXSM MUTATED OXSM WILD-TYPE 
             2             34 
    TCGA-AF-2687     TCGA-AF-4110     TCGA-AF-6655     TCGA-AF-6672 
"OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" 
    TCGA-AG-3731     TCGA-AG-3732     TCGA-AH-6544     TCGA-AH-6547 
"OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" 
    TCGA-AH-6549     TCGA-AH-6643     TCGA-CI-6619     TCGA-CI-6620 
"OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" 
    TCGA-CI-6621     TCGA-CI-6624     TCGA-DC-5337     TCGA-DC-5869 
"OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" 
    TCGA-DC-6157     TCGA-DC-6158     TCGA-DC-6681     TCGA-DC-6683 
"OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" 
    TCGA-DY-A1DC     TCGA-DY-A1DD     TCGA-DY-A1DG     TCGA-DY-A1H8 
"OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" 
    TCGA-EI-6506     TCGA-EI-6507     TCGA-F5-6464     TCGA-F5-6465 
"OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" 
    TCGA-F5-6571     TCGA-F5-6702     TCGA-F5-6811     TCGA-F5-6812 
"OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" 
    TCGA-G5-6235     TCGA-G5-6641 
"OXSM WILD-TYPE" "OXSM WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OXSM MUTATED        1      0      0      1      0
  OXSM WILD-TYPE      7      9     12      4      2
D21V12, multiclass
[1] "Remove cluster labels:" "OXSM MUTATED"          
clus
  OXSM MUTATED OXSM WILD-TYPE 
             2             34 
    TCGA-AF-2687     TCGA-AF-4110     TCGA-AF-6655     TCGA-AF-6672 
"OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" 
    TCGA-AG-3731     TCGA-AG-3732     TCGA-AH-6544     TCGA-AH-6547 
"OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" 
    TCGA-AH-6549     TCGA-AH-6643     TCGA-CI-6619     TCGA-CI-6620 
"OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" 
    TCGA-CI-6621     TCGA-CI-6624     TCGA-DC-5337     TCGA-DC-5869 
"OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" 
    TCGA-DC-6157     TCGA-DC-6158     TCGA-DC-6681     TCGA-DC-6683 
"OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" 
    TCGA-DY-A1DC     TCGA-DY-A1DD     TCGA-DY-A1DG     TCGA-DY-A1H8 
"OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" 
    TCGA-EI-6506     TCGA-EI-6507     TCGA-F5-6464     TCGA-F5-6465 
"OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" 
    TCGA-F5-6571     TCGA-F5-6702     TCGA-F5-6811     TCGA-F5-6812 
"OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" "OXSM WILD-TYPE" 
    TCGA-G5-6235     TCGA-G5-6641 
"OXSM WILD-TYPE" "OXSM WILD-TYPE" 

Clustering(22) Variable = BCL9 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  BCL9 MUTATED        2      0      1
  BCL9 WILD-TYPE     23     21     18
D22V1, multiclass
        clus
vv       BCL9 MUTATED BCL9 WILD-TYPE
  CLUS_1            2             23
  CLUS_2            0             21
  CLUS_3            1             18
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  BCL9 MUTATED        0      0      1      1      0      1      0      0
  BCL9 WILD-TYPE      6     13     11      8      6      8      8      2
D22V2, multiclass
        clus
vv       BCL9 MUTATED BCL9 WILD-TYPE
  CLUS_1            0              6
  CLUS_2            0             13
  CLUS_3            1             11
  CLUS_4            1              8
  CLUS_5            0              6
  CLUS_6            1              8
  CLUS_7            0              8
  CLUS_8            0              2
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  BCL9 MUTATED        2      1      2      0
  BCL9 WILD-TYPE     49     19     17     30
D22V3, multiclass
        clus
vv       BCL9 MUTATED BCL9 WILD-TYPE
  CLUS_1            2             49
  CLUS_2            1             19
  CLUS_3            2             17
  CLUS_4            0             30
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  BCL9 MUTATED        1      1      0
  BCL9 WILD-TYPE     15     22     18
D22V4, multiclass
[1] "Remove cluster labels:" "BCL9 MUTATED"          
clus
  BCL9 MUTATED BCL9 WILD-TYPE 
             2             55 
    TCGA-AF-2687     TCGA-AF-2693     TCGA-AF-6136     TCGA-AF-6655 
"BCL9 WILD-TYPE" "BCL9 WILD-TYPE" "BCL9 WILD-TYPE" "BCL9 WILD-TYPE" 
    TCGA-AF-6672     TCGA-AG-3731     TCGA-AG-3732     TCGA-AG-3742 
"BCL9 WILD-TYPE" "BCL9 WILD-TYPE" "BCL9 WILD-TYPE" "BCL9 WILD-TYPE" 
    TCGA-AG-A01W     TCGA-AG-A01Y     TCGA-AG-A020     TCGA-AG-A026 
"BCL9 WILD-TYPE" "BCL9 WILD-TYPE" "BCL9 WILD-TYPE" "BCL9 WILD-TYPE" 
    TCGA-AG-A02N     TCGA-AG-A036     TCGA-AH-6544     TCGA-AH-6547 
"BCL9 WILD-TYPE" "BCL9 WILD-TYPE" "BCL9 WILD-TYPE" "BCL9 WILD-TYPE" 
    TCGA-AH-6549     TCGA-AH-6643     TCGA-AH-6644     TCGA-CI-6619 
"BCL9 WILD-TYPE" "BCL9 WILD-TYPE" "BCL9 WILD-TYPE" "BCL9 WILD-TYPE" 
    TCGA-CI-6620     TCGA-CI-6621     TCGA-CI-6622     TCGA-CI-6624 
"BCL9 WILD-TYPE" "BCL9 WILD-TYPE" "BCL9 WILD-TYPE" "BCL9 WILD-TYPE" 
    TCGA-CL-5917     TCGA-CL-5918     TCGA-DC-5337     TCGA-DC-5869 
"BCL9 WILD-TYPE" "BCL9 WILD-TYPE" "BCL9 WILD-TYPE" "BCL9 WILD-TYPE" 
    TCGA-DC-6155     TCGA-DC-6157     TCGA-DC-6158     TCGA-DC-6160 
"BCL9 WILD-TYPE" "BCL9 WILD-TYPE" "BCL9 WILD-TYPE" "BCL9 WILD-TYPE" 
    TCGA-DC-6681     TCGA-DC-6682     TCGA-DC-6683     TCGA-DT-5265 
"BCL9 WILD-TYPE" "BCL9 WILD-TYPE" "BCL9 WILD-TYPE" "BCL9 WILD-TYPE" 
    TCGA-DY-A0XA     TCGA-DY-A1DC     TCGA-DY-A1DD     TCGA-DY-A1DF 
"BCL9 WILD-TYPE" "BCL9 WILD-TYPE" "BCL9 WILD-TYPE" "BCL9 WILD-TYPE" 
    TCGA-DY-A1H8     TCGA-EF-5830     TCGA-EI-6506     TCGA-EI-6507 
"BCL9 WILD-TYPE" "BCL9 WILD-TYPE" "BCL9 WILD-TYPE" "BCL9 WILD-TYPE" 
    TCGA-EI-6508     TCGA-EI-6510     TCGA-F5-6464     TCGA-F5-6465 
"BCL9 WILD-TYPE" "BCL9 WILD-TYPE" "BCL9 WILD-TYPE" "BCL9 WILD-TYPE" 
    TCGA-F5-6571     TCGA-F5-6702     TCGA-F5-6811     TCGA-F5-6812 
"BCL9 WILD-TYPE" "BCL9 WILD-TYPE" "BCL9 WILD-TYPE" "BCL9 WILD-TYPE" 
    TCGA-F5-6813     TCGA-G5-6235     TCGA-G5-6641 
"BCL9 WILD-TYPE" "BCL9 WILD-TYPE" "BCL9 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  BCL9 MUTATED        1      0      3
  BCL9 WILD-TYPE     27     29     37
D22V5, multiclass
        clus
vv       BCL9 MUTATED BCL9 WILD-TYPE
  CLUS_1            1             27
  CLUS_2            0             29
  CLUS_3            3             37
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  BCL9 MUTATED        1      0      1      0      1      1
  BCL9 WILD-TYPE     22     18     23      4     19      7
D22V6, multiclass
        clus
vv       BCL9 MUTATED BCL9 WILD-TYPE
  CLUS_1            1             22
  CLUS_2            0             18
  CLUS_3            1             23
  CLUS_4            0              4
  CLUS_5            1             19
  CLUS_6            1              7
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BCL9 MUTATED        0      1      1      1      2
  BCL9 WILD-TYPE     16     12     21     12     55
D22V7, multiclass
        clus
vv       BCL9 MUTATED BCL9 WILD-TYPE
  CLUS_1            0             16
  CLUS_2            1             12
  CLUS_3            1             21
  CLUS_4            1             12
  CLUS_5            2             55
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  BCL9 MUTATED        0      1      0      1      2      1      0
  BCL9 WILD-TYPE     11     22      8     11     30     17     17
D22V8, multiclass
        clus
vv       BCL9 MUTATED BCL9 WILD-TYPE
  CLUS_1            0             11
  CLUS_2            1             22
  CLUS_3            0              8
  CLUS_4            1             11
  CLUS_5            2             30
  CLUS_6            1             17
  CLUS_7            0             17
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BCL9 MUTATED        1      1      0      2      1
  BCL9 WILD-TYPE     12     27     14      6     54
D22V9, multiclass
        clus
vv       BCL9 MUTATED BCL9 WILD-TYPE
  CLUS_1            1             12
  CLUS_2            1             27
  CLUS_3            0             14
  CLUS_4            2              6
  CLUS_5            1             54
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  BCL9 MUTATED        2      2      1
  BCL9 WILD-TYPE     18     42     53
D22V10, multiclass
        clus
vv       BCL9 MUTATED BCL9 WILD-TYPE
  CLUS_1            2             18
  CLUS_2            2             42
  CLUS_3            1             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
  BCL9 MUTATED        0      1      0      1
  BCL9 WILD-TYPE      8      6     13      7
D22V11, multiclass
[1] "Remove cluster labels:" "BCL9 MUTATED"          
clus
  BCL9 MUTATED BCL9 WILD-TYPE 
             2             34 
    TCGA-AF-2687     TCGA-AF-6655     TCGA-AF-6672     TCGA-AG-3731 
"BCL9 WILD-TYPE" "BCL9 WILD-TYPE" "BCL9 WILD-TYPE" "BCL9 WILD-TYPE" 
    TCGA-AG-3732     TCGA-AH-6544     TCGA-AH-6547     TCGA-AH-6549 
"BCL9 WILD-TYPE" "BCL9 WILD-TYPE" "BCL9 WILD-TYPE" "BCL9 WILD-TYPE" 
    TCGA-AH-6643     TCGA-CI-6619     TCGA-CI-6620     TCGA-CI-6621 
"BCL9 WILD-TYPE" "BCL9 WILD-TYPE" "BCL9 WILD-TYPE" "BCL9 WILD-TYPE" 
    TCGA-CI-6624     TCGA-CL-5918     TCGA-DC-5337     TCGA-DC-5869 
"BCL9 WILD-TYPE" "BCL9 WILD-TYPE" "BCL9 WILD-TYPE" "BCL9 WILD-TYPE" 
    TCGA-DC-6157     TCGA-DC-6158     TCGA-DC-6681     TCGA-DC-6682 
"BCL9 WILD-TYPE" "BCL9 WILD-TYPE" "BCL9 WILD-TYPE" "BCL9 WILD-TYPE" 
    TCGA-DC-6683     TCGA-DY-A1DC     TCGA-DY-A1DD     TCGA-DY-A1H8 
"BCL9 WILD-TYPE" "BCL9 WILD-TYPE" "BCL9 WILD-TYPE" "BCL9 WILD-TYPE" 
    TCGA-EI-6506     TCGA-EI-6507     TCGA-F5-6464     TCGA-F5-6465 
"BCL9 WILD-TYPE" "BCL9 WILD-TYPE" "BCL9 WILD-TYPE" "BCL9 WILD-TYPE" 
    TCGA-F5-6571     TCGA-F5-6702     TCGA-F5-6811     TCGA-F5-6812 
"BCL9 WILD-TYPE" "BCL9 WILD-TYPE" "BCL9 WILD-TYPE" "BCL9 WILD-TYPE" 
    TCGA-G5-6235     TCGA-G5-6641 
"BCL9 WILD-TYPE" "BCL9 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BCL9 MUTATED        0      1      1      0      0
  BCL9 WILD-TYPE      8      8     11      5      2
D22V12, multiclass
[1] "Remove cluster labels:" "BCL9 MUTATED"          
clus
  BCL9 MUTATED BCL9 WILD-TYPE 
             2             34 
    TCGA-AF-2687     TCGA-AF-6655     TCGA-AF-6672     TCGA-AG-3731 
"BCL9 WILD-TYPE" "BCL9 WILD-TYPE" "BCL9 WILD-TYPE" "BCL9 WILD-TYPE" 
    TCGA-AG-3732     TCGA-AH-6544     TCGA-AH-6547     TCGA-AH-6549 
"BCL9 WILD-TYPE" "BCL9 WILD-TYPE" "BCL9 WILD-TYPE" "BCL9 WILD-TYPE" 
    TCGA-AH-6643     TCGA-CI-6619     TCGA-CI-6620     TCGA-CI-6621 
"BCL9 WILD-TYPE" "BCL9 WILD-TYPE" "BCL9 WILD-TYPE" "BCL9 WILD-TYPE" 
    TCGA-CI-6624     TCGA-CL-5918     TCGA-DC-5337     TCGA-DC-5869 
"BCL9 WILD-TYPE" "BCL9 WILD-TYPE" "BCL9 WILD-TYPE" "BCL9 WILD-TYPE" 
    TCGA-DC-6157     TCGA-DC-6158     TCGA-DC-6681     TCGA-DC-6682 
"BCL9 WILD-TYPE" "BCL9 WILD-TYPE" "BCL9 WILD-TYPE" "BCL9 WILD-TYPE" 
    TCGA-DC-6683     TCGA-DY-A1DC     TCGA-DY-A1DD     TCGA-DY-A1H8 
"BCL9 WILD-TYPE" "BCL9 WILD-TYPE" "BCL9 WILD-TYPE" "BCL9 WILD-TYPE" 
    TCGA-EI-6506     TCGA-EI-6507     TCGA-F5-6464     TCGA-F5-6465 
"BCL9 WILD-TYPE" "BCL9 WILD-TYPE" "BCL9 WILD-TYPE" "BCL9 WILD-TYPE" 
    TCGA-F5-6571     TCGA-F5-6702     TCGA-F5-6811     TCGA-F5-6812 
"BCL9 WILD-TYPE" "BCL9 WILD-TYPE" "BCL9 WILD-TYPE" "BCL9 WILD-TYPE" 
    TCGA-G5-6235     TCGA-G5-6641 
"BCL9 WILD-TYPE" "BCL9 WILD-TYPE" 

Clustering(23) Variable = KRAS MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  KRAS MUTATED       17     10      8
  KRAS WILD-TYPE      8     11     11
D23V1, multiclass
        clus
vv       KRAS MUTATED KRAS WILD-TYPE
  CLUS_1           17              8
  CLUS_2           10             11
  CLUS_3            8             11
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  KRAS MUTATED        3     10      9      3      3      5      0      2
  KRAS WILD-TYPE      3      3      3      6      3      4      8      0
D23V2, multiclass
        clus
vv       KRAS MUTATED KRAS WILD-TYPE
  CLUS_1            3              3
  CLUS_2           10              3
  CLUS_3            9              3
  CLUS_4            3              6
  CLUS_5            3              3
  CLUS_6            5              4
  CLUS_7            0              8
  CLUS_8            2              0
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger 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       31     14      4     13
  KRAS WILD-TYPE     20      6     15     17
D23V3, multiclass
        clus
vv       KRAS MUTATED KRAS WILD-TYPE
  CLUS_1           31             20
  CLUS_2           14              6
  CLUS_3            4             15
  CLUS_4           13             17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  KRAS MUTATED        3     14     10
  KRAS WILD-TYPE     13      9      8
D23V4, multiclass
        clus
vv       KRAS MUTATED KRAS WILD-TYPE
  CLUS_1            3             13
  CLUS_2           14              9
  CLUS_3           10              8
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  KRAS MUTATED       13     15     20
  KRAS WILD-TYPE     15     14     20
D23V5, multiclass
        clus
vv       KRAS MUTATED KRAS WILD-TYPE
  CLUS_1           13             15
  CLUS_2           15             14
  CLUS_3           20             20
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- 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       12      9     14      2      8      3
  KRAS WILD-TYPE     11      9     10      2     12      5
D23V6, multiclass
        clus
vv       KRAS MUTATED KRAS WILD-TYPE
  CLUS_1           12             11
  CLUS_2            9              9
  CLUS_3           14             10
  CLUS_4            2              2
  CLUS_5            8             12
  CLUS_6            3              5
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KRAS MUTATED        8      6     15      5     28
  KRAS WILD-TYPE      8      7      7      8     29
D23V7, multiclass
        clus
vv       KRAS MUTATED KRAS WILD-TYPE
  CLUS_1            8              8
  CLUS_2            6              7
  CLUS_3           15              7
  CLUS_4            5              8
  CLUS_5           28             29
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  KRAS MUTATED        4     12      4      7     11     13     11
  KRAS WILD-TYPE      7     11      4      5     21      5      6
D23V8, multiclass
        clus
vv       KRAS MUTATED KRAS WILD-TYPE
  CLUS_1            4              7
  CLUS_2           12             11
  CLUS_3            4              4
  CLUS_4            7              5
  CLUS_5           11             21
  CLUS_6           13              5
  CLUS_7           11              6
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KRAS MUTATED        6     14      6      3     30
  KRAS WILD-TYPE      7     14      8      5     25
D23V9, multiclass
        clus
vv       KRAS MUTATED KRAS WILD-TYPE
  CLUS_1            6              7
  CLUS_2           14             14
  CLUS_3            6              8
  CLUS_4            3              5
  CLUS_5           30             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
  KRAS MUTATED        5     24     30
  KRAS WILD-TYPE     15     20     24
D23V10, multiclass
        clus
vv       KRAS MUTATED KRAS WILD-TYPE
  CLUS_1            5             15
  CLUS_2           24             20
  CLUS_3           30             24
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KRAS MUTATED        2      4      6      3
  KRAS WILD-TYPE      6      3      7      5
D23V11, multiclass
        clus
vv       KRAS MUTATED KRAS WILD-TYPE
  CLUS_1            2              6
  CLUS_2            4              3
  CLUS_3            6              7
  CLUS_4            3              5
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KRAS MUTATED        4      4      7      0      0
  KRAS WILD-TYPE      4      5      5      5      2
D23V12, multiclass
        clus
vv       KRAS MUTATED KRAS WILD-TYPE
  CLUS_1            4              4
  CLUS_2            4              5
  CLUS_3            7              5
  CLUS_4            0              5
  CLUS_5            0              2
[1] 5 2
[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 = SLC12A6 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC12A6 MUTATED        1      1      0
  SLC12A6 WILD-TYPE     24     20     19
D24V1, multiclass
[1] "Remove cluster labels:" "SLC12A6 MUTATED"       
clus
  SLC12A6 MUTATED SLC12A6 WILD-TYPE 
                2                63 
       TCGA-AF-2689        TCGA-AF-2691        TCGA-AF-2692        TCGA-AF-3400 
"SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" 
       TCGA-AF-3913        TCGA-AG-3574        TCGA-AG-3575        TCGA-AG-3578 
"SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" 
       TCGA-AG-3580        TCGA-AG-3581        TCGA-AG-3582        TCGA-AG-3583 
"SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" 
       TCGA-AG-3584        TCGA-AG-3586        TCGA-AG-3587        TCGA-AG-3593 
"SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" 
       TCGA-AG-3594        TCGA-AG-3598        TCGA-AG-3599        TCGA-AG-3600 
"SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" 
       TCGA-AG-3601        TCGA-AG-3602        TCGA-AG-3605        TCGA-AG-3608 
"SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" 
       TCGA-AG-3609        TCGA-AG-3611        TCGA-AG-3612        TCGA-AG-3726 
"SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" 
       TCGA-AG-3727        TCGA-AG-3878        TCGA-AG-3881        TCGA-AG-3882 
"SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" 
       TCGA-AG-3883        TCGA-AG-3885        TCGA-AG-3887        TCGA-AG-3890 
"SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" 
       TCGA-AG-3893        TCGA-AG-3894        TCGA-AG-3896        TCGA-AG-3898 
"SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" 
       TCGA-AG-3901        TCGA-AG-3902        TCGA-AG-3909        TCGA-AG-3999 
"SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" 
       TCGA-AG-4001        TCGA-AG-4005        TCGA-AG-4007        TCGA-AG-4008 
"SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" 
       TCGA-AG-4015        TCGA-AG-A008        TCGA-AG-A00C        TCGA-AG-A00H 
"SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" 
       TCGA-AG-A00Y        TCGA-AG-A011        TCGA-AG-A014        TCGA-AG-A015 
"SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" 
       TCGA-AG-A016        TCGA-AG-A01L        TCGA-AG-A025        TCGA-AG-A026 
"SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" 
       TCGA-AG-A02G        TCGA-AG-A02X        TCGA-AG-A032 
"SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  SLC12A6 MUTATED        0      1      1      0      0      0      0      0
  SLC12A6 WILD-TYPE      6     12     11      9      6      9      8      2
D24V2, multiclass
[1] "Remove cluster labels:" "SLC12A6 MUTATED"       
clus
  SLC12A6 MUTATED SLC12A6 WILD-TYPE 
                2                63 
       TCGA-AF-2689        TCGA-AF-2691        TCGA-AF-2692        TCGA-AF-3400 
"SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" 
       TCGA-AF-3913        TCGA-AG-3574        TCGA-AG-3575        TCGA-AG-3578 
"SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" 
       TCGA-AG-3580        TCGA-AG-3581        TCGA-AG-3582        TCGA-AG-3583 
"SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" 
       TCGA-AG-3584        TCGA-AG-3586        TCGA-AG-3587        TCGA-AG-3593 
"SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" 
       TCGA-AG-3594        TCGA-AG-3598        TCGA-AG-3599        TCGA-AG-3600 
"SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" 
       TCGA-AG-3601        TCGA-AG-3602        TCGA-AG-3605        TCGA-AG-3608 
"SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" 
       TCGA-AG-3609        TCGA-AG-3611        TCGA-AG-3612        TCGA-AG-3726 
"SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" 
       TCGA-AG-3727        TCGA-AG-3878        TCGA-AG-3881        TCGA-AG-3882 
"SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" 
       TCGA-AG-3883        TCGA-AG-3885        TCGA-AG-3887        TCGA-AG-3890 
"SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" 
       TCGA-AG-3893        TCGA-AG-3894        TCGA-AG-3896        TCGA-AG-3898 
"SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" 
       TCGA-AG-3901        TCGA-AG-3902        TCGA-AG-3909        TCGA-AG-3999 
"SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" 
       TCGA-AG-4001        TCGA-AG-4005        TCGA-AG-4007        TCGA-AG-4008 
"SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" 
       TCGA-AG-4015        TCGA-AG-A008        TCGA-AG-A00C        TCGA-AG-A00H 
"SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" 
       TCGA-AG-A00Y        TCGA-AG-A011        TCGA-AG-A014        TCGA-AG-A015 
"SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" 
       TCGA-AG-A016        TCGA-AG-A01L        TCGA-AG-A025        TCGA-AG-A026 
"SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" 
       TCGA-AG-A02G        TCGA-AG-A02X        TCGA-AG-A032 
"SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SLC12A6 MUTATED        4      1      1      0
  SLC12A6 WILD-TYPE     47     19     18     30
D24V3, multiclass
        clus
vv       SLC12A6 MUTATED SLC12A6 WILD-TYPE
  CLUS_1               4                47
  CLUS_2               1                19
  CLUS_3               1                18
  CLUS_4               0                30
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC12A6 MUTATED        0      3      1
  SLC12A6 WILD-TYPE     16     20     17
D24V4, multiclass
        clus
vv       SLC12A6 MUTATED SLC12A6 WILD-TYPE
  CLUS_1               0                16
  CLUS_2               3                20
  CLUS_3               1                17
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC12A6 MUTATED        1      1      1
  SLC12A6 WILD-TYPE     27     28     39
D24V5, multiclass
        clus
vv       SLC12A6 MUTATED SLC12A6 WILD-TYPE
  CLUS_1               1                27
  CLUS_2               1                28
  CLUS_3               1                39
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SLC12A6 MUTATED        0      0      1      0      2      0
  SLC12A6 WILD-TYPE     23     18     23      4     18      8
D24V6, multiclass
        clus
vv       SLC12A6 MUTATED SLC12A6 WILD-TYPE
  CLUS_1               0                23
  CLUS_2               0                18
  CLUS_3               1                23
  CLUS_4               0                 4
  CLUS_5               2                18
  CLUS_6               0                 8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC12A6 MUTATED        1      3      1      0      1
  SLC12A6 WILD-TYPE     15     10     21     13     56
D24V7, multiclass
        clus
vv       SLC12A6 MUTATED SLC12A6 WILD-TYPE
  CLUS_1               1                15
  CLUS_2               3                10
  CLUS_3               1                21
  CLUS_4               0                13
  CLUS_5               1                56
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  SLC12A6 MUTATED        0      3      0      1      0      2      0
  SLC12A6 WILD-TYPE     11     20      8     11     32     16     17
D24V8, multiclass
        clus
vv       SLC12A6 MUTATED SLC12A6 WILD-TYPE
  CLUS_1               0                11
  CLUS_2               3                20
  CLUS_3               0                 8
  CLUS_4               1                11
  CLUS_5               0                32
  CLUS_6               2                16
  CLUS_7               0                17
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC12A6 MUTATED        0      4      0      0      2
  SLC12A6 WILD-TYPE     13     24     14      8     53
D24V9, multiclass
        clus
vv       SLC12A6 MUTATED SLC12A6 WILD-TYPE
  CLUS_1               0                13
  CLUS_2               4                24
  CLUS_3               0                14
  CLUS_4               0                 8
  CLUS_5               2                53
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC12A6 MUTATED        0      4      2
  SLC12A6 WILD-TYPE     20     40     52
D24V10, multiclass
        clus
vv       SLC12A6 MUTATED SLC12A6 WILD-TYPE
  CLUS_1               0                20
  CLUS_2               4                40
  CLUS_3               2                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
  SLC12A6 MUTATED        1      0      1      0
  SLC12A6 WILD-TYPE      7      7     12      8
D24V11, multiclass
[1] "Remove cluster labels:" "SLC12A6 MUTATED"       
clus
  SLC12A6 MUTATED SLC12A6 WILD-TYPE 
                2                34 
       TCGA-AF-2687        TCGA-AF-4110        TCGA-AF-6655        TCGA-AF-6672 
"SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" 
       TCGA-AG-3731        TCGA-AG-3732        TCGA-AH-6544        TCGA-AH-6549 
"SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" 
       TCGA-AH-6643        TCGA-CI-6619        TCGA-CI-6620        TCGA-CI-6621 
"SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" 
       TCGA-CI-6624        TCGA-CL-5918        TCGA-DC-5337        TCGA-DC-5869 
"SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" 
       TCGA-DC-6157        TCGA-DC-6158        TCGA-DC-6681        TCGA-DC-6682 
"SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" 
       TCGA-DC-6683        TCGA-DY-A1DC        TCGA-DY-A1DD        TCGA-DY-A1DG 
"SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" 
       TCGA-DY-A1H8        TCGA-EI-6506        TCGA-EI-6507        TCGA-F5-6464 
"SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" 
       TCGA-F5-6465        TCGA-F5-6571        TCGA-F5-6702        TCGA-F5-6812 
"SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" 
       TCGA-G5-6235        TCGA-G5-6641 
"SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC12A6 MUTATED        0      1      0      0      1
  SLC12A6 WILD-TYPE      8      8     12      5      1
D24V12, multiclass
[1] "Remove cluster labels:" "SLC12A6 MUTATED"       
clus
  SLC12A6 MUTATED SLC12A6 WILD-TYPE 
                2                34 
       TCGA-AF-2687        TCGA-AF-4110        TCGA-AF-6655        TCGA-AF-6672 
"SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" 
       TCGA-AG-3731        TCGA-AG-3732        TCGA-AH-6544        TCGA-AH-6549 
"SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" 
       TCGA-AH-6643        TCGA-CI-6619        TCGA-CI-6620        TCGA-CI-6621 
"SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" 
       TCGA-CI-6624        TCGA-CL-5918        TCGA-DC-5337        TCGA-DC-5869 
"SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" 
       TCGA-DC-6157        TCGA-DC-6158        TCGA-DC-6681        TCGA-DC-6682 
"SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" 
       TCGA-DC-6683        TCGA-DY-A1DC        TCGA-DY-A1DD        TCGA-DY-A1DG 
"SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" 
       TCGA-DY-A1H8        TCGA-EI-6506        TCGA-EI-6507        TCGA-F5-6464 
"SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" 
       TCGA-F5-6465        TCGA-F5-6571        TCGA-F5-6702        TCGA-F5-6812 
"SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" 
       TCGA-G5-6235        TCGA-G5-6641 
"SLC12A6 WILD-TYPE" "SLC12A6 WILD-TYPE" 

Clustering(25) Variable = ZNF354C MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ZNF354C MUTATED        1      0      0
  ZNF354C WILD-TYPE     24     21     19
D25V1, multiclass
[1] "Remove cluster labels:" "ZNF354C MUTATED"       
clus
  ZNF354C MUTATED ZNF354C WILD-TYPE 
                1                64 
       TCGA-AF-2689        TCGA-AF-2691        TCGA-AF-2692        TCGA-AF-3400 
"ZNF354C WILD-TYPE" "ZNF354C WILD-TYPE" "ZNF354C WILD-TYPE" "ZNF354C WILD-TYPE" 
       TCGA-AF-3913        TCGA-AG-3574        TCGA-AG-3575        TCGA-AG-3578 
"ZNF354C WILD-TYPE" "ZNF354C WILD-TYPE" "ZNF354C WILD-TYPE" "ZNF354C WILD-TYPE" 
       TCGA-AG-3580        TCGA-AG-3581        TCGA-AG-3582        TCGA-AG-3583 
"ZNF354C WILD-TYPE" "ZNF354C WILD-TYPE" "ZNF354C WILD-TYPE" "ZNF354C WILD-TYPE" 
       TCGA-AG-3584        TCGA-AG-3586        TCGA-AG-3587        TCGA-AG-3593 
"ZNF354C WILD-TYPE" "ZNF354C WILD-TYPE" "ZNF354C WILD-TYPE" "ZNF354C WILD-TYPE" 
       TCGA-AG-3594        TCGA-AG-3598        TCGA-AG-3599        TCGA-AG-3600 
"ZNF354C WILD-TYPE" "ZNF354C WILD-TYPE" "ZNF354C WILD-TYPE" "ZNF354C WILD-TYPE" 
       TCGA-AG-3601        TCGA-AG-3602        TCGA-AG-3605        TCGA-AG-3608 
"ZNF354C WILD-TYPE" "ZNF354C WILD-TYPE" "ZNF354C WILD-TYPE" "ZNF354C WILD-TYPE" 
       TCGA-AG-3609        TCGA-AG-3611        TCGA-AG-3612        TCGA-AG-3726 
"ZNF354C WILD-TYPE" "ZNF354C WILD-TYPE" "ZNF354C WILD-TYPE" "ZNF354C WILD-TYPE" 
       TCGA-AG-3727        TCGA-AG-3878        TCGA-AG-3881        TCGA-AG-3882 
"ZNF354C WILD-TYPE" "ZNF354C WILD-TYPE" "ZNF354C WILD-TYPE" "ZNF354C WILD-TYPE" 
       TCGA-AG-3883        TCGA-AG-3885        TCGA-AG-3887        TCGA-AG-3890 
"ZNF354C WILD-TYPE" "ZNF354C WILD-TYPE" "ZNF354C WILD-TYPE" "ZNF354C WILD-TYPE" 
       TCGA-AG-3892        TCGA-AG-3893        TCGA-AG-3894        TCGA-AG-3896 
"ZNF354C WILD-TYPE" "ZNF354C WILD-TYPE" "ZNF354C WILD-TYPE" "ZNF354C WILD-TYPE" 
       TCGA-AG-3898        TCGA-AG-3901        TCGA-AG-3902        TCGA-AG-3909 
"ZNF354C WILD-TYPE" "ZNF354C WILD-TYPE" "ZNF354C WILD-TYPE" "ZNF354C WILD-TYPE" 
       TCGA-AG-3999        TCGA-AG-4001        TCGA-AG-4005        TCGA-AG-4007 
"ZNF354C WILD-TYPE" "ZNF354C WILD-TYPE" "ZNF354C WILD-TYPE" "ZNF354C WILD-TYPE" 
       TCGA-AG-4008        TCGA-AG-4015        TCGA-AG-A008        TCGA-AG-A00C 
"ZNF354C WILD-TYPE" "ZNF354C WILD-TYPE" "ZNF354C WILD-TYPE" "ZNF354C WILD-TYPE" 
       TCGA-AG-A00H        TCGA-AG-A00Y        TCGA-AG-A011        TCGA-AG-A014 
"ZNF354C WILD-TYPE" "ZNF354C WILD-TYPE" "ZNF354C WILD-TYPE" "ZNF354C WILD-TYPE" 
       TCGA-AG-A015        TCGA-AG-A016        TCGA-AG-A01L        TCGA-AG-A025 
"ZNF354C WILD-TYPE" "ZNF354C WILD-TYPE" "ZNF354C WILD-TYPE" "ZNF354C WILD-TYPE" 
       TCGA-AG-A026        TCGA-AG-A02G        TCGA-AG-A02X        TCGA-AG-A032 
"ZNF354C WILD-TYPE" "ZNF354C WILD-TYPE" "ZNF354C WILD-TYPE" "ZNF354C WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ZNF354C MUTATED        0      0      1      0      0      0      0      0
  ZNF354C WILD-TYPE      6     13     11      9      6      9      8      2
D25V2, multiclass
[1] "Remove cluster labels:" "ZNF354C MUTATED"       
clus
  ZNF354C MUTATED ZNF354C WILD-TYPE 
                1                64 
       TCGA-AF-2689        TCGA-AF-2691        TCGA-AF-2692        TCGA-AF-3400 
"ZNF354C WILD-TYPE" "ZNF354C WILD-TYPE" "ZNF354C WILD-TYPE" "ZNF354C WILD-TYPE" 
       TCGA-AF-3913        TCGA-AG-3574        TCGA-AG-3575        TCGA-AG-3578 
"ZNF354C WILD-TYPE" "ZNF354C WILD-TYPE" "ZNF354C WILD-TYPE" "ZNF354C WILD-TYPE" 
       TCGA-AG-3580        TCGA-AG-3581        TCGA-AG-3582        TCGA-AG-3583 
"ZNF354C WILD-TYPE" "ZNF354C WILD-TYPE" "ZNF354C WILD-TYPE" "ZNF354C WILD-TYPE" 
       TCGA-AG-3584        TCGA-AG-3586        TCGA-AG-3587        TCGA-AG-3593 
"ZNF354C WILD-TYPE" "ZNF354C WILD-TYPE" "ZNF354C WILD-TYPE" "ZNF354C WILD-TYPE" 
       TCGA-AG-3594        TCGA-AG-3598        TCGA-AG-3599        TCGA-AG-3600 
"ZNF354C WILD-TYPE" "ZNF354C WILD-TYPE" "ZNF354C WILD-TYPE" "ZNF354C WILD-TYPE" 
       TCGA-AG-3601        TCGA-AG-3602        TCGA-AG-3605        TCGA-AG-3608 
"ZNF354C WILD-TYPE" "ZNF354C WILD-TYPE" "ZNF354C WILD-TYPE" "ZNF354C WILD-TYPE" 
       TCGA-AG-3609        TCGA-AG-3611        TCGA-AG-3612        TCGA-AG-3726 
"ZNF354C WILD-TYPE" "ZNF354C WILD-TYPE" "ZNF354C WILD-TYPE" "ZNF354C WILD-TYPE" 
       TCGA-AG-3727        TCGA-AG-3878        TCGA-AG-3881        TCGA-AG-3882 
"ZNF354C WILD-TYPE" "ZNF354C WILD-TYPE" "ZNF354C WILD-TYPE" "ZNF354C WILD-TYPE" 
       TCGA-AG-3883        TCGA-AG-3885        TCGA-AG-3887        TCGA-AG-3890 
"ZNF354C WILD-TYPE" "ZNF354C WILD-TYPE" "ZNF354C WILD-TYPE" "ZNF354C WILD-TYPE" 
       TCGA-AG-3892        TCGA-AG-3893        TCGA-AG-3894        TCGA-AG-3896 
"ZNF354C WILD-TYPE" "ZNF354C WILD-TYPE" "ZNF354C WILD-TYPE" "ZNF354C WILD-TYPE" 
       TCGA-AG-3898        TCGA-AG-3901        TCGA-AG-3902        TCGA-AG-3909 
"ZNF354C WILD-TYPE" "ZNF354C WILD-TYPE" "ZNF354C WILD-TYPE" "ZNF354C WILD-TYPE" 
       TCGA-AG-3999        TCGA-AG-4001        TCGA-AG-4005        TCGA-AG-4007 
"ZNF354C WILD-TYPE" "ZNF354C WILD-TYPE" "ZNF354C WILD-TYPE" "ZNF354C WILD-TYPE" 
       TCGA-AG-4008        TCGA-AG-4015        TCGA-AG-A008        TCGA-AG-A00C 
"ZNF354C WILD-TYPE" "ZNF354C WILD-TYPE" "ZNF354C WILD-TYPE" "ZNF354C WILD-TYPE" 
       TCGA-AG-A00H        TCGA-AG-A00Y        TCGA-AG-A011        TCGA-AG-A014 
"ZNF354C WILD-TYPE" "ZNF354C WILD-TYPE" "ZNF354C WILD-TYPE" "ZNF354C WILD-TYPE" 
       TCGA-AG-A015        TCGA-AG-A016        TCGA-AG-A01L        TCGA-AG-A025 
"ZNF354C WILD-TYPE" "ZNF354C WILD-TYPE" "ZNF354C WILD-TYPE" "ZNF354C WILD-TYPE" 
       TCGA-AG-A026        TCGA-AG-A02G        TCGA-AG-A02X        TCGA-AG-A032 
"ZNF354C WILD-TYPE" "ZNF354C WILD-TYPE" "ZNF354C WILD-TYPE" "ZNF354C WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZNF354C MUTATED        3      0      0      2
  ZNF354C WILD-TYPE     48     20     19     28
D25V3, multiclass
        clus
vv       ZNF354C MUTATED ZNF354C WILD-TYPE
  CLUS_1               3                48
  CLUS_2               0                20
  CLUS_3               0                19
  CLUS_4               2                28
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ZNF354C MUTATED        1      3      0
  ZNF354C WILD-TYPE     15     20     18
D25V4, multiclass
        clus
vv       ZNF354C MUTATED ZNF354C WILD-TYPE
  CLUS_1               1                15
  CLUS_2               3                20
  CLUS_3               0                18
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ZNF354C MUTATED        1      2      2
  ZNF354C WILD-TYPE     27     27     38
D25V5, multiclass
        clus
vv       ZNF354C MUTATED ZNF354C WILD-TYPE
  CLUS_1               1                27
  CLUS_2               2                27
  CLUS_3               2                38
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ZNF354C MUTATED        0      0      1      0      3      1
  ZNF354C WILD-TYPE     23     18     23      4     17      7
D25V6, multiclass
        clus
vv       ZNF354C MUTATED ZNF354C WILD-TYPE
  CLUS_1               0                23
  CLUS_2               0                18
  CLUS_3               1                23
  CLUS_4               0                 4
  CLUS_5               3                17
  CLUS_6               1                 7
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF354C MUTATED        2      0      3      0      0
  ZNF354C WILD-TYPE     14     13     19     13     57
D25V7, multiclass
        clus
vv       ZNF354C MUTATED ZNF354C WILD-TYPE
  CLUS_1               2                14
  CLUS_2               0                13
  CLUS_3               3                19
  CLUS_4               0                13
  CLUS_5               0                57
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  ZNF354C MUTATED        1      2      1      0      0      1      0
  ZNF354C WILD-TYPE     10     21      7     12     32     17     17
D25V8, multiclass
        clus
vv       ZNF354C MUTATED ZNF354C WILD-TYPE
  CLUS_1               1                10
  CLUS_2               2                21
  CLUS_3               1                 7
  CLUS_4               0                12
  CLUS_5               0                32
  CLUS_6               1                17
  CLUS_7               0                17
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF354C MUTATED        1      1      1      1      1
  ZNF354C WILD-TYPE     12     27     13      7     54
D25V9, multiclass
        clus
vv       ZNF354C MUTATED ZNF354C WILD-TYPE
  CLUS_1               1                12
  CLUS_2               1                27
  CLUS_3               1                13
  CLUS_4               1                 7
  CLUS_5               1                54
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  ZNF354C MUTATED        0      4      1
  ZNF354C WILD-TYPE     20     40     53
D25V10, multiclass
        clus
vv       ZNF354C MUTATED ZNF354C WILD-TYPE
  CLUS_1               0                20
  CLUS_2               4                40
  CLUS_3               1                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
  ZNF354C MUTATED        0      1      1      1
  ZNF354C WILD-TYPE      8      6     12      7
D25V11, multiclass
        clus
vv       ZNF354C MUTATED ZNF354C WILD-TYPE
  CLUS_1               0                 8
  CLUS_2               1                 6
  CLUS_3               1                12
  CLUS_4               1                 7
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZNF354C MUTATED        0      0      2      0      1
  ZNF354C WILD-TYPE      8      9     10      5      1
D25V12, multiclass
        clus
vv       ZNF354C MUTATED ZNF354C WILD-TYPE
  CLUS_1               0                 8
  CLUS_2               0                 9
  CLUS_3               2                10
  CLUS_4               0                 5
  CLUS_5               1                 1
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(26) Variable = GABRP MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GABRP MUTATED        0      1      0
  GABRP WILD-TYPE     25     20     19
D26V1, multiclass
[1] "Remove cluster labels:" "GABRP MUTATED"         
clus
  GABRP MUTATED GABRP WILD-TYPE 
              1              64 
     TCGA-AF-2689      TCGA-AF-2691      TCGA-AF-2692      TCGA-AF-3400 
"GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" 
     TCGA-AF-3913      TCGA-AG-3574      TCGA-AG-3575      TCGA-AG-3578 
"GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" 
     TCGA-AG-3580      TCGA-AG-3581      TCGA-AG-3582      TCGA-AG-3583 
"GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" 
     TCGA-AG-3584      TCGA-AG-3586      TCGA-AG-3587      TCGA-AG-3593 
"GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" 
     TCGA-AG-3594      TCGA-AG-3598      TCGA-AG-3599      TCGA-AG-3600 
"GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" 
     TCGA-AG-3601      TCGA-AG-3602      TCGA-AG-3605      TCGA-AG-3608 
"GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" 
     TCGA-AG-3609      TCGA-AG-3611      TCGA-AG-3612      TCGA-AG-3726 
"GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" 
     TCGA-AG-3727      TCGA-AG-3878      TCGA-AG-3881      TCGA-AG-3882 
"GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" 
     TCGA-AG-3883      TCGA-AG-3885      TCGA-AG-3887      TCGA-AG-3890 
"GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" 
     TCGA-AG-3893      TCGA-AG-3894      TCGA-AG-3896      TCGA-AG-3898 
"GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" 
     TCGA-AG-3901      TCGA-AG-3902      TCGA-AG-3909      TCGA-AG-3999 
"GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" 
     TCGA-AG-4001      TCGA-AG-4005      TCGA-AG-4007      TCGA-AG-4008 
"GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" 
     TCGA-AG-4015      TCGA-AG-A002      TCGA-AG-A008      TCGA-AG-A00C 
"GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" 
     TCGA-AG-A00H      TCGA-AG-A00Y      TCGA-AG-A011      TCGA-AG-A014 
"GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" 
     TCGA-AG-A015      TCGA-AG-A016      TCGA-AG-A01L      TCGA-AG-A025 
"GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" 
     TCGA-AG-A026      TCGA-AG-A02G      TCGA-AG-A02X      TCGA-AG-A032 
"GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  GABRP MUTATED        0      1      0      0      0      0      0      0
  GABRP WILD-TYPE      6     12     12      9      6      9      8      2
D26V2, multiclass
[1] "Remove cluster labels:" "GABRP MUTATED"         
clus
  GABRP MUTATED GABRP WILD-TYPE 
              1              64 
     TCGA-AF-2689      TCGA-AF-2691      TCGA-AF-2692      TCGA-AF-3400 
"GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" 
     TCGA-AF-3913      TCGA-AG-3574      TCGA-AG-3575      TCGA-AG-3578 
"GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" 
     TCGA-AG-3580      TCGA-AG-3581      TCGA-AG-3582      TCGA-AG-3583 
"GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" 
     TCGA-AG-3584      TCGA-AG-3586      TCGA-AG-3587      TCGA-AG-3593 
"GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" 
     TCGA-AG-3594      TCGA-AG-3598      TCGA-AG-3599      TCGA-AG-3600 
"GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" 
     TCGA-AG-3601      TCGA-AG-3602      TCGA-AG-3605      TCGA-AG-3608 
"GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" 
     TCGA-AG-3609      TCGA-AG-3611      TCGA-AG-3612      TCGA-AG-3726 
"GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" 
     TCGA-AG-3727      TCGA-AG-3878      TCGA-AG-3881      TCGA-AG-3882 
"GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" 
     TCGA-AG-3883      TCGA-AG-3885      TCGA-AG-3887      TCGA-AG-3890 
"GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" 
     TCGA-AG-3893      TCGA-AG-3894      TCGA-AG-3896      TCGA-AG-3898 
"GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" 
     TCGA-AG-3901      TCGA-AG-3902      TCGA-AG-3909      TCGA-AG-3999 
"GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" 
     TCGA-AG-4001      TCGA-AG-4005      TCGA-AG-4007      TCGA-AG-4008 
"GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" 
     TCGA-AG-4015      TCGA-AG-A002      TCGA-AG-A008      TCGA-AG-A00C 
"GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" 
     TCGA-AG-A00H      TCGA-AG-A00Y      TCGA-AG-A011      TCGA-AG-A014 
"GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" 
     TCGA-AG-A015      TCGA-AG-A016      TCGA-AG-A01L      TCGA-AG-A025 
"GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" 
     TCGA-AG-A026      TCGA-AG-A02G      TCGA-AG-A02X      TCGA-AG-A032 
"GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GABRP MUTATED        2      0      0      2
  GABRP WILD-TYPE     49     20     19     28
D26V3, multiclass
        clus
vv       GABRP MUTATED GABRP WILD-TYPE
  CLUS_1             2              49
  CLUS_2             0              20
  CLUS_3             0              19
  CLUS_4             2              28
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GABRP MUTATED        1      1      1
  GABRP WILD-TYPE     15     22     17
D26V4, multiclass
        clus
vv       GABRP MUTATED GABRP WILD-TYPE
  CLUS_1             1              15
  CLUS_2             1              22
  CLUS_3             1              17
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GABRP MUTATED        0      1      1
  GABRP WILD-TYPE     28     28     39
D26V5, multiclass
[1] "Remove cluster labels:" "GABRP MUTATED"         
clus
  GABRP MUTATED GABRP WILD-TYPE 
              2              95 
     TCGA-AF-2689      TCGA-AF-3400      TCGA-AF-3913      TCGA-AF-5654 
"GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" 
     TCGA-AF-6136      TCGA-AF-6655      TCGA-AF-6672      TCGA-AG-3574 
"GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" 
     TCGA-AG-3578      TCGA-AG-3580      TCGA-AG-3581      TCGA-AG-3582 
"GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" 
     TCGA-AG-3583      TCGA-AG-3584      TCGA-AG-3586      TCGA-AG-3587 
"GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" 
     TCGA-AG-3593      TCGA-AG-3594      TCGA-AG-3598      TCGA-AG-3599 
"GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" 
     TCGA-AG-3600      TCGA-AG-3601      TCGA-AG-3602      TCGA-AG-3605 
"GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" 
     TCGA-AG-3609      TCGA-AG-3612      TCGA-AG-3727      TCGA-AG-3731 
"GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" 
     TCGA-AG-3742      TCGA-AG-3878      TCGA-AG-3881      TCGA-AG-3882 
"GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" 
     TCGA-AG-3885      TCGA-AG-3893      TCGA-AG-3896      TCGA-AG-3898 
"GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" 
     TCGA-AG-3901      TCGA-AG-3902      TCGA-AG-4001      TCGA-AG-4005 
"GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" 
     TCGA-AG-4007      TCGA-AG-4008      TCGA-AG-4015      TCGA-AG-A002 
"GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" 
     TCGA-AG-A008      TCGA-AG-A00C      TCGA-AG-A00H      TCGA-AG-A00Y 
"GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" 
     TCGA-AG-A011      TCGA-AG-A014      TCGA-AG-A015      TCGA-AG-A016 
"GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" 
     TCGA-AG-A01W      TCGA-AG-A01Y      TCGA-AG-A020      TCGA-AG-A026 
"GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" 
     TCGA-AG-A02G      TCGA-AG-A02X      TCGA-AG-A036      TCGA-AH-6544 
"GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" 
     TCGA-AH-6547      TCGA-AH-6549      TCGA-AH-6643      TCGA-AH-6644 
"GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" 
     TCGA-CI-6621      TCGA-CL-5918      TCGA-DC-5337      TCGA-DC-5869 
"GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" 
     TCGA-DC-6155      TCGA-DC-6157      TCGA-DC-6158      TCGA-DC-6160 
"GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" 
     TCGA-DC-6681      TCGA-DC-6682      TCGA-DC-6683      TCGA-DT-5265 
"GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" 
     TCGA-DY-A0XA      TCGA-DY-A1DC      TCGA-DY-A1DD      TCGA-DY-A1DF 
"GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" 
     TCGA-DY-A1DG      TCGA-DY-A1H8      TCGA-EI-6506      TCGA-EI-6507 
"GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" 
     TCGA-EI-6508      TCGA-EI-6510      TCGA-F5-6464      TCGA-F5-6465 
"GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" 
     TCGA-F5-6571      TCGA-F5-6702      TCGA-F5-6811      TCGA-F5-6812 
"GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" 
     TCGA-F5-6813      TCGA-G5-6235      TCGA-G5-6641 
"GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  GABRP MUTATED        0      0      1      0      0      1
  GABRP WILD-TYPE     23     18     23      4     20      7
D26V6, multiclass
[1] "Remove cluster labels:" "GABRP MUTATED"         
clus
  GABRP MUTATED GABRP WILD-TYPE 
              2              95 
     TCGA-AF-2689      TCGA-AF-3400      TCGA-AF-3913      TCGA-AF-5654 
"GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" 
     TCGA-AF-6136      TCGA-AF-6655      TCGA-AF-6672      TCGA-AG-3574 
"GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" 
     TCGA-AG-3578      TCGA-AG-3580      TCGA-AG-3581      TCGA-AG-3582 
"GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" 
     TCGA-AG-3583      TCGA-AG-3584      TCGA-AG-3586      TCGA-AG-3587 
"GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" 
     TCGA-AG-3593      TCGA-AG-3594      TCGA-AG-3598      TCGA-AG-3599 
"GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" 
     TCGA-AG-3600      TCGA-AG-3601      TCGA-AG-3602      TCGA-AG-3605 
"GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" 
     TCGA-AG-3609      TCGA-AG-3612      TCGA-AG-3727      TCGA-AG-3731 
"GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" 
     TCGA-AG-3742      TCGA-AG-3878      TCGA-AG-3881      TCGA-AG-3882 
"GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" 
     TCGA-AG-3885      TCGA-AG-3893      TCGA-AG-3896      TCGA-AG-3898 
"GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" 
     TCGA-AG-3901      TCGA-AG-3902      TCGA-AG-4001      TCGA-AG-4005 
"GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" 
     TCGA-AG-4007      TCGA-AG-4008      TCGA-AG-4015      TCGA-AG-A002 
"GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" 
     TCGA-AG-A008      TCGA-AG-A00C      TCGA-AG-A00H      TCGA-AG-A00Y 
"GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" 
     TCGA-AG-A011      TCGA-AG-A014      TCGA-AG-A015      TCGA-AG-A016 
"GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" 
     TCGA-AG-A01W      TCGA-AG-A01Y      TCGA-AG-A020      TCGA-AG-A026 
"GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" 
     TCGA-AG-A02G      TCGA-AG-A02X      TCGA-AG-A036      TCGA-AH-6544 
"GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" 
     TCGA-AH-6547      TCGA-AH-6549      TCGA-AH-6643      TCGA-AH-6644 
"GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" 
     TCGA-CI-6621      TCGA-CL-5918      TCGA-DC-5337      TCGA-DC-5869 
"GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" 
     TCGA-DC-6155      TCGA-DC-6157      TCGA-DC-6158      TCGA-DC-6160 
"GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" 
     TCGA-DC-6681      TCGA-DC-6682      TCGA-DC-6683      TCGA-DT-5265 
"GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" 
     TCGA-DY-A0XA      TCGA-DY-A1DC      TCGA-DY-A1DD      TCGA-DY-A1DF 
"GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" 
     TCGA-DY-A1DG      TCGA-DY-A1H8      TCGA-EI-6506      TCGA-EI-6507 
"GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" 
     TCGA-EI-6508      TCGA-EI-6510      TCGA-F5-6464      TCGA-F5-6465 
"GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" 
     TCGA-F5-6571      TCGA-F5-6702      TCGA-F5-6811      TCGA-F5-6812 
"GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" 
     TCGA-F5-6813      TCGA-G5-6235      TCGA-G5-6641 
"GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GABRP MUTATED        0      1      1      1      1
  GABRP WILD-TYPE     16     12     21     12     56
D26V7, multiclass
        clus
vv       GABRP MUTATED GABRP WILD-TYPE
  CLUS_1             0              16
  CLUS_2             1              12
  CLUS_3             1              21
  CLUS_4             1              12
  CLUS_5             1              56
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  GABRP MUTATED        0      1      0      1      0      2      0
  GABRP WILD-TYPE     11     22      8     11     32     16     17
D26V8, multiclass
        clus
vv       GABRP MUTATED GABRP WILD-TYPE
  CLUS_1             0              11
  CLUS_2             1              22
  CLUS_3             0               8
  CLUS_4             1              11
  CLUS_5             0              32
  CLUS_6             2              16
  CLUS_7             0              17
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GABRP MUTATED        0      0      2      0      2
  GABRP WILD-TYPE     13     28     12      8     53
D26V9, multiclass
        clus
vv       GABRP MUTATED GABRP WILD-TYPE
  CLUS_1             0              13
  CLUS_2             0              28
  CLUS_3             2              12
  CLUS_4             0               8
  CLUS_5             2              53
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GABRP MUTATED        1      1      2
  GABRP WILD-TYPE     19     43     52
D26V10, multiclass
        clus
vv       GABRP MUTATED GABRP WILD-TYPE
  CLUS_1             1              19
  CLUS_2             1              43
  CLUS_3             2              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
  GABRP MUTATED        0      0      0      1
  GABRP WILD-TYPE      8      7     13      7
D26V11, multiclass
[1] "Remove cluster labels:" "GABRP MUTATED"         
clus
  GABRP MUTATED GABRP WILD-TYPE 
              1              35 
     TCGA-AF-2687      TCGA-AF-4110      TCGA-AF-6655      TCGA-AF-6672 
"GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" 
     TCGA-AG-3731      TCGA-AH-6544      TCGA-AH-6547      TCGA-AH-6549 
"GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" 
     TCGA-AH-6643      TCGA-CI-6619      TCGA-CI-6620      TCGA-CI-6621 
"GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" 
     TCGA-CI-6624      TCGA-CL-5918      TCGA-DC-5337      TCGA-DC-5869 
"GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" 
     TCGA-DC-6157      TCGA-DC-6158      TCGA-DC-6681      TCGA-DC-6682 
"GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" 
     TCGA-DC-6683      TCGA-DY-A1DC      TCGA-DY-A1DD      TCGA-DY-A1DG 
"GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" 
     TCGA-DY-A1H8      TCGA-EI-6506      TCGA-EI-6507      TCGA-F5-6464 
"GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" 
     TCGA-F5-6465      TCGA-F5-6571      TCGA-F5-6702      TCGA-F5-6811 
"GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" 
     TCGA-F5-6812      TCGA-G5-6235      TCGA-G5-6641 
"GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GABRP MUTATED        0      1      0      0      0
  GABRP WILD-TYPE      8      8     12      5      2
D26V12, multiclass
[1] "Remove cluster labels:" "GABRP MUTATED"         
clus
  GABRP MUTATED GABRP WILD-TYPE 
              1              35 
     TCGA-AF-2687      TCGA-AF-4110      TCGA-AF-6655      TCGA-AF-6672 
"GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" 
     TCGA-AG-3731      TCGA-AH-6544      TCGA-AH-6547      TCGA-AH-6549 
"GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" 
     TCGA-AH-6643      TCGA-CI-6619      TCGA-CI-6620      TCGA-CI-6621 
"GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" 
     TCGA-CI-6624      TCGA-CL-5918      TCGA-DC-5337      TCGA-DC-5869 
"GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" 
     TCGA-DC-6157      TCGA-DC-6158      TCGA-DC-6681      TCGA-DC-6682 
"GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" 
     TCGA-DC-6683      TCGA-DY-A1DC      TCGA-DY-A1DD      TCGA-DY-A1DG 
"GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" 
     TCGA-DY-A1H8      TCGA-EI-6506      TCGA-EI-6507      TCGA-F5-6464 
"GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" 
     TCGA-F5-6465      TCGA-F5-6571      TCGA-F5-6702      TCGA-F5-6811 
"GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" 
     TCGA-F5-6812      TCGA-G5-6235      TCGA-G5-6641 
"GABRP WILD-TYPE" "GABRP WILD-TYPE" "GABRP WILD-TYPE" 

Clustering(27) Variable = BRAF MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  BRAF MUTATED        1      1      0
  BRAF WILD-TYPE     24     20     19
D27V1, multiclass
[1] "Remove cluster labels:" "BRAF MUTATED"          
clus
  BRAF MUTATED BRAF WILD-TYPE 
             2             63 
    TCGA-AF-2689     TCGA-AF-2691     TCGA-AF-2692     TCGA-AF-3400 
"BRAF WILD-TYPE" "BRAF WILD-TYPE" "BRAF WILD-TYPE" "BRAF WILD-TYPE" 
    TCGA-AF-3913     TCGA-AG-3574     TCGA-AG-3575     TCGA-AG-3580 
"BRAF WILD-TYPE" "BRAF WILD-TYPE" "BRAF WILD-TYPE" "BRAF WILD-TYPE" 
    TCGA-AG-3581     TCGA-AG-3582     TCGA-AG-3583     TCGA-AG-3584 
"BRAF WILD-TYPE" "BRAF WILD-TYPE" "BRAF WILD-TYPE" "BRAF WILD-TYPE" 
    TCGA-AG-3586     TCGA-AG-3587     TCGA-AG-3593     TCGA-AG-3594 
"BRAF WILD-TYPE" "BRAF WILD-TYPE" "BRAF WILD-TYPE" "BRAF WILD-TYPE" 
    TCGA-AG-3598     TCGA-AG-3599     TCGA-AG-3600     TCGA-AG-3601 
"BRAF WILD-TYPE" "BRAF WILD-TYPE" "BRAF WILD-TYPE" "BRAF WILD-TYPE" 
    TCGA-AG-3602     TCGA-AG-3605     TCGA-AG-3608     TCGA-AG-3609 
"BRAF WILD-TYPE" "BRAF WILD-TYPE" "BRAF WILD-TYPE" "BRAF WILD-TYPE" 
    TCGA-AG-3611     TCGA-AG-3612     TCGA-AG-3726     TCGA-AG-3727 
"BRAF WILD-TYPE" "BRAF WILD-TYPE" "BRAF WILD-TYPE" "BRAF WILD-TYPE" 
    TCGA-AG-3878     TCGA-AG-3881     TCGA-AG-3882     TCGA-AG-3883 
"BRAF WILD-TYPE" "BRAF WILD-TYPE" "BRAF WILD-TYPE" "BRAF WILD-TYPE" 
    TCGA-AG-3887     TCGA-AG-3890     TCGA-AG-3892     TCGA-AG-3893 
"BRAF WILD-TYPE" "BRAF WILD-TYPE" "BRAF WILD-TYPE" "BRAF WILD-TYPE" 
    TCGA-AG-3894     TCGA-AG-3896     TCGA-AG-3898     TCGA-AG-3901 
"BRAF WILD-TYPE" "BRAF WILD-TYPE" "BRAF WILD-TYPE" "BRAF WILD-TYPE" 
    TCGA-AG-3902     TCGA-AG-3909     TCGA-AG-3999     TCGA-AG-4001 
"BRAF WILD-TYPE" "BRAF WILD-TYPE" "BRAF WILD-TYPE" "BRAF WILD-TYPE" 
    TCGA-AG-4005     TCGA-AG-4007     TCGA-AG-4008     TCGA-AG-4015 
"BRAF WILD-TYPE" "BRAF WILD-TYPE" "BRAF WILD-TYPE" "BRAF WILD-TYPE" 
    TCGA-AG-A002     TCGA-AG-A008     TCGA-AG-A00C     TCGA-AG-A00H 
"BRAF WILD-TYPE" "BRAF WILD-TYPE" "BRAF WILD-TYPE" "BRAF WILD-TYPE" 
    TCGA-AG-A00Y     TCGA-AG-A011     TCGA-AG-A014     TCGA-AG-A015 
"BRAF WILD-TYPE" "BRAF WILD-TYPE" "BRAF WILD-TYPE" "BRAF WILD-TYPE" 
    TCGA-AG-A016     TCGA-AG-A01L     TCGA-AG-A025     TCGA-AG-A026 
"BRAF WILD-TYPE" "BRAF WILD-TYPE" "BRAF WILD-TYPE" "BRAF WILD-TYPE" 
    TCGA-AG-A02G     TCGA-AG-A02X     TCGA-AG-A032 
"BRAF WILD-TYPE" "BRAF WILD-TYPE" "BRAF WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  BRAF MUTATED        0      1      0      0      1      0      0      0
  BRAF WILD-TYPE      6     12     12      9      5      9      8      2
D27V2, multiclass
[1] "Remove cluster labels:" "BRAF MUTATED"          
clus
  BRAF MUTATED BRAF WILD-TYPE 
             2             63 
    TCGA-AF-2689     TCGA-AF-2691     TCGA-AF-2692     TCGA-AF-3400 
"BRAF WILD-TYPE" "BRAF WILD-TYPE" "BRAF WILD-TYPE" "BRAF WILD-TYPE" 
    TCGA-AF-3913     TCGA-AG-3574     TCGA-AG-3575     TCGA-AG-3580 
"BRAF WILD-TYPE" "BRAF WILD-TYPE" "BRAF WILD-TYPE" "BRAF WILD-TYPE" 
    TCGA-AG-3581     TCGA-AG-3582     TCGA-AG-3583     TCGA-AG-3584 
"BRAF WILD-TYPE" "BRAF WILD-TYPE" "BRAF WILD-TYPE" "BRAF WILD-TYPE" 
    TCGA-AG-3586     TCGA-AG-3587     TCGA-AG-3593     TCGA-AG-3594 
"BRAF WILD-TYPE" "BRAF WILD-TYPE" "BRAF WILD-TYPE" "BRAF WILD-TYPE" 
    TCGA-AG-3598     TCGA-AG-3599     TCGA-AG-3600     TCGA-AG-3601 
"BRAF WILD-TYPE" "BRAF WILD-TYPE" "BRAF WILD-TYPE" "BRAF WILD-TYPE" 
    TCGA-AG-3602     TCGA-AG-3605     TCGA-AG-3608     TCGA-AG-3609 
"BRAF WILD-TYPE" "BRAF WILD-TYPE" "BRAF WILD-TYPE" "BRAF WILD-TYPE" 
    TCGA-AG-3611     TCGA-AG-3612     TCGA-AG-3726     TCGA-AG-3727 
"BRAF WILD-TYPE" "BRAF WILD-TYPE" "BRAF WILD-TYPE" "BRAF WILD-TYPE" 
    TCGA-AG-3878     TCGA-AG-3881     TCGA-AG-3882     TCGA-AG-3883 
"BRAF WILD-TYPE" "BRAF WILD-TYPE" "BRAF WILD-TYPE" "BRAF WILD-TYPE" 
    TCGA-AG-3887     TCGA-AG-3890     TCGA-AG-3892     TCGA-AG-3893 
"BRAF WILD-TYPE" "BRAF WILD-TYPE" "BRAF WILD-TYPE" "BRAF WILD-TYPE" 
    TCGA-AG-3894     TCGA-AG-3896     TCGA-AG-3898     TCGA-AG-3901 
"BRAF WILD-TYPE" "BRAF WILD-TYPE" "BRAF WILD-TYPE" "BRAF WILD-TYPE" 
    TCGA-AG-3902     TCGA-AG-3909     TCGA-AG-3999     TCGA-AG-4001 
"BRAF WILD-TYPE" "BRAF WILD-TYPE" "BRAF WILD-TYPE" "BRAF WILD-TYPE" 
    TCGA-AG-4005     TCGA-AG-4007     TCGA-AG-4008     TCGA-AG-4015 
"BRAF WILD-TYPE" "BRAF WILD-TYPE" "BRAF WILD-TYPE" "BRAF WILD-TYPE" 
    TCGA-AG-A002     TCGA-AG-A008     TCGA-AG-A00C     TCGA-AG-A00H 
"BRAF WILD-TYPE" "BRAF WILD-TYPE" "BRAF WILD-TYPE" "BRAF WILD-TYPE" 
    TCGA-AG-A00Y     TCGA-AG-A011     TCGA-AG-A014     TCGA-AG-A015 
"BRAF WILD-TYPE" "BRAF WILD-TYPE" "BRAF WILD-TYPE" "BRAF WILD-TYPE" 
    TCGA-AG-A016     TCGA-AG-A01L     TCGA-AG-A025     TCGA-AG-A026 
"BRAF WILD-TYPE" "BRAF WILD-TYPE" "BRAF WILD-TYPE" "BRAF WILD-TYPE" 
    TCGA-AG-A02G     TCGA-AG-A02X     TCGA-AG-A032 
"BRAF WILD-TYPE" "BRAF WILD-TYPE" "BRAF WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  BRAF MUTATED        5      1      2      4
  BRAF WILD-TYPE     46     19     17     26
D27V3, multiclass
        clus
vv       BRAF MUTATED BRAF WILD-TYPE
  CLUS_1            5             46
  CLUS_2            1             19
  CLUS_3            2             17
  CLUS_4            4             26
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        3      2      5
  BRAF WILD-TYPE     13     21     13
D27V4, multiclass
        clus
vv       BRAF MUTATED BRAF WILD-TYPE
  CLUS_1            3             13
  CLUS_2            2             21
  CLUS_3            5             13
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  BRAF MUTATED        5      2      5
  BRAF WILD-TYPE     23     27     35
D27V5, multiclass
        clus
vv       BRAF MUTATED BRAF WILD-TYPE
  CLUS_1            5             23
  CLUS_2            2             27
  CLUS_3            5             35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- 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        1      3      2      2      2      2
  BRAF WILD-TYPE     22     15     22      2     18      6
D27V6, multiclass
        clus
vv       BRAF MUTATED BRAF WILD-TYPE
  CLUS_1            1             22
  CLUS_2            3             15
  CLUS_3            2             22
  CLUS_4            2              2
  CLUS_5            2             18
  CLUS_6            2              6
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BRAF MUTATED        4      1      3      3      1
  BRAF WILD-TYPE     12     12     19     10     56
D27V7, multiclass
        clus
vv       BRAF MUTATED BRAF WILD-TYPE
  CLUS_1            4             12
  CLUS_2            1             12
  CLUS_3            3             19
  CLUS_4            3             10
  CLUS_5            1             56
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  BRAF MUTATED        2      4      2      2      1      1      0
  BRAF WILD-TYPE      9     19      6     10     31     17     17
D27V8, multiclass
        clus
vv       BRAF MUTATED BRAF WILD-TYPE
  CLUS_1            2              9
  CLUS_2            4             19
  CLUS_3            2              6
  CLUS_4            2             10
  CLUS_5            1             31
  CLUS_6            1             17
  CLUS_7            0             17
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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        3      5      2      0      2
  BRAF WILD-TYPE     10     23     12      8     53
D27V9, multiclass
        clus
vv       BRAF MUTATED BRAF WILD-TYPE
  CLUS_1            3             10
  CLUS_2            5             23
  CLUS_3            2             12
  CLUS_4            0              8
  CLUS_5            2             53
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  BRAF MUTATED        4      7      1
  BRAF WILD-TYPE     16     37     53
D27V10, multiclass
        clus
vv       BRAF MUTATED BRAF WILD-TYPE
  CLUS_1            4             16
  CLUS_2            7             37
  CLUS_3            1             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
  BRAF MUTATED        2      1      1      1
  BRAF WILD-TYPE      6      6     12      7
D27V11, multiclass
        clus
vv       BRAF MUTATED BRAF WILD-TYPE
  CLUS_1            2              6
  CLUS_2            1              6
  CLUS_3            1             12
  CLUS_4            1              7
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BRAF MUTATED        0      3      0      1      1
  BRAF WILD-TYPE      8      6     12      4      1
D27V12, multiclass
        clus
vv       BRAF MUTATED BRAF WILD-TYPE
  CLUS_1            0              8
  CLUS_2            3              6
  CLUS_3            0             12
  CLUS_4            1              4
  CLUS_5            1              1
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(28) Variable = PIK3CA MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PIK3CA MUTATED        2      1      2
  PIK3CA WILD-TYPE     23     20     17
D28V1, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1              2               23
  CLUS_2              1               20
  CLUS_3              2               17
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PIK3CA MUTATED        0      2      1      1      0      1      0      0
  PIK3CA WILD-TYPE      6     11     11      8      6      8      8      2
D28V2, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1              0                6
  CLUS_2              2               11
  CLUS_3              1               11
  CLUS_4              1                8
  CLUS_5              0                6
  CLUS_6              1                8
  CLUS_7              0                8
  CLUS_8              0                2
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PIK3CA MUTATED       13      4      9     11
  PIK3CA WILD-TYPE     38     16     10     19
D28V3, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1             13               38
  CLUS_2              4               16
  CLUS_3              9               10
  CLUS_4             11               19
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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     11
  PIK3CA WILD-TYPE      7     11      7
D28V4, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1              9                7
  CLUS_2             12               11
  CLUS_3             11                7
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PIK3CA MUTATED        7     13     10
  PIK3CA WILD-TYPE     21     16     30
D28V5, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1              7               21
  CLUS_2             13               16
  CLUS_3             10               30
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PIK3CA MUTATED        3      5      8      0      9      5
  PIK3CA WILD-TYPE     20     13     16      4     11      3
D28V6, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1              3               20
  CLUS_2              5               13
  CLUS_3              8               16
  CLUS_4              0                4
  CLUS_5              9               11
  CLUS_6              5                3
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PIK3CA MUTATED        9      5      9     10      4
  PIK3CA WILD-TYPE      7      8     13      3     53
D28V7, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1              9                7
  CLUS_2              5                8
  CLUS_3              9               13
  CLUS_4             10                3
  CLUS_5              4               53
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  PIK3CA MUTATED        8     10      5      7      2      4      1
  PIK3CA WILD-TYPE      3     13      3      5     30     14     16
D28V8, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1              8                3
  CLUS_2             10               13
  CLUS_3              5                3
  CLUS_4              7                5
  CLUS_5              2               30
  CLUS_6              4               14
  CLUS_7              1               16
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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        6     19      5      1      5
  PIK3CA WILD-TYPE      7      9      9      7     50
D28V9, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1              6                7
  CLUS_2             19                9
  CLUS_3              5                9
  CLUS_4              1                7
  CLUS_5              5               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
  PIK3CA MUTATED        7     25      4
  PIK3CA WILD-TYPE     13     19     50
D28V10, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1              7               13
  CLUS_2             25               19
  CLUS_3              4               50
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PIK3CA MUTATED        6      1      7      5
  PIK3CA WILD-TYPE      2      6      6      3
D28V11, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1              6                2
  CLUS_2              1                6
  CLUS_3              7                6
  CLUS_4              5                3
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PIK3CA MUTATED        5      2      7      4      1
  PIK3CA WILD-TYPE      3      7      5      1      1
D28V12, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1              5                3
  CLUS_2              2                7
  CLUS_3              7                5
  CLUS_4              4                1
  CLUS_5              1                1
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(29) Variable = CEP290 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CEP290 MUTATED        0      0      1
  CEP290 WILD-TYPE     25     21     18
D29V1, multiclass
[1] "Remove cluster labels:" "CEP290 MUTATED"        
clus
  CEP290 MUTATED CEP290 WILD-TYPE 
               1               64 
      TCGA-AF-2689       TCGA-AF-2691       TCGA-AF-2692       TCGA-AF-3400 
"CEP290 WILD-TYPE" "CEP290 WILD-TYPE" "CEP290 WILD-TYPE" "CEP290 WILD-TYPE" 
      TCGA-AF-3913       TCGA-AG-3574       TCGA-AG-3575       TCGA-AG-3578 
"CEP290 WILD-TYPE" "CEP290 WILD-TYPE" "CEP290 WILD-TYPE" "CEP290 WILD-TYPE" 
      TCGA-AG-3580       TCGA-AG-3581       TCGA-AG-3582       TCGA-AG-3583 
"CEP290 WILD-TYPE" "CEP290 WILD-TYPE" "CEP290 WILD-TYPE" "CEP290 WILD-TYPE" 
      TCGA-AG-3584       TCGA-AG-3586       TCGA-AG-3587       TCGA-AG-3593 
"CEP290 WILD-TYPE" "CEP290 WILD-TYPE" "CEP290 WILD-TYPE" "CEP290 WILD-TYPE" 
      TCGA-AG-3594       TCGA-AG-3598       TCGA-AG-3599       TCGA-AG-3600 
"CEP290 WILD-TYPE" "CEP290 WILD-TYPE" "CEP290 WILD-TYPE" "CEP290 WILD-TYPE" 
      TCGA-AG-3601       TCGA-AG-3602       TCGA-AG-3605       TCGA-AG-3608 
"CEP290 WILD-TYPE" "CEP290 WILD-TYPE" "CEP290 WILD-TYPE" "CEP290 WILD-TYPE" 
      TCGA-AG-3609       TCGA-AG-3611       TCGA-AG-3612       TCGA-AG-3726 
"CEP290 WILD-TYPE" "CEP290 WILD-TYPE" "CEP290 WILD-TYPE" "CEP290 WILD-TYPE" 
      TCGA-AG-3727       TCGA-AG-3878       TCGA-AG-3881       TCGA-AG-3882 
"CEP290 WILD-TYPE" "CEP290 WILD-TYPE" "CEP290 WILD-TYPE" "CEP290 WILD-TYPE" 
      TCGA-AG-3883       TCGA-AG-3885       TCGA-AG-3887       TCGA-AG-3890 
"CEP290 WILD-TYPE" "CEP290 WILD-TYPE" "CEP290 WILD-TYPE" "CEP290 WILD-TYPE" 
      TCGA-AG-3892       TCGA-AG-3893       TCGA-AG-3894       TCGA-AG-3896 
"CEP290 WILD-TYPE" "CEP290 WILD-TYPE" "CEP290 WILD-TYPE" "CEP290 WILD-TYPE" 
      TCGA-AG-3901       TCGA-AG-3902       TCGA-AG-3909       TCGA-AG-3999 
"CEP290 WILD-TYPE" "CEP290 WILD-TYPE" "CEP290 WILD-TYPE" "CEP290 WILD-TYPE" 
      TCGA-AG-4001       TCGA-AG-4005       TCGA-AG-4007       TCGA-AG-4008 
"CEP290 WILD-TYPE" "CEP290 WILD-TYPE" "CEP290 WILD-TYPE" "CEP290 WILD-TYPE" 
      TCGA-AG-4015       TCGA-AG-A002       TCGA-AG-A008       TCGA-AG-A00C 
"CEP290 WILD-TYPE" "CEP290 WILD-TYPE" "CEP290 WILD-TYPE" "CEP290 WILD-TYPE" 
      TCGA-AG-A00H       TCGA-AG-A00Y       TCGA-AG-A011       TCGA-AG-A014 
"CEP290 WILD-TYPE" "CEP290 WILD-TYPE" "CEP290 WILD-TYPE" "CEP290 WILD-TYPE" 
      TCGA-AG-A015       TCGA-AG-A016       TCGA-AG-A01L       TCGA-AG-A025 
"CEP290 WILD-TYPE" "CEP290 WILD-TYPE" "CEP290 WILD-TYPE" "CEP290 WILD-TYPE" 
      TCGA-AG-A026       TCGA-AG-A02G       TCGA-AG-A02X       TCGA-AG-A032 
"CEP290 WILD-TYPE" "CEP290 WILD-TYPE" "CEP290 WILD-TYPE" "CEP290 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  CEP290 MUTATED        0      0      0      1      0      0      0      0
  CEP290 WILD-TYPE      6     13     12      8      6      9      8      2
D29V2, multiclass
[1] "Remove cluster labels:" "CEP290 MUTATED"        
clus
  CEP290 MUTATED CEP290 WILD-TYPE 
               1               64 
      TCGA-AF-2689       TCGA-AF-2691       TCGA-AF-2692       TCGA-AF-3400 
"CEP290 WILD-TYPE" "CEP290 WILD-TYPE" "CEP290 WILD-TYPE" "CEP290 WILD-TYPE" 
      TCGA-AF-3913       TCGA-AG-3574       TCGA-AG-3575       TCGA-AG-3578 
"CEP290 WILD-TYPE" "CEP290 WILD-TYPE" "CEP290 WILD-TYPE" "CEP290 WILD-TYPE" 
      TCGA-AG-3580       TCGA-AG-3581       TCGA-AG-3582       TCGA-AG-3583 
"CEP290 WILD-TYPE" "CEP290 WILD-TYPE" "CEP290 WILD-TYPE" "CEP290 WILD-TYPE" 
      TCGA-AG-3584       TCGA-AG-3586       TCGA-AG-3587       TCGA-AG-3593 
"CEP290 WILD-TYPE" "CEP290 WILD-TYPE" "CEP290 WILD-TYPE" "CEP290 WILD-TYPE" 
      TCGA-AG-3594       TCGA-AG-3598       TCGA-AG-3599       TCGA-AG-3600 
"CEP290 WILD-TYPE" "CEP290 WILD-TYPE" "CEP290 WILD-TYPE" "CEP290 WILD-TYPE" 
      TCGA-AG-3601       TCGA-AG-3602       TCGA-AG-3605       TCGA-AG-3608 
"CEP290 WILD-TYPE" "CEP290 WILD-TYPE" "CEP290 WILD-TYPE" "CEP290 WILD-TYPE" 
      TCGA-AG-3609       TCGA-AG-3611       TCGA-AG-3612       TCGA-AG-3726 
"CEP290 WILD-TYPE" "CEP290 WILD-TYPE" "CEP290 WILD-TYPE" "CEP290 WILD-TYPE" 
      TCGA-AG-3727       TCGA-AG-3878       TCGA-AG-3881       TCGA-AG-3882 
"CEP290 WILD-TYPE" "CEP290 WILD-TYPE" "CEP290 WILD-TYPE" "CEP290 WILD-TYPE" 
      TCGA-AG-3883       TCGA-AG-3885       TCGA-AG-3887       TCGA-AG-3890 
"CEP290 WILD-TYPE" "CEP290 WILD-TYPE" "CEP290 WILD-TYPE" "CEP290 WILD-TYPE" 
      TCGA-AG-3892       TCGA-AG-3893       TCGA-AG-3894       TCGA-AG-3896 
"CEP290 WILD-TYPE" "CEP290 WILD-TYPE" "CEP290 WILD-TYPE" "CEP290 WILD-TYPE" 
      TCGA-AG-3901       TCGA-AG-3902       TCGA-AG-3909       TCGA-AG-3999 
"CEP290 WILD-TYPE" "CEP290 WILD-TYPE" "CEP290 WILD-TYPE" "CEP290 WILD-TYPE" 
      TCGA-AG-4001       TCGA-AG-4005       TCGA-AG-4007       TCGA-AG-4008 
"CEP290 WILD-TYPE" "CEP290 WILD-TYPE" "CEP290 WILD-TYPE" "CEP290 WILD-TYPE" 
      TCGA-AG-4015       TCGA-AG-A002       TCGA-AG-A008       TCGA-AG-A00C 
"CEP290 WILD-TYPE" "CEP290 WILD-TYPE" "CEP290 WILD-TYPE" "CEP290 WILD-TYPE" 
      TCGA-AG-A00H       TCGA-AG-A00Y       TCGA-AG-A011       TCGA-AG-A014 
"CEP290 WILD-TYPE" "CEP290 WILD-TYPE" "CEP290 WILD-TYPE" "CEP290 WILD-TYPE" 
      TCGA-AG-A015       TCGA-AG-A016       TCGA-AG-A01L       TCGA-AG-A025 
"CEP290 WILD-TYPE" "CEP290 WILD-TYPE" "CEP290 WILD-TYPE" "CEP290 WILD-TYPE" 
      TCGA-AG-A026       TCGA-AG-A02G       TCGA-AG-A02X       TCGA-AG-A032 
"CEP290 WILD-TYPE" "CEP290 WILD-TYPE" "CEP290 WILD-TYPE" "CEP290 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CEP290 MUTATED        2      0      1      2
  CEP290 WILD-TYPE     49     20     18     28
D29V3, multiclass
        clus
vv       CEP290 MUTATED CEP290 WILD-TYPE
  CLUS_1              2               49
  CLUS_2              0               20
  CLUS_3              1               18
  CLUS_4              2               28
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CEP290 MUTATED        4      1      0
  CEP290 WILD-TYPE     12     22     18
D29V4, multiclass
        clus
vv       CEP290 MUTATED CEP290 WILD-TYPE
  CLUS_1              4               12
  CLUS_2              1               22
  CLUS_3              0               18
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CEP290 MUTATED        0      2      3
  CEP290 WILD-TYPE     28     27     37
D29V5, multiclass
        clus
vv       CEP290 MUTATED CEP290 WILD-TYPE
  CLUS_1              0               28
  CLUS_2              2               27
  CLUS_3              3               37
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CEP290 MUTATED        0      1      2      0      1      1
  CEP290 WILD-TYPE     23     17     22      4     19      7
D29V6, multiclass
        clus
vv       CEP290 MUTATED CEP290 WILD-TYPE
  CLUS_1              0               23
  CLUS_2              1               17
  CLUS_3              2               22
  CLUS_4              0                4
  CLUS_5              1               19
  CLUS_6              1                7
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CEP290 MUTATED        1      0      3      1      1
  CEP290 WILD-TYPE     15     13     19     12     56
D29V7, multiclass
        clus
vv       CEP290 MUTATED CEP290 WILD-TYPE
  CLUS_1              1               15
  CLUS_2              0               13
  CLUS_3              3               19
  CLUS_4              1               12
  CLUS_5              1               56
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  CEP290 MUTATED        1      2      1      1      1      0      0
  CEP290 WILD-TYPE     10     21      7     11     31     18     17
D29V8, multiclass
        clus
vv       CEP290 MUTATED CEP290 WILD-TYPE
  CLUS_1              1               10
  CLUS_2              2               21
  CLUS_3              1                7
  CLUS_4              1               11
  CLUS_5              1               31
  CLUS_6              0               18
  CLUS_7              0               17
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CEP290 MUTATED        0      3      1      1      1
  CEP290 WILD-TYPE     13     25     13      7     54
D29V9, multiclass
        clus
vv       CEP290 MUTATED CEP290 WILD-TYPE
  CLUS_1              0               13
  CLUS_2              3               25
  CLUS_3              1               13
  CLUS_4              1                7
  CLUS_5              1               54
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CEP290 MUTATED        3      2      1
  CEP290 WILD-TYPE     17     42     53
D29V10, multiclass
        clus
vv       CEP290 MUTATED CEP290 WILD-TYPE
  CLUS_1              3               17
  CLUS_2              2               42
  CLUS_3              1               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
  CEP290 MUTATED        0      0      4      0
  CEP290 WILD-TYPE      8      7      9      8
D29V11, multiclass
        clus
vv       CEP290 MUTATED CEP290 WILD-TYPE
  CLUS_1              0                8
  CLUS_2              0                7
  CLUS_3              4                9
  CLUS_4              0                8
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CEP290 MUTATED        2      0      2      0      0
  CEP290 WILD-TYPE      6      9     10      5      2
D29V12, multiclass
        clus
vv       CEP290 MUTATED CEP290 WILD-TYPE
  CLUS_1              2                6
  CLUS_2              0                9
  CLUS_3              2               10
  CLUS_4              0                5
  CLUS_5              0                2
[1] 5 2
[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 = LIG1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  LIG1 MUTATED        0      0      0
  LIG1 WILD-TYPE     25     21     19
D30V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  LIG1 MUTATED        0      0      0      0      0      0      0      0
  LIG1 WILD-TYPE      6     13     12      9      6      9      8      2
D30V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  LIG1 MUTATED        3      0      0      1
  LIG1 WILD-TYPE     48     20     19     29
D30V3, multiclass
        clus
vv       LIG1 MUTATED LIG1 WILD-TYPE
  CLUS_1            3             48
  CLUS_2            0             20
  CLUS_3            0             19
  CLUS_4            1             29
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  LIG1 MUTATED        0      3      1
  LIG1 WILD-TYPE     16     20     17
D30V4, multiclass
        clus
vv       LIG1 MUTATED LIG1 WILD-TYPE
  CLUS_1            0             16
  CLUS_2            3             20
  CLUS_3            1             17
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  LIG1 MUTATED        0      1      2
  LIG1 WILD-TYPE     28     28     38
D30V5, multiclass
        clus
vv       LIG1 MUTATED LIG1 WILD-TYPE
  CLUS_1            0             28
  CLUS_2            1             28
  CLUS_3            2             38
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  LIG1 MUTATED        0      0      1      0      1      1
  LIG1 WILD-TYPE     23     18     23      4     19      7
D30V6, multiclass
        clus
vv       LIG1 MUTATED LIG1 WILD-TYPE
  CLUS_1            0             23
  CLUS_2            0             18
  CLUS_3            1             23
  CLUS_4            0              4
  CLUS_5            1             19
  CLUS_6            1              7
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LIG1 MUTATED        0      1      3      0      0
  LIG1 WILD-TYPE     16     12     19     13     57
D30V7, multiclass
        clus
vv       LIG1 MUTATED LIG1 WILD-TYPE
  CLUS_1            0             16
  CLUS_2            1             12
  CLUS_3            3             19
  CLUS_4            0             13
  CLUS_5            0             57
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  LIG1 MUTATED        0      2      1      1      0      0      0
  LIG1 WILD-TYPE     11     21      7     11     32     18     17
D30V8, multiclass
        clus
vv       LIG1 MUTATED LIG1 WILD-TYPE
  CLUS_1            0             11
  CLUS_2            2             21
  CLUS_3            1              7
  CLUS_4            1             11
  CLUS_5            0             32
  CLUS_6            0             18
  CLUS_7            0             17
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LIG1 MUTATED        0      2      1      1      0
  LIG1 WILD-TYPE     13     26     13      7     55
D30V9, multiclass
        clus
vv       LIG1 MUTATED LIG1 WILD-TYPE
  CLUS_1            0             13
  CLUS_2            2             26
  CLUS_3            1             13
  CLUS_4            1              7
  CLUS_5            0             55
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  LIG1 MUTATED        0      4      0
  LIG1 WILD-TYPE     20     40     54
D30V10, multiclass
        clus
vv       LIG1 MUTATED LIG1 WILD-TYPE
  CLUS_1            0             20
  CLUS_2            4             40
  CLUS_3            0             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
  LIG1 MUTATED        0      0      0      2
  LIG1 WILD-TYPE      8      7     13      6
D30V11, multiclass
[1] "Remove cluster labels:" "LIG1 MUTATED"          
clus
  LIG1 MUTATED LIG1 WILD-TYPE 
             2             34 
    TCGA-AF-2687     TCGA-AF-4110     TCGA-AF-6655     TCGA-AF-6672 
"LIG1 WILD-TYPE" "LIG1 WILD-TYPE" "LIG1 WILD-TYPE" "LIG1 WILD-TYPE" 
    TCGA-AG-3731     TCGA-AH-6544     TCGA-AH-6547     TCGA-AH-6549 
"LIG1 WILD-TYPE" "LIG1 WILD-TYPE" "LIG1 WILD-TYPE" "LIG1 WILD-TYPE" 
    TCGA-AH-6643     TCGA-CI-6619     TCGA-CI-6620     TCGA-CI-6621 
"LIG1 WILD-TYPE" "LIG1 WILD-TYPE" "LIG1 WILD-TYPE" "LIG1 WILD-TYPE" 
    TCGA-CI-6624     TCGA-CL-5918     TCGA-DC-5337     TCGA-DC-5869 
"LIG1 WILD-TYPE" "LIG1 WILD-TYPE" "LIG1 WILD-TYPE" "LIG1 WILD-TYPE" 
    TCGA-DC-6157     TCGA-DC-6158     TCGA-DC-6681     TCGA-DC-6682 
"LIG1 WILD-TYPE" "LIG1 WILD-TYPE" "LIG1 WILD-TYPE" "LIG1 WILD-TYPE" 
    TCGA-DC-6683     TCGA-DY-A1DC     TCGA-DY-A1DD     TCGA-DY-A1DG 
"LIG1 WILD-TYPE" "LIG1 WILD-TYPE" "LIG1 WILD-TYPE" "LIG1 WILD-TYPE" 
    TCGA-DY-A1H8     TCGA-EI-6506     TCGA-F5-6464     TCGA-F5-6465 
"LIG1 WILD-TYPE" "LIG1 WILD-TYPE" "LIG1 WILD-TYPE" "LIG1 WILD-TYPE" 
    TCGA-F5-6571     TCGA-F5-6702     TCGA-F5-6811     TCGA-F5-6812 
"LIG1 WILD-TYPE" "LIG1 WILD-TYPE" "LIG1 WILD-TYPE" "LIG1 WILD-TYPE" 
    TCGA-G5-6235     TCGA-G5-6641 
"LIG1 WILD-TYPE" "LIG1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  LIG1 MUTATED        0      1      1      0      0
  LIG1 WILD-TYPE      8      8     11      5      2
D30V12, multiclass
[1] "Remove cluster labels:" "LIG1 MUTATED"          
clus
  LIG1 MUTATED LIG1 WILD-TYPE 
             2             34 
    TCGA-AF-2687     TCGA-AF-4110     TCGA-AF-6655     TCGA-AF-6672 
"LIG1 WILD-TYPE" "LIG1 WILD-TYPE" "LIG1 WILD-TYPE" "LIG1 WILD-TYPE" 
    TCGA-AG-3731     TCGA-AH-6544     TCGA-AH-6547     TCGA-AH-6549 
"LIG1 WILD-TYPE" "LIG1 WILD-TYPE" "LIG1 WILD-TYPE" "LIG1 WILD-TYPE" 
    TCGA-AH-6643     TCGA-CI-6619     TCGA-CI-6620     TCGA-CI-6621 
"LIG1 WILD-TYPE" "LIG1 WILD-TYPE" "LIG1 WILD-TYPE" "LIG1 WILD-TYPE" 
    TCGA-CI-6624     TCGA-CL-5918     TCGA-DC-5337     TCGA-DC-5869 
"LIG1 WILD-TYPE" "LIG1 WILD-TYPE" "LIG1 WILD-TYPE" "LIG1 WILD-TYPE" 
    TCGA-DC-6157     TCGA-DC-6158     TCGA-DC-6681     TCGA-DC-6682 
"LIG1 WILD-TYPE" "LIG1 WILD-TYPE" "LIG1 WILD-TYPE" "LIG1 WILD-TYPE" 
    TCGA-DC-6683     TCGA-DY-A1DC     TCGA-DY-A1DD     TCGA-DY-A1DG 
"LIG1 WILD-TYPE" "LIG1 WILD-TYPE" "LIG1 WILD-TYPE" "LIG1 WILD-TYPE" 
    TCGA-DY-A1H8     TCGA-EI-6506     TCGA-F5-6464     TCGA-F5-6465 
"LIG1 WILD-TYPE" "LIG1 WILD-TYPE" "LIG1 WILD-TYPE" "LIG1 WILD-TYPE" 
    TCGA-F5-6571     TCGA-F5-6702     TCGA-F5-6811     TCGA-F5-6812 
"LIG1 WILD-TYPE" "LIG1 WILD-TYPE" "LIG1 WILD-TYPE" "LIG1 WILD-TYPE" 
    TCGA-G5-6235     TCGA-G5-6641 
"LIG1 WILD-TYPE" "LIG1 WILD-TYPE" 

Clustering(31) Variable = PCBP1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PCBP1 MUTATED        1      0      0
  PCBP1 WILD-TYPE     24     21     19
D31V1, multiclass
[1] "Remove cluster labels:" "PCBP1 MUTATED"         
clus
  PCBP1 MUTATED PCBP1 WILD-TYPE 
              1              64 
     TCGA-AF-2689      TCGA-AF-2691      TCGA-AF-2692      TCGA-AF-3400 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AF-3913      TCGA-AG-3574      TCGA-AG-3575      TCGA-AG-3578 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AG-3580      TCGA-AG-3581      TCGA-AG-3582      TCGA-AG-3583 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AG-3584      TCGA-AG-3586      TCGA-AG-3587      TCGA-AG-3593 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AG-3594      TCGA-AG-3598      TCGA-AG-3599      TCGA-AG-3600 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AG-3601      TCGA-AG-3602      TCGA-AG-3605      TCGA-AG-3608 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AG-3609      TCGA-AG-3611      TCGA-AG-3612      TCGA-AG-3726 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AG-3727      TCGA-AG-3878      TCGA-AG-3881      TCGA-AG-3882 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AG-3883      TCGA-AG-3885      TCGA-AG-3887      TCGA-AG-3890 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AG-3892      TCGA-AG-3893      TCGA-AG-3896      TCGA-AG-3898 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AG-3901      TCGA-AG-3902      TCGA-AG-3909      TCGA-AG-3999 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AG-4001      TCGA-AG-4005      TCGA-AG-4007      TCGA-AG-4008 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AG-4015      TCGA-AG-A002      TCGA-AG-A008      TCGA-AG-A00C 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AG-A00H      TCGA-AG-A00Y      TCGA-AG-A011      TCGA-AG-A014 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AG-A015      TCGA-AG-A016      TCGA-AG-A01L      TCGA-AG-A025 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AG-A026      TCGA-AG-A02G      TCGA-AG-A02X      TCGA-AG-A032 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  PCBP1 MUTATED        1      0      0      0      0      0      0      0
  PCBP1 WILD-TYPE      5     13     12      9      6      9      8      2
D31V2, multiclass
[1] "Remove cluster labels:" "PCBP1 MUTATED"         
clus
  PCBP1 MUTATED PCBP1 WILD-TYPE 
              1              64 
     TCGA-AF-2689      TCGA-AF-2691      TCGA-AF-2692      TCGA-AF-3400 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AF-3913      TCGA-AG-3574      TCGA-AG-3575      TCGA-AG-3578 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AG-3580      TCGA-AG-3581      TCGA-AG-3582      TCGA-AG-3583 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AG-3584      TCGA-AG-3586      TCGA-AG-3587      TCGA-AG-3593 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AG-3594      TCGA-AG-3598      TCGA-AG-3599      TCGA-AG-3600 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AG-3601      TCGA-AG-3602      TCGA-AG-3605      TCGA-AG-3608 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AG-3609      TCGA-AG-3611      TCGA-AG-3612      TCGA-AG-3726 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AG-3727      TCGA-AG-3878      TCGA-AG-3881      TCGA-AG-3882 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AG-3883      TCGA-AG-3885      TCGA-AG-3887      TCGA-AG-3890 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AG-3892      TCGA-AG-3893      TCGA-AG-3896      TCGA-AG-3898 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AG-3901      TCGA-AG-3902      TCGA-AG-3909      TCGA-AG-3999 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AG-4001      TCGA-AG-4005      TCGA-AG-4007      TCGA-AG-4008 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AG-4015      TCGA-AG-A002      TCGA-AG-A008      TCGA-AG-A00C 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AG-A00H      TCGA-AG-A00Y      TCGA-AG-A011      TCGA-AG-A014 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AG-A015      TCGA-AG-A016      TCGA-AG-A01L      TCGA-AG-A025 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AG-A026      TCGA-AG-A02G      TCGA-AG-A02X      TCGA-AG-A032 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PCBP1 MUTATED        3      0      0      1
  PCBP1 WILD-TYPE     48     20     19     29
D31V3, multiclass
        clus
vv       PCBP1 MUTATED PCBP1 WILD-TYPE
  CLUS_1             3              48
  CLUS_2             0              20
  CLUS_3             0              19
  CLUS_4             1              29
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PCBP1 MUTATED        1      2      0
  PCBP1 WILD-TYPE     15     21     18
D31V4, multiclass
        clus
vv       PCBP1 MUTATED PCBP1 WILD-TYPE
  CLUS_1             1              15
  CLUS_2             2              21
  CLUS_3             0              18
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PCBP1 MUTATED        0      1      1
  PCBP1 WILD-TYPE     28     28     39
D31V5, multiclass
[1] "Remove cluster labels:" "PCBP1 MUTATED"         
clus
  PCBP1 MUTATED PCBP1 WILD-TYPE 
              2              95 
     TCGA-AF-2689      TCGA-AF-3400      TCGA-AF-3913      TCGA-AF-5654 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AF-6136      TCGA-AF-6655      TCGA-AF-6672      TCGA-AG-3574 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AG-3578      TCGA-AG-3580      TCGA-AG-3581      TCGA-AG-3582 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AG-3583      TCGA-AG-3584      TCGA-AG-3586      TCGA-AG-3587 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AG-3593      TCGA-AG-3594      TCGA-AG-3598      TCGA-AG-3599 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AG-3600      TCGA-AG-3601      TCGA-AG-3602      TCGA-AG-3605 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AG-3609      TCGA-AG-3612      TCGA-AG-3727      TCGA-AG-3731 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AG-3742      TCGA-AG-3878      TCGA-AG-3881      TCGA-AG-3882 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AG-3885      TCGA-AG-3893      TCGA-AG-3896      TCGA-AG-3898 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AG-3901      TCGA-AG-3902      TCGA-AG-4001      TCGA-AG-4005 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AG-4007      TCGA-AG-4008      TCGA-AG-4015      TCGA-AG-A002 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AG-A008      TCGA-AG-A00C      TCGA-AG-A00H      TCGA-AG-A00Y 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AG-A011      TCGA-AG-A014      TCGA-AG-A015      TCGA-AG-A016 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AG-A01W      TCGA-AG-A01Y      TCGA-AG-A020      TCGA-AG-A026 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AG-A02G      TCGA-AG-A02N      TCGA-AG-A02X      TCGA-AG-A036 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AH-6547      TCGA-AH-6549      TCGA-AH-6643      TCGA-AH-6644 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-CI-6621      TCGA-CL-5918      TCGA-DC-5337      TCGA-DC-5869 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-DC-6155      TCGA-DC-6157      TCGA-DC-6158      TCGA-DC-6160 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-DC-6681      TCGA-DC-6682      TCGA-DC-6683      TCGA-DT-5265 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-DY-A0XA      TCGA-DY-A1DC      TCGA-DY-A1DD      TCGA-DY-A1DF 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-DY-A1DG      TCGA-DY-A1H8      TCGA-EF-5830      TCGA-EI-6506 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-EI-6507      TCGA-EI-6508      TCGA-EI-6510      TCGA-F5-6464 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-F5-6571      TCGA-F5-6702      TCGA-F5-6811      TCGA-F5-6812 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-F5-6813      TCGA-G5-6235      TCGA-G5-6641 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PCBP1 MUTATED        0      0      1      0      1      0
  PCBP1 WILD-TYPE     23     18     23      4     19      8
D31V6, multiclass
[1] "Remove cluster labels:" "PCBP1 MUTATED"         
clus
  PCBP1 MUTATED PCBP1 WILD-TYPE 
              2              95 
     TCGA-AF-2689      TCGA-AF-3400      TCGA-AF-3913      TCGA-AF-5654 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AF-6136      TCGA-AF-6655      TCGA-AF-6672      TCGA-AG-3574 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AG-3578      TCGA-AG-3580      TCGA-AG-3581      TCGA-AG-3582 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AG-3583      TCGA-AG-3584      TCGA-AG-3586      TCGA-AG-3587 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AG-3593      TCGA-AG-3594      TCGA-AG-3598      TCGA-AG-3599 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AG-3600      TCGA-AG-3601      TCGA-AG-3602      TCGA-AG-3605 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AG-3609      TCGA-AG-3612      TCGA-AG-3727      TCGA-AG-3731 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AG-3742      TCGA-AG-3878      TCGA-AG-3881      TCGA-AG-3882 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AG-3885      TCGA-AG-3893      TCGA-AG-3896      TCGA-AG-3898 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AG-3901      TCGA-AG-3902      TCGA-AG-4001      TCGA-AG-4005 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AG-4007      TCGA-AG-4008      TCGA-AG-4015      TCGA-AG-A002 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AG-A008      TCGA-AG-A00C      TCGA-AG-A00H      TCGA-AG-A00Y 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AG-A011      TCGA-AG-A014      TCGA-AG-A015      TCGA-AG-A016 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AG-A01W      TCGA-AG-A01Y      TCGA-AG-A020      TCGA-AG-A026 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AG-A02G      TCGA-AG-A02N      TCGA-AG-A02X      TCGA-AG-A036 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AH-6547      TCGA-AH-6549      TCGA-AH-6643      TCGA-AH-6644 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-CI-6621      TCGA-CL-5918      TCGA-DC-5337      TCGA-DC-5869 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-DC-6155      TCGA-DC-6157      TCGA-DC-6158      TCGA-DC-6160 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-DC-6681      TCGA-DC-6682      TCGA-DC-6683      TCGA-DT-5265 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-DY-A0XA      TCGA-DY-A1DC      TCGA-DY-A1DD      TCGA-DY-A1DF 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-DY-A1DG      TCGA-DY-A1H8      TCGA-EF-5830      TCGA-EI-6506 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-EI-6507      TCGA-EI-6508      TCGA-EI-6510      TCGA-F5-6464 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-F5-6571      TCGA-F5-6702      TCGA-F5-6811      TCGA-F5-6812 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-F5-6813      TCGA-G5-6235      TCGA-G5-6641 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PCBP1 MUTATED        1      1      1      0      1
  PCBP1 WILD-TYPE     15     12     21     13     56
D31V7, multiclass
        clus
vv       PCBP1 MUTATED PCBP1 WILD-TYPE
  CLUS_1             1              15
  CLUS_2             1              12
  CLUS_3             1              21
  CLUS_4             0              13
  CLUS_5             1              56
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  PCBP1 MUTATED        0      3      0      0      1      0      0
  PCBP1 WILD-TYPE     11     20      8     12     31     18     17
D31V8, multiclass
        clus
vv       PCBP1 MUTATED PCBP1 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             3              20
  CLUS_3             0               8
  CLUS_4             0              12
  CLUS_5             1              31
  CLUS_6             0              18
  CLUS_7             0              17
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PCBP1 MUTATED        0      2      1      0      1
  PCBP1 WILD-TYPE     13     26     13      8     54
D31V9, multiclass
        clus
vv       PCBP1 MUTATED PCBP1 WILD-TYPE
  CLUS_1             0              13
  CLUS_2             2              26
  CLUS_3             1              13
  CLUS_4             0               8
  CLUS_5             1              54
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PCBP1 MUTATED        0      3      1
  PCBP1 WILD-TYPE     20     41     53
D31V10, multiclass
        clus
vv       PCBP1 MUTATED PCBP1 WILD-TYPE
  CLUS_1             0              20
  CLUS_2             3              41
  CLUS_3             1              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
  PCBP1 MUTATED        0      1      1      0
  PCBP1 WILD-TYPE      8      6     12      8
D31V11, multiclass
[1] "Remove cluster labels:" "PCBP1 MUTATED"         
clus
  PCBP1 MUTATED PCBP1 WILD-TYPE 
              2              34 
     TCGA-AF-2687      TCGA-AF-4110      TCGA-AF-6655      TCGA-AF-6672 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AG-3731      TCGA-AG-3732      TCGA-AH-6547      TCGA-AH-6549 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AH-6643      TCGA-CI-6619      TCGA-CI-6620      TCGA-CI-6621 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-CI-6624      TCGA-CL-5918      TCGA-DC-5337      TCGA-DC-5869 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-DC-6157      TCGA-DC-6158      TCGA-DC-6681      TCGA-DC-6682 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-DC-6683      TCGA-DY-A1DC      TCGA-DY-A1DD      TCGA-DY-A1DG 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-DY-A1H8      TCGA-EI-6506      TCGA-EI-6507      TCGA-F5-6464 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-F5-6571      TCGA-F5-6702      TCGA-F5-6811      TCGA-F5-6812 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-G5-6235      TCGA-G5-6641 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PCBP1 MUTATED        0      0      1      0      1
  PCBP1 WILD-TYPE      8      9     11      5      1
D31V12, multiclass
[1] "Remove cluster labels:" "PCBP1 MUTATED"         
clus
  PCBP1 MUTATED PCBP1 WILD-TYPE 
              2              34 
     TCGA-AF-2687      TCGA-AF-4110      TCGA-AF-6655      TCGA-AF-6672 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AG-3731      TCGA-AG-3732      TCGA-AH-6547      TCGA-AH-6549 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AH-6643      TCGA-CI-6619      TCGA-CI-6620      TCGA-CI-6621 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-CI-6624      TCGA-CL-5918      TCGA-DC-5337      TCGA-DC-5869 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-DC-6157      TCGA-DC-6158      TCGA-DC-6681      TCGA-DC-6682 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-DC-6683      TCGA-DY-A1DC      TCGA-DY-A1DD      TCGA-DY-A1DG 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-DY-A1H8      TCGA-EI-6506      TCGA-EI-6507      TCGA-F5-6464 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-F5-6571      TCGA-F5-6702      TCGA-F5-6811      TCGA-F5-6812 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-G5-6235      TCGA-G5-6641 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 

Clustering(32) Variable = ATP8B1 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ATP8B1 MUTATED        1      2      0
  ATP8B1 WILD-TYPE     24     19     19
D32V1, multiclass
        clus
vv       ATP8B1 MUTATED ATP8B1 WILD-TYPE
  CLUS_1              1               24
  CLUS_2              2               19
  CLUS_3              0               19
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  ATP8B1 MUTATED        0      1      1      0      0      1      0      0
  ATP8B1 WILD-TYPE      6     12     11      9      6      8      8      2
D32V2, multiclass
        clus
vv       ATP8B1 MUTATED ATP8B1 WILD-TYPE
  CLUS_1              0                6
  CLUS_2              1               12
  CLUS_3              1               11
  CLUS_4              0                9
  CLUS_5              0                6
  CLUS_6              1                8
  CLUS_7              0                8
  CLUS_8              0                2
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ATP8B1 MUTATED        2      1      0      2
  ATP8B1 WILD-TYPE     49     19     19     28
D32V3, multiclass
        clus
vv       ATP8B1 MUTATED ATP8B1 WILD-TYPE
  CLUS_1              2               49
  CLUS_2              1               19
  CLUS_3              0               19
  CLUS_4              2               28
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ATP8B1 MUTATED        0      1      1
  ATP8B1 WILD-TYPE     16     22     17
D32V4, multiclass
[1] "Remove cluster labels:" "ATP8B1 MUTATED"        
clus
  ATP8B1 MUTATED ATP8B1 WILD-TYPE 
               2               55 
      TCGA-AF-2687       TCGA-AF-2693       TCGA-AF-4110       TCGA-AF-6136 
"ATP8B1 WILD-TYPE" "ATP8B1 WILD-TYPE" "ATP8B1 WILD-TYPE" "ATP8B1 WILD-TYPE" 
      TCGA-AF-6655       TCGA-AF-6672       TCGA-AG-3731       TCGA-AG-3732 
"ATP8B1 WILD-TYPE" "ATP8B1 WILD-TYPE" "ATP8B1 WILD-TYPE" "ATP8B1 WILD-TYPE" 
      TCGA-AG-3742       TCGA-AG-A01W       TCGA-AG-A01Y       TCGA-AG-A020 
"ATP8B1 WILD-TYPE" "ATP8B1 WILD-TYPE" "ATP8B1 WILD-TYPE" "ATP8B1 WILD-TYPE" 
      TCGA-AG-A026       TCGA-AG-A02N       TCGA-AG-A036       TCGA-AH-6544 
"ATP8B1 WILD-TYPE" "ATP8B1 WILD-TYPE" "ATP8B1 WILD-TYPE" "ATP8B1 WILD-TYPE" 
      TCGA-AH-6547       TCGA-AH-6549       TCGA-AH-6644       TCGA-CI-6619 
"ATP8B1 WILD-TYPE" "ATP8B1 WILD-TYPE" "ATP8B1 WILD-TYPE" "ATP8B1 WILD-TYPE" 
      TCGA-CI-6620       TCGA-CI-6621       TCGA-CI-6622       TCGA-CI-6624 
"ATP8B1 WILD-TYPE" "ATP8B1 WILD-TYPE" "ATP8B1 WILD-TYPE" "ATP8B1 WILD-TYPE" 
      TCGA-CL-5917       TCGA-CL-5918       TCGA-DC-5337       TCGA-DC-5869 
"ATP8B1 WILD-TYPE" "ATP8B1 WILD-TYPE" "ATP8B1 WILD-TYPE" "ATP8B1 WILD-TYPE" 
      TCGA-DC-6155       TCGA-DC-6157       TCGA-DC-6158       TCGA-DC-6160 
"ATP8B1 WILD-TYPE" "ATP8B1 WILD-TYPE" "ATP8B1 WILD-TYPE" "ATP8B1 WILD-TYPE" 
      TCGA-DC-6681       TCGA-DC-6682       TCGA-DC-6683       TCGA-DT-5265 
"ATP8B1 WILD-TYPE" "ATP8B1 WILD-TYPE" "ATP8B1 WILD-TYPE" "ATP8B1 WILD-TYPE" 
      TCGA-DY-A0XA       TCGA-DY-A1DC       TCGA-DY-A1DD       TCGA-DY-A1DF 
"ATP8B1 WILD-TYPE" "ATP8B1 WILD-TYPE" "ATP8B1 WILD-TYPE" "ATP8B1 WILD-TYPE" 
      TCGA-DY-A1DG       TCGA-DY-A1H8       TCGA-EF-5830       TCGA-EI-6506 
"ATP8B1 WILD-TYPE" "ATP8B1 WILD-TYPE" "ATP8B1 WILD-TYPE" "ATP8B1 WILD-TYPE" 
      TCGA-EI-6507       TCGA-EI-6508       TCGA-EI-6510       TCGA-F5-6464 
"ATP8B1 WILD-TYPE" "ATP8B1 WILD-TYPE" "ATP8B1 WILD-TYPE" "ATP8B1 WILD-TYPE" 
      TCGA-F5-6465       TCGA-F5-6571       TCGA-F5-6702       TCGA-F5-6811 
"ATP8B1 WILD-TYPE" "ATP8B1 WILD-TYPE" "ATP8B1 WILD-TYPE" "ATP8B1 WILD-TYPE" 
      TCGA-F5-6813       TCGA-G5-6235       TCGA-G5-6641 
"ATP8B1 WILD-TYPE" "ATP8B1 WILD-TYPE" "ATP8B1 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ATP8B1 MUTATED        1      1      2
  ATP8B1 WILD-TYPE     27     28     38
D32V5, multiclass
        clus
vv       ATP8B1 MUTATED ATP8B1 WILD-TYPE
  CLUS_1              1               27
  CLUS_2              1               28
  CLUS_3              2               38
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ATP8B1 MUTATED        1      0      0      0      2      1
  ATP8B1 WILD-TYPE     22     18     24      4     18      7
D32V6, multiclass
        clus
vv       ATP8B1 MUTATED ATP8B1 WILD-TYPE
  CLUS_1              1               22
  CLUS_2              0               18
  CLUS_3              0               24
  CLUS_4              0                4
  CLUS_5              2               18
  CLUS_6              1                7
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ATP8B1 MUTATED        1      0      2      0      2
  ATP8B1 WILD-TYPE     15     13     20     13     55
D32V7, multiclass
        clus
vv       ATP8B1 MUTATED ATP8B1 WILD-TYPE
  CLUS_1              1               15
  CLUS_2              0               13
  CLUS_3              2               20
  CLUS_4              0               13
  CLUS_5              2               55
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  ATP8B1 MUTATED        1      0      1      0      0      2      1
  ATP8B1 WILD-TYPE     10     23      7     12     32     16     16
D32V8, multiclass
        clus
vv       ATP8B1 MUTATED ATP8B1 WILD-TYPE
  CLUS_1              1               10
  CLUS_2              0               23
  CLUS_3              1                7
  CLUS_4              0               12
  CLUS_5              0               32
  CLUS_6              2               16
  CLUS_7              1               16
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ATP8B1 MUTATED        1      1      0      0      3
  ATP8B1 WILD-TYPE     12     27     14      8     52
D32V9, multiclass
        clus
vv       ATP8B1 MUTATED ATP8B1 WILD-TYPE
  CLUS_1              1               12
  CLUS_2              1               27
  CLUS_3              0               14
  CLUS_4              0                8
  CLUS_5              3               52
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ATP8B1 MUTATED        1      1      3
  ATP8B1 WILD-TYPE     19     43     51
D32V10, multiclass
        clus
vv       ATP8B1 MUTATED ATP8B1 WILD-TYPE
  CLUS_1              1               19
  CLUS_2              1               43
  CLUS_3              3               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
  ATP8B1 MUTATED        0      1      0      1
  ATP8B1 WILD-TYPE      8      6     13      7
D32V11, multiclass
[1] "Remove cluster labels:" "ATP8B1 MUTATED"        
clus
  ATP8B1 MUTATED ATP8B1 WILD-TYPE 
               2               34 
      TCGA-AF-2687       TCGA-AF-4110       TCGA-AF-6655       TCGA-AF-6672 
"ATP8B1 WILD-TYPE" "ATP8B1 WILD-TYPE" "ATP8B1 WILD-TYPE" "ATP8B1 WILD-TYPE" 
      TCGA-AG-3731       TCGA-AG-3732       TCGA-AH-6544       TCGA-AH-6547 
"ATP8B1 WILD-TYPE" "ATP8B1 WILD-TYPE" "ATP8B1 WILD-TYPE" "ATP8B1 WILD-TYPE" 
      TCGA-AH-6549       TCGA-CI-6619       TCGA-CI-6620       TCGA-CI-6621 
"ATP8B1 WILD-TYPE" "ATP8B1 WILD-TYPE" "ATP8B1 WILD-TYPE" "ATP8B1 WILD-TYPE" 
      TCGA-CI-6624       TCGA-CL-5918       TCGA-DC-5337       TCGA-DC-5869 
"ATP8B1 WILD-TYPE" "ATP8B1 WILD-TYPE" "ATP8B1 WILD-TYPE" "ATP8B1 WILD-TYPE" 
      TCGA-DC-6157       TCGA-DC-6158       TCGA-DC-6681       TCGA-DC-6682 
"ATP8B1 WILD-TYPE" "ATP8B1 WILD-TYPE" "ATP8B1 WILD-TYPE" "ATP8B1 WILD-TYPE" 
      TCGA-DC-6683       TCGA-DY-A1DC       TCGA-DY-A1DD       TCGA-DY-A1DG 
"ATP8B1 WILD-TYPE" "ATP8B1 WILD-TYPE" "ATP8B1 WILD-TYPE" "ATP8B1 WILD-TYPE" 
      TCGA-DY-A1H8       TCGA-EI-6506       TCGA-EI-6507       TCGA-F5-6464 
"ATP8B1 WILD-TYPE" "ATP8B1 WILD-TYPE" "ATP8B1 WILD-TYPE" "ATP8B1 WILD-TYPE" 
      TCGA-F5-6465       TCGA-F5-6571       TCGA-F5-6702       TCGA-F5-6811 
"ATP8B1 WILD-TYPE" "ATP8B1 WILD-TYPE" "ATP8B1 WILD-TYPE" "ATP8B1 WILD-TYPE" 
      TCGA-G5-6235       TCGA-G5-6641 
"ATP8B1 WILD-TYPE" "ATP8B1 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ATP8B1 MUTATED        0      1      1      0      0
  ATP8B1 WILD-TYPE      8      8     11      5      2
D32V12, multiclass
[1] "Remove cluster labels:" "ATP8B1 MUTATED"        
clus
  ATP8B1 MUTATED ATP8B1 WILD-TYPE 
               2               34 
      TCGA-AF-2687       TCGA-AF-4110       TCGA-AF-6655       TCGA-AF-6672 
"ATP8B1 WILD-TYPE" "ATP8B1 WILD-TYPE" "ATP8B1 WILD-TYPE" "ATP8B1 WILD-TYPE" 
      TCGA-AG-3731       TCGA-AG-3732       TCGA-AH-6544       TCGA-AH-6547 
"ATP8B1 WILD-TYPE" "ATP8B1 WILD-TYPE" "ATP8B1 WILD-TYPE" "ATP8B1 WILD-TYPE" 
      TCGA-AH-6549       TCGA-CI-6619       TCGA-CI-6620       TCGA-CI-6621 
"ATP8B1 WILD-TYPE" "ATP8B1 WILD-TYPE" "ATP8B1 WILD-TYPE" "ATP8B1 WILD-TYPE" 
      TCGA-CI-6624       TCGA-CL-5918       TCGA-DC-5337       TCGA-DC-5869 
"ATP8B1 WILD-TYPE" "ATP8B1 WILD-TYPE" "ATP8B1 WILD-TYPE" "ATP8B1 WILD-TYPE" 
      TCGA-DC-6157       TCGA-DC-6158       TCGA-DC-6681       TCGA-DC-6682 
"ATP8B1 WILD-TYPE" "ATP8B1 WILD-TYPE" "ATP8B1 WILD-TYPE" "ATP8B1 WILD-TYPE" 
      TCGA-DC-6683       TCGA-DY-A1DC       TCGA-DY-A1DD       TCGA-DY-A1DG 
"ATP8B1 WILD-TYPE" "ATP8B1 WILD-TYPE" "ATP8B1 WILD-TYPE" "ATP8B1 WILD-TYPE" 
      TCGA-DY-A1H8       TCGA-EI-6506       TCGA-EI-6507       TCGA-F5-6464 
"ATP8B1 WILD-TYPE" "ATP8B1 WILD-TYPE" "ATP8B1 WILD-TYPE" "ATP8B1 WILD-TYPE" 
      TCGA-F5-6465       TCGA-F5-6571       TCGA-F5-6702       TCGA-F5-6811 
"ATP8B1 WILD-TYPE" "ATP8B1 WILD-TYPE" "ATP8B1 WILD-TYPE" "ATP8B1 WILD-TYPE" 
      TCGA-G5-6235       TCGA-G5-6641 
"ATP8B1 WILD-TYPE" "ATP8B1 WILD-TYPE" 

Clustering(33) Variable = FLT1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  FLT1 MUTATED        1      1      0
  FLT1 WILD-TYPE     24     20     19
D33V1, multiclass
[1] "Remove cluster labels:" "FLT1 MUTATED"          
clus
  FLT1 MUTATED FLT1 WILD-TYPE 
             2             63 
    TCGA-AF-2689     TCGA-AF-2691     TCGA-AF-2692     TCGA-AF-3400 
"FLT1 WILD-TYPE" "FLT1 WILD-TYPE" "FLT1 WILD-TYPE" "FLT1 WILD-TYPE" 
    TCGA-AF-3913     TCGA-AG-3574     TCGA-AG-3575     TCGA-AG-3578 
"FLT1 WILD-TYPE" "FLT1 WILD-TYPE" "FLT1 WILD-TYPE" "FLT1 WILD-TYPE" 
    TCGA-AG-3580     TCGA-AG-3581     TCGA-AG-3582     TCGA-AG-3583 
"FLT1 WILD-TYPE" "FLT1 WILD-TYPE" "FLT1 WILD-TYPE" "FLT1 WILD-TYPE" 
    TCGA-AG-3584     TCGA-AG-3586     TCGA-AG-3587     TCGA-AG-3593 
"FLT1 WILD-TYPE" "FLT1 WILD-TYPE" "FLT1 WILD-TYPE" "FLT1 WILD-TYPE" 
    TCGA-AG-3594     TCGA-AG-3598     TCGA-AG-3599     TCGA-AG-3600 
"FLT1 WILD-TYPE" "FLT1 WILD-TYPE" "FLT1 WILD-TYPE" "FLT1 WILD-TYPE" 
    TCGA-AG-3601     TCGA-AG-3602     TCGA-AG-3605     TCGA-AG-3608 
"FLT1 WILD-TYPE" "FLT1 WILD-TYPE" "FLT1 WILD-TYPE" "FLT1 WILD-TYPE" 
    TCGA-AG-3609     TCGA-AG-3611     TCGA-AG-3612     TCGA-AG-3726 
"FLT1 WILD-TYPE" "FLT1 WILD-TYPE" "FLT1 WILD-TYPE" "FLT1 WILD-TYPE" 
    TCGA-AG-3727     TCGA-AG-3881     TCGA-AG-3882     TCGA-AG-3883 
"FLT1 WILD-TYPE" "FLT1 WILD-TYPE" "FLT1 WILD-TYPE" "FLT1 WILD-TYPE" 
    TCGA-AG-3885     TCGA-AG-3887     TCGA-AG-3890     TCGA-AG-3892 
"FLT1 WILD-TYPE" "FLT1 WILD-TYPE" "FLT1 WILD-TYPE" "FLT1 WILD-TYPE" 
    TCGA-AG-3893     TCGA-AG-3894     TCGA-AG-3896     TCGA-AG-3898 
"FLT1 WILD-TYPE" "FLT1 WILD-TYPE" "FLT1 WILD-TYPE" "FLT1 WILD-TYPE" 
    TCGA-AG-3901     TCGA-AG-3902     TCGA-AG-3909     TCGA-AG-3999 
"FLT1 WILD-TYPE" "FLT1 WILD-TYPE" "FLT1 WILD-TYPE" "FLT1 WILD-TYPE" 
    TCGA-AG-4001     TCGA-AG-4005     TCGA-AG-4007     TCGA-AG-4008 
"FLT1 WILD-TYPE" "FLT1 WILD-TYPE" "FLT1 WILD-TYPE" "FLT1 WILD-TYPE" 
    TCGA-AG-4015     TCGA-AG-A008     TCGA-AG-A00C     TCGA-AG-A00H 
"FLT1 WILD-TYPE" "FLT1 WILD-TYPE" "FLT1 WILD-TYPE" "FLT1 WILD-TYPE" 
    TCGA-AG-A00Y     TCGA-AG-A011     TCGA-AG-A014     TCGA-AG-A015 
"FLT1 WILD-TYPE" "FLT1 WILD-TYPE" "FLT1 WILD-TYPE" "FLT1 WILD-TYPE" 
    TCGA-AG-A016     TCGA-AG-A01L     TCGA-AG-A025     TCGA-AG-A026 
"FLT1 WILD-TYPE" "FLT1 WILD-TYPE" "FLT1 WILD-TYPE" "FLT1 WILD-TYPE" 
    TCGA-AG-A02G     TCGA-AG-A02X     TCGA-AG-A032 
"FLT1 WILD-TYPE" "FLT1 WILD-TYPE" "FLT1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  FLT1 MUTATED        0      0      1      0      0      1      0      0
  FLT1 WILD-TYPE      6     13     11      9      6      8      8      2
D33V2, multiclass
[1] "Remove cluster labels:" "FLT1 MUTATED"          
clus
  FLT1 MUTATED FLT1 WILD-TYPE 
             2             63 
    TCGA-AF-2689     TCGA-AF-2691     TCGA-AF-2692     TCGA-AF-3400 
"FLT1 WILD-TYPE" "FLT1 WILD-TYPE" "FLT1 WILD-TYPE" "FLT1 WILD-TYPE" 
    TCGA-AF-3913     TCGA-AG-3574     TCGA-AG-3575     TCGA-AG-3578 
"FLT1 WILD-TYPE" "FLT1 WILD-TYPE" "FLT1 WILD-TYPE" "FLT1 WILD-TYPE" 
    TCGA-AG-3580     TCGA-AG-3581     TCGA-AG-3582     TCGA-AG-3583 
"FLT1 WILD-TYPE" "FLT1 WILD-TYPE" "FLT1 WILD-TYPE" "FLT1 WILD-TYPE" 
    TCGA-AG-3584     TCGA-AG-3586     TCGA-AG-3587     TCGA-AG-3593 
"FLT1 WILD-TYPE" "FLT1 WILD-TYPE" "FLT1 WILD-TYPE" "FLT1 WILD-TYPE" 
    TCGA-AG-3594     TCGA-AG-3598     TCGA-AG-3599     TCGA-AG-3600 
"FLT1 WILD-TYPE" "FLT1 WILD-TYPE" "FLT1 WILD-TYPE" "FLT1 WILD-TYPE" 
    TCGA-AG-3601     TCGA-AG-3602     TCGA-AG-3605     TCGA-AG-3608 
"FLT1 WILD-TYPE" "FLT1 WILD-TYPE" "FLT1 WILD-TYPE" "FLT1 WILD-TYPE" 
    TCGA-AG-3609     TCGA-AG-3611     TCGA-AG-3612     TCGA-AG-3726 
"FLT1 WILD-TYPE" "FLT1 WILD-TYPE" "FLT1 WILD-TYPE" "FLT1 WILD-TYPE" 
    TCGA-AG-3727     TCGA-AG-3881     TCGA-AG-3882     TCGA-AG-3883 
"FLT1 WILD-TYPE" "FLT1 WILD-TYPE" "FLT1 WILD-TYPE" "FLT1 WILD-TYPE" 
    TCGA-AG-3885     TCGA-AG-3887     TCGA-AG-3890     TCGA-AG-3892 
"FLT1 WILD-TYPE" "FLT1 WILD-TYPE" "FLT1 WILD-TYPE" "FLT1 WILD-TYPE" 
    TCGA-AG-3893     TCGA-AG-3894     TCGA-AG-3896     TCGA-AG-3898 
"FLT1 WILD-TYPE" "FLT1 WILD-TYPE" "FLT1 WILD-TYPE" "FLT1 WILD-TYPE" 
    TCGA-AG-3901     TCGA-AG-3902     TCGA-AG-3909     TCGA-AG-3999 
"FLT1 WILD-TYPE" "FLT1 WILD-TYPE" "FLT1 WILD-TYPE" "FLT1 WILD-TYPE" 
    TCGA-AG-4001     TCGA-AG-4005     TCGA-AG-4007     TCGA-AG-4008 
"FLT1 WILD-TYPE" "FLT1 WILD-TYPE" "FLT1 WILD-TYPE" "FLT1 WILD-TYPE" 
    TCGA-AG-4015     TCGA-AG-A008     TCGA-AG-A00C     TCGA-AG-A00H 
"FLT1 WILD-TYPE" "FLT1 WILD-TYPE" "FLT1 WILD-TYPE" "FLT1 WILD-TYPE" 
    TCGA-AG-A00Y     TCGA-AG-A011     TCGA-AG-A014     TCGA-AG-A015 
"FLT1 WILD-TYPE" "FLT1 WILD-TYPE" "FLT1 WILD-TYPE" "FLT1 WILD-TYPE" 
    TCGA-AG-A016     TCGA-AG-A01L     TCGA-AG-A025     TCGA-AG-A026 
"FLT1 WILD-TYPE" "FLT1 WILD-TYPE" "FLT1 WILD-TYPE" "FLT1 WILD-TYPE" 
    TCGA-AG-A02G     TCGA-AG-A02X     TCGA-AG-A032 
"FLT1 WILD-TYPE" "FLT1 WILD-TYPE" "FLT1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FLT1 MUTATED        4      2      1      1
  FLT1 WILD-TYPE     47     18     18     29
D33V3, multiclass
        clus
vv       FLT1 MUTATED FLT1 WILD-TYPE
  CLUS_1            4             47
  CLUS_2            2             18
  CLUS_3            1             18
  CLUS_4            1             29
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  FLT1 MUTATED        2      2      1
  FLT1 WILD-TYPE     14     21     17
D33V4, multiclass
        clus
vv       FLT1 MUTATED FLT1 WILD-TYPE
  CLUS_1            2             14
  CLUS_2            2             21
  CLUS_3            1             17
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  FLT1 MUTATED        1      1      5
  FLT1 WILD-TYPE     27     28     35
D33V5, multiclass
        clus
vv       FLT1 MUTATED FLT1 WILD-TYPE
  CLUS_1            1             27
  CLUS_2            1             28
  CLUS_3            5             35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  FLT1 MUTATED        1      0      2      0      2      2
  FLT1 WILD-TYPE     22     18     22      4     18      6
D33V6, multiclass
        clus
vv       FLT1 MUTATED FLT1 WILD-TYPE
  CLUS_1            1             22
  CLUS_2            0             18
  CLUS_3            2             22
  CLUS_4            0              4
  CLUS_5            2             18
  CLUS_6            2              6
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FLT1 MUTATED        0      2      3      2      1
  FLT1 WILD-TYPE     16     11     19     11     56
D33V7, multiclass
        clus
vv       FLT1 MUTATED FLT1 WILD-TYPE
  CLUS_1            0             16
  CLUS_2            2             11
  CLUS_3            3             19
  CLUS_4            2             11
  CLUS_5            1             56
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  FLT1 MUTATED        2      2      1      1      0      1      1
  FLT1 WILD-TYPE      9     21      7     11     32     17     16
D33V8, multiclass
        clus
vv       FLT1 MUTATED FLT1 WILD-TYPE
  CLUS_1            2              9
  CLUS_2            2             21
  CLUS_3            1              7
  CLUS_4            1             11
  CLUS_5            0             32
  CLUS_6            1             17
  CLUS_7            1             16
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FLT1 MUTATED        2      1      2      1      2
  FLT1 WILD-TYPE     11     27     12      7     53
D33V9, multiclass
        clus
vv       FLT1 MUTATED FLT1 WILD-TYPE
  CLUS_1            2             11
  CLUS_2            1             27
  CLUS_3            2             12
  CLUS_4            1              7
  CLUS_5            2             53
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  FLT1 MUTATED        1      5      2
  FLT1 WILD-TYPE     19     39     52
D33V10, multiclass
        clus
vv       FLT1 MUTATED FLT1 WILD-TYPE
  CLUS_1            1             19
  CLUS_2            5             39
  CLUS_3            2             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
  FLT1 MUTATED        0      1      0      2
  FLT1 WILD-TYPE      8      6     13      6
D33V11, multiclass
        clus
vv       FLT1 MUTATED FLT1 WILD-TYPE
  CLUS_1            0              8
  CLUS_2            1              6
  CLUS_3            0             13
  CLUS_4            2              6
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FLT1 MUTATED        0      2      1      0      0
  FLT1 WILD-TYPE      8      7     11      5      2
D33V12, multiclass
        clus
vv       FLT1 MUTATED FLT1 WILD-TYPE
  CLUS_1            0              8
  CLUS_2            2              7
  CLUS_3            1             11
  CLUS_4            0              5
  CLUS_5            0              2
[1] 5 2
[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 = OBSCN MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OBSCN MUTATED        0      2      1
  OBSCN WILD-TYPE     25     19     18
D34V1, multiclass
        clus
vv       OBSCN MUTATED OBSCN WILD-TYPE
  CLUS_1             0              25
  CLUS_2             2              19
  CLUS_3             1              18
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  OBSCN MUTATED        0      2      0      1      0      0      0      0
  OBSCN WILD-TYPE      6     11     12      8      6      9      8      2
D34V2, multiclass
        clus
vv       OBSCN MUTATED OBSCN WILD-TYPE
  CLUS_1             0               6
  CLUS_2             2              11
  CLUS_3             0              12
  CLUS_4             1               8
  CLUS_5             0               6
  CLUS_6             0               9
  CLUS_7             0               8
  CLUS_8             0               2
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  OBSCN MUTATED        7      1      1      4
  OBSCN WILD-TYPE     44     19     18     26
D34V3, multiclass
        clus
vv       OBSCN MUTATED OBSCN WILD-TYPE
  CLUS_1             7              44
  CLUS_2             1              19
  CLUS_3             1              18
  CLUS_4             4              26
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OBSCN MUTATED        3      6      2
  OBSCN WILD-TYPE     13     17     16
D34V4, multiclass
        clus
vv       OBSCN MUTATED OBSCN WILD-TYPE
  CLUS_1             3              13
  CLUS_2             6              17
  CLUS_3             2              16
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OBSCN MUTATED        2      4      3
  OBSCN WILD-TYPE     26     25     37
D34V5, multiclass
        clus
vv       OBSCN MUTATED OBSCN WILD-TYPE
  CLUS_1             2              26
  CLUS_2             4              25
  CLUS_3             3              37
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  OBSCN MUTATED        0      3      2      0      3      1
  OBSCN WILD-TYPE     23     15     22      4     17      7
D34V6, multiclass
        clus
vv       OBSCN MUTATED OBSCN WILD-TYPE
  CLUS_1             0              23
  CLUS_2             3              15
  CLUS_3             2              22
  CLUS_4             0               4
  CLUS_5             3              17
  CLUS_6             1               7
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OBSCN MUTATED        1      3      5      1      3
  OBSCN WILD-TYPE     15     10     17     12     54
D34V7, multiclass
        clus
vv       OBSCN MUTATED OBSCN WILD-TYPE
  CLUS_1             1              15
  CLUS_2             3              10
  CLUS_3             5              17
  CLUS_4             1              12
  CLUS_5             3              54
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  OBSCN MUTATED        0      5      2      3      1      2      0
  OBSCN WILD-TYPE     11     18      6      9     31     16     17
D34V8, multiclass
        clus
vv       OBSCN MUTATED OBSCN WILD-TYPE
  CLUS_1             0              11
  CLUS_2             5              18
  CLUS_3             2               6
  CLUS_4             3               9
  CLUS_5             1              31
  CLUS_6             2              16
  CLUS_7             0              17
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OBSCN MUTATED        0      7      2      1      3
  OBSCN WILD-TYPE     13     21     12      7     52
D34V9, multiclass
        clus
vv       OBSCN MUTATED OBSCN WILD-TYPE
  CLUS_1             0              13
  CLUS_2             7              21
  CLUS_3             2              12
  CLUS_4             1               7
  CLUS_5             3              52
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OBSCN MUTATED        2      8      3
  OBSCN WILD-TYPE     18     36     51
D34V10, multiclass
        clus
vv       OBSCN MUTATED OBSCN WILD-TYPE
  CLUS_1             2              18
  CLUS_2             8              36
  CLUS_3             3              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
  OBSCN MUTATED        1      1      3      2
  OBSCN WILD-TYPE      7      6     10      6
D34V11, multiclass
        clus
vv       OBSCN MUTATED OBSCN WILD-TYPE
  CLUS_1             1               7
  CLUS_2             1               6
  CLUS_3             3              10
  CLUS_4             2               6
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  OBSCN MUTATED        1      0      4      1      1
  OBSCN WILD-TYPE      7      9      8      4      1
D34V12, multiclass
        clus
vv       OBSCN MUTATED OBSCN WILD-TYPE
  CLUS_1             1               7
  CLUS_2             0               9
  CLUS_3             4               8
  CLUS_4             1               4
  CLUS_5             1               1
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(35) Variable = VANGL1 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  VANGL1 MUTATED        0      0      0
  VANGL1 WILD-TYPE     25     21     19
D35V1, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  VANGL1 MUTATED        0      0      0      0      0      0      0      0
  VANGL1 WILD-TYPE      6     13     12      9      6      9      8      2
D35V2, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  VANGL1 MUTATED        3      0      0      0
  VANGL1 WILD-TYPE     48     20     19     30
D35V3, multiclass
        clus
vv       VANGL1 MUTATED VANGL1 WILD-TYPE
  CLUS_1              3               48
  CLUS_2              0               20
  CLUS_3              0               19
  CLUS_4              0               30
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  VANGL1 MUTATED        1      0      1
  VANGL1 WILD-TYPE     15     23     17
D35V4, multiclass
[1] "Remove cluster labels:" "VANGL1 MUTATED"        
clus
  VANGL1 MUTATED VANGL1 WILD-TYPE 
               2               55 
      TCGA-AF-2687       TCGA-AF-2693       TCGA-AF-4110       TCGA-AF-6136 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-AF-6655       TCGA-AF-6672       TCGA-AG-3732       TCGA-AG-3742 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-AG-A01W       TCGA-AG-A01Y       TCGA-AG-A020       TCGA-AG-A026 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-AG-A02N       TCGA-AG-A036       TCGA-AH-6544       TCGA-AH-6547 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-AH-6549       TCGA-AH-6643       TCGA-AH-6644       TCGA-CI-6619 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-CI-6620       TCGA-CI-6621       TCGA-CI-6622       TCGA-CI-6624 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-CL-5917       TCGA-CL-5918       TCGA-DC-5337       TCGA-DC-5869 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-DC-6155       TCGA-DC-6157       TCGA-DC-6158       TCGA-DC-6160 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-DC-6681       TCGA-DC-6682       TCGA-DC-6683       TCGA-DT-5265 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-DY-A0XA       TCGA-DY-A1DC       TCGA-DY-A1DD       TCGA-DY-A1DF 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-DY-A1DG       TCGA-DY-A1H8       TCGA-EF-5830       TCGA-EI-6506 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-EI-6507       TCGA-EI-6508       TCGA-EI-6510       TCGA-F5-6464 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-F5-6571       TCGA-F5-6702       TCGA-F5-6811       TCGA-F5-6812 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-F5-6813       TCGA-G5-6235       TCGA-G5-6641 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  VANGL1 MUTATED        1      1      1
  VANGL1 WILD-TYPE     27     28     39
D35V5, multiclass
        clus
vv       VANGL1 MUTATED VANGL1 WILD-TYPE
  CLUS_1              1               27
  CLUS_2              1               28
  CLUS_3              1               39
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  VANGL1 MUTATED        1      0      1      0      1      0
  VANGL1 WILD-TYPE     22     18     23      4     19      8
D35V6, multiclass
        clus
vv       VANGL1 MUTATED VANGL1 WILD-TYPE
  CLUS_1              1               22
  CLUS_2              0               18
  CLUS_3              1               23
  CLUS_4              0                4
  CLUS_5              1               19
  CLUS_6              0                8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  VANGL1 MUTATED        2      0      1      0      0
  VANGL1 WILD-TYPE     14     13     21     13     57
D35V7, multiclass
        clus
vv       VANGL1 MUTATED VANGL1 WILD-TYPE
  CLUS_1              2               14
  CLUS_2              0               13
  CLUS_3              1               21
  CLUS_4              0               13
  CLUS_5              0               57
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  VANGL1 MUTATED        0      2      0      1      0      0      0
  VANGL1 WILD-TYPE     11     21      8     11     32     18     17
D35V8, multiclass
        clus
vv       VANGL1 MUTATED VANGL1 WILD-TYPE
  CLUS_1              0               11
  CLUS_2              2               21
  CLUS_3              0                8
  CLUS_4              1               11
  CLUS_5              0               32
  CLUS_6              0               18
  CLUS_7              0               17
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  VANGL1 MUTATED        0      1      2      0      0
  VANGL1 WILD-TYPE     13     27     12      8     55
D35V9, multiclass
        clus
vv       VANGL1 MUTATED VANGL1 WILD-TYPE
  CLUS_1              0               13
  CLUS_2              1               27
  CLUS_3              2               12
  CLUS_4              0                8
  CLUS_5              0               55
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  VANGL1 MUTATED        1      2      0
  VANGL1 WILD-TYPE     19     42     54
D35V10, multiclass
        clus
vv       VANGL1 MUTATED VANGL1 WILD-TYPE
  CLUS_1              1               19
  CLUS_2              2               42
  CLUS_3              0               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
  VANGL1 MUTATED        1      1      0      0
  VANGL1 WILD-TYPE      7      6     13      8
D35V11, multiclass
[1] "Remove cluster labels:" "VANGL1 MUTATED"        
clus
  VANGL1 MUTATED VANGL1 WILD-TYPE 
               2               34 
      TCGA-AF-2687       TCGA-AF-4110       TCGA-AF-6655       TCGA-AF-6672 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-AG-3732       TCGA-AH-6544       TCGA-AH-6547       TCGA-AH-6549 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-AH-6643       TCGA-CI-6619       TCGA-CI-6620       TCGA-CI-6621 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-CI-6624       TCGA-CL-5918       TCGA-DC-5337       TCGA-DC-5869 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-DC-6157       TCGA-DC-6158       TCGA-DC-6681       TCGA-DC-6682 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-DC-6683       TCGA-DY-A1DC       TCGA-DY-A1DD       TCGA-DY-A1DG 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-DY-A1H8       TCGA-EI-6506       TCGA-EI-6507       TCGA-F5-6464 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-F5-6571       TCGA-F5-6702       TCGA-F5-6811       TCGA-F5-6812 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-G5-6235       TCGA-G5-6641 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  VANGL1 MUTATED        1      0      0      0      1
  VANGL1 WILD-TYPE      7      9     12      5      1
D35V12, multiclass
[1] "Remove cluster labels:" "VANGL1 MUTATED"        
clus
  VANGL1 MUTATED VANGL1 WILD-TYPE 
               2               34 
      TCGA-AF-2687       TCGA-AF-4110       TCGA-AF-6655       TCGA-AF-6672 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-AG-3732       TCGA-AH-6544       TCGA-AH-6547       TCGA-AH-6549 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-AH-6643       TCGA-CI-6619       TCGA-CI-6620       TCGA-CI-6621 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-CI-6624       TCGA-CL-5918       TCGA-DC-5337       TCGA-DC-5869 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-DC-6157       TCGA-DC-6158       TCGA-DC-6681       TCGA-DC-6682 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-DC-6683       TCGA-DY-A1DC       TCGA-DY-A1DD       TCGA-DY-A1DG 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-DY-A1H8       TCGA-EI-6506       TCGA-EI-6507       TCGA-F5-6464 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-F5-6571       TCGA-F5-6702       TCGA-F5-6811       TCGA-F5-6812 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 
      TCGA-G5-6235       TCGA-G5-6641 
"VANGL1 WILD-TYPE" "VANGL1 WILD-TYPE" 

Clustering(36) Variable = RRP8 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RRP8 MUTATED        0      0      0
  RRP8 WILD-TYPE     25     21     19
D36V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RRP8 MUTATED        0      0      0      0      0      0      0      0
  RRP8 WILD-TYPE      6     13     12      9      6      9      8      2
D36V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RRP8 MUTATED        1      0      1      2
  RRP8 WILD-TYPE     50     20     18     28
D36V3, multiclass
        clus
vv       RRP8 MUTATED RRP8 WILD-TYPE
  CLUS_1            1             50
  CLUS_2            0             20
  CLUS_3            1             18
  CLUS_4            2             28
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RRP8 MUTATED        1      2      2
  RRP8 WILD-TYPE     15     21     16
D36V4, multiclass
        clus
vv       RRP8 MUTATED RRP8 WILD-TYPE
  CLUS_1            1             15
  CLUS_2            2             21
  CLUS_3            2             16
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RRP8 MUTATED        0      5      0
  RRP8 WILD-TYPE     28     24     40
D36V5, multiclass
        clus
vv       RRP8 MUTATED RRP8 WILD-TYPE
  CLUS_1            0             28
  CLUS_2            5             24
  CLUS_3            0             40
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  RRP8 MUTATED        0      1      0      0      4      0
  RRP8 WILD-TYPE     23     17     24      4     16      8
D36V6, multiclass
        clus
vv       RRP8 MUTATED RRP8 WILD-TYPE
  CLUS_1            0             23
  CLUS_2            1             17
  CLUS_3            0             24
  CLUS_4            0              4
  CLUS_5            4             16
  CLUS_6            0              8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RRP8 MUTATED        0      0      1      2      2
  RRP8 WILD-TYPE     16     13     21     11     55
D36V7, multiclass
        clus
vv       RRP8 MUTATED RRP8 WILD-TYPE
  CLUS_1            0             16
  CLUS_2            0             13
  CLUS_3            1             21
  CLUS_4            2             11
  CLUS_5            2             55
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  RRP8 MUTATED        1      0      1      1      2      0      0
  RRP8 WILD-TYPE     10     23      7     11     30     18     17
D36V8, multiclass
        clus
vv       RRP8 MUTATED RRP8 WILD-TYPE
  CLUS_1            1             10
  CLUS_2            0             23
  CLUS_3            1              7
  CLUS_4            1             11
  CLUS_5            2             30
  CLUS_6            0             18
  CLUS_7            0             17
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RRP8 MUTATED        0      1      1      3      0
  RRP8 WILD-TYPE     13     27     13      5     55
D36V9, multiclass
        clus
vv       RRP8 MUTATED RRP8 WILD-TYPE
  CLUS_1            0             13
  CLUS_2            1             27
  CLUS_3            1             13
  CLUS_4            3              5
  CLUS_5            0             55
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RRP8 MUTATED        2      3      0
  RRP8 WILD-TYPE     18     41     54
D36V10, multiclass
        clus
vv       RRP8 MUTATED RRP8 WILD-TYPE
  CLUS_1            2             18
  CLUS_2            3             41
  CLUS_3            0             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
  RRP8 MUTATED        0      0      1      2
  RRP8 WILD-TYPE      8      7     12      6
D36V11, multiclass
        clus
vv       RRP8 MUTATED RRP8 WILD-TYPE
  CLUS_1            0              8
  CLUS_2            0              7
  CLUS_3            1             12
  CLUS_4            2              6
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RRP8 MUTATED        0      0      2      1      0
  RRP8 WILD-TYPE      8      9     10      4      2
D36V12, multiclass
        clus
vv       RRP8 MUTATED RRP8 WILD-TYPE
  CLUS_1            0              8
  CLUS_2            0              9
  CLUS_3            2             10
  CLUS_4            1              4
  CLUS_5            0              2
[1] 5 2
[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 = AGL MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  AGL MUTATED        2      0      0
  AGL WILD-TYPE     23     21     19
D37V1, multiclass
[1] "Remove cluster labels:" "AGL MUTATED"           
clus
  AGL MUTATED AGL WILD-TYPE 
            2            63 
   TCGA-AF-2689    TCGA-AF-2691    TCGA-AF-2692    TCGA-AF-3400    TCGA-AF-3913 
"AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" 
   TCGA-AG-3574    TCGA-AG-3575    TCGA-AG-3578    TCGA-AG-3580    TCGA-AG-3581 
"AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" 
   TCGA-AG-3582    TCGA-AG-3583    TCGA-AG-3584    TCGA-AG-3586    TCGA-AG-3587 
"AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" 
   TCGA-AG-3593    TCGA-AG-3594    TCGA-AG-3598    TCGA-AG-3599    TCGA-AG-3600 
"AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" 
   TCGA-AG-3601    TCGA-AG-3602    TCGA-AG-3605    TCGA-AG-3608    TCGA-AG-3609 
"AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" 
   TCGA-AG-3611    TCGA-AG-3612    TCGA-AG-3726    TCGA-AG-3727    TCGA-AG-3878 
"AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" 
   TCGA-AG-3881    TCGA-AG-3882    TCGA-AG-3883    TCGA-AG-3887    TCGA-AG-3890 
"AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" 
   TCGA-AG-3892    TCGA-AG-3893    TCGA-AG-3894    TCGA-AG-3896    TCGA-AG-3898 
"AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" 
   TCGA-AG-3901    TCGA-AG-3902    TCGA-AG-3909    TCGA-AG-3999    TCGA-AG-4001 
"AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" 
   TCGA-AG-4005    TCGA-AG-4007    TCGA-AG-4008    TCGA-AG-4015    TCGA-AG-A008 
"AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" 
   TCGA-AG-A00C    TCGA-AG-A00H    TCGA-AG-A00Y    TCGA-AG-A011    TCGA-AG-A014 
"AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" 
   TCGA-AG-A015    TCGA-AG-A016    TCGA-AG-A01L    TCGA-AG-A025    TCGA-AG-A026 
"AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" 
   TCGA-AG-A02G    TCGA-AG-A02X    TCGA-AG-A032 
"AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" 
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  AGL MUTATED        0      1      1      0      0      0      0      0
  AGL WILD-TYPE      6     12     11      9      6      9      8      2
D37V2, multiclass
[1] "Remove cluster labels:" "AGL MUTATED"           
clus
  AGL MUTATED AGL WILD-TYPE 
            2            63 
   TCGA-AF-2689    TCGA-AF-2691    TCGA-AF-2692    TCGA-AF-3400    TCGA-AF-3913 
"AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" 
   TCGA-AG-3574    TCGA-AG-3575    TCGA-AG-3578    TCGA-AG-3580    TCGA-AG-3581 
"AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" 
   TCGA-AG-3582    TCGA-AG-3583    TCGA-AG-3584    TCGA-AG-3586    TCGA-AG-3587 
"AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" 
   TCGA-AG-3593    TCGA-AG-3594    TCGA-AG-3598    TCGA-AG-3599    TCGA-AG-3600 
"AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" 
   TCGA-AG-3601    TCGA-AG-3602    TCGA-AG-3605    TCGA-AG-3608    TCGA-AG-3609 
"AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" 
   TCGA-AG-3611    TCGA-AG-3612    TCGA-AG-3726    TCGA-AG-3727    TCGA-AG-3878 
"AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" 
   TCGA-AG-3881    TCGA-AG-3882    TCGA-AG-3883    TCGA-AG-3887    TCGA-AG-3890 
"AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" 
   TCGA-AG-3892    TCGA-AG-3893    TCGA-AG-3894    TCGA-AG-3896    TCGA-AG-3898 
"AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" 
   TCGA-AG-3901    TCGA-AG-3902    TCGA-AG-3909    TCGA-AG-3999    TCGA-AG-4001 
"AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" 
   TCGA-AG-4005    TCGA-AG-4007    TCGA-AG-4008    TCGA-AG-4015    TCGA-AG-A008 
"AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" 
   TCGA-AG-A00C    TCGA-AG-A00H    TCGA-AG-A00Y    TCGA-AG-A011    TCGA-AG-A014 
"AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" 
   TCGA-AG-A015    TCGA-AG-A016    TCGA-AG-A01L    TCGA-AG-A025    TCGA-AG-A026 
"AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" 
   TCGA-AG-A02G    TCGA-AG-A02X    TCGA-AG-A032 
"AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" 
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  AGL MUTATED        3      1      0      0
  AGL WILD-TYPE     48     19     19     30
D37V3, multiclass
        clus
vv       AGL MUTATED AGL WILD-TYPE
  CLUS_1           3            48
  CLUS_2           1            19
  CLUS_3           0            19
  CLUS_4           0            30
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  AGL MUTATED        0      1      1
  AGL WILD-TYPE     16     22     17
D37V4, multiclass
[1] "Remove cluster labels:" "AGL MUTATED"           
clus
  AGL MUTATED AGL WILD-TYPE 
            2            55 
   TCGA-AF-2687    TCGA-AF-2693    TCGA-AF-4110    TCGA-AF-6136    TCGA-AF-6655 
"AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" 
   TCGA-AF-6672    TCGA-AG-3732    TCGA-AG-3742    TCGA-AG-A01W    TCGA-AG-A01Y 
"AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" 
   TCGA-AG-A020    TCGA-AG-A026    TCGA-AG-A02N    TCGA-AG-A036    TCGA-AH-6544 
"AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" 
   TCGA-AH-6547    TCGA-AH-6549    TCGA-AH-6643    TCGA-AH-6644    TCGA-CI-6619 
"AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" 
   TCGA-CI-6620    TCGA-CI-6621    TCGA-CI-6622    TCGA-CI-6624    TCGA-CL-5917 
"AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" 
   TCGA-CL-5918    TCGA-DC-5337    TCGA-DC-5869    TCGA-DC-6155    TCGA-DC-6157 
"AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" 
   TCGA-DC-6158    TCGA-DC-6160    TCGA-DC-6681    TCGA-DC-6682    TCGA-DC-6683 
"AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" 
   TCGA-DT-5265    TCGA-DY-A0XA    TCGA-DY-A1DC    TCGA-DY-A1DD    TCGA-DY-A1DF 
"AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" 
   TCGA-DY-A1DG    TCGA-DY-A1H8    TCGA-EF-5830    TCGA-EI-6506    TCGA-EI-6508 
"AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" 
   TCGA-EI-6510    TCGA-F5-6464    TCGA-F5-6465    TCGA-F5-6571    TCGA-F5-6702 
"AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" 
   TCGA-F5-6811    TCGA-F5-6812    TCGA-F5-6813    TCGA-G5-6235    TCGA-G5-6641 
"AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" 
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  AGL MUTATED        2      1      1
  AGL WILD-TYPE     26     28     39
D37V5, multiclass
        clus
vv       AGL MUTATED AGL WILD-TYPE
  CLUS_1           2            26
  CLUS_2           1            28
  CLUS_3           1            39
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  AGL MUTATED        2      0      0      0      2      0
  AGL WILD-TYPE     21     18     24      4     18      8
D37V6, multiclass
        clus
vv       AGL MUTATED AGL WILD-TYPE
  CLUS_1           2            21
  CLUS_2           0            18
  CLUS_3           0            24
  CLUS_4           0             4
  CLUS_5           2            18
  CLUS_6           0             8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  AGL MUTATED        1      0      2      0      1
  AGL WILD-TYPE     15     13     20     13     56
D37V7, multiclass
        clus
vv       AGL MUTATED AGL WILD-TYPE
  CLUS_1           1            15
  CLUS_2           0            13
  CLUS_3           2            20
  CLUS_4           0            13
  CLUS_5           1            56
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  AGL MUTATED        0      1      1      0      1      1      0
  AGL WILD-TYPE     11     22      7     12     31     17     17
D37V8, multiclass
        clus
vv       AGL MUTATED AGL WILD-TYPE
  CLUS_1           0            11
  CLUS_2           1            22
  CLUS_3           1             7
  CLUS_4           0            12
  CLUS_5           1            31
  CLUS_6           1            17
  CLUS_7           0            17
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  AGL MUTATED        0      1      0      1      2
  AGL WILD-TYPE     13     27     14      7     53
D37V9, multiclass
        clus
vv       AGL MUTATED AGL WILD-TYPE
  CLUS_1           0            13
  CLUS_2           1            27
  CLUS_3           0            14
  CLUS_4           1             7
  CLUS_5           2            53
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  AGL MUTATED        1      1      2
  AGL WILD-TYPE     19     43     52
D37V10, multiclass
        clus
vv       AGL MUTATED AGL WILD-TYPE
  CLUS_1           1            19
  CLUS_2           1            43
  CLUS_3           2            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
  AGL MUTATED        1      0      0      1
  AGL WILD-TYPE      7      7     13      7
D37V11, multiclass
[1] "Remove cluster labels:" "AGL MUTATED"           
clus
  AGL MUTATED AGL WILD-TYPE 
            2            34 
   TCGA-AF-2687    TCGA-AF-4110    TCGA-AF-6655    TCGA-AF-6672    TCGA-AG-3732 
"AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" 
   TCGA-AH-6544    TCGA-AH-6547    TCGA-AH-6549    TCGA-AH-6643    TCGA-CI-6619 
"AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" 
   TCGA-CI-6620    TCGA-CI-6621    TCGA-CI-6624    TCGA-CL-5918    TCGA-DC-5337 
"AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" 
   TCGA-DC-5869    TCGA-DC-6157    TCGA-DC-6158    TCGA-DC-6681    TCGA-DC-6682 
"AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" 
   TCGA-DC-6683    TCGA-DY-A1DC    TCGA-DY-A1DD    TCGA-DY-A1DG    TCGA-DY-A1H8 
"AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" 
   TCGA-EI-6506    TCGA-F5-6464    TCGA-F5-6465    TCGA-F5-6571    TCGA-F5-6702 
"AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" 
   TCGA-F5-6811    TCGA-F5-6812    TCGA-G5-6235    TCGA-G5-6641 
"AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" 
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  AGL MUTATED        1      0      1      0      0
  AGL WILD-TYPE      7      9     11      5      2
D37V12, multiclass
[1] "Remove cluster labels:" "AGL MUTATED"           
clus
  AGL MUTATED AGL WILD-TYPE 
            2            34 
   TCGA-AF-2687    TCGA-AF-4110    TCGA-AF-6655    TCGA-AF-6672    TCGA-AG-3732 
"AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" 
   TCGA-AH-6544    TCGA-AH-6547    TCGA-AH-6549    TCGA-AH-6643    TCGA-CI-6619 
"AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" 
   TCGA-CI-6620    TCGA-CI-6621    TCGA-CI-6624    TCGA-CL-5918    TCGA-DC-5337 
"AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" 
   TCGA-DC-5869    TCGA-DC-6157    TCGA-DC-6158    TCGA-DC-6681    TCGA-DC-6682 
"AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" 
   TCGA-DC-6683    TCGA-DY-A1DC    TCGA-DY-A1DD    TCGA-DY-A1DG    TCGA-DY-A1H8 
"AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" 
   TCGA-EI-6506    TCGA-F5-6464    TCGA-F5-6465    TCGA-F5-6571    TCGA-F5-6702 
"AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" 
   TCGA-F5-6811    TCGA-F5-6812    TCGA-G5-6235    TCGA-G5-6641 
"AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" "AGL WILD-TYPE" 

Clustering(38) Variable = RLIM MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RLIM MUTATED        0      0      0
  RLIM WILD-TYPE     25     21     19
D38V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RLIM MUTATED        0      0      0      0      0      0      0      0
  RLIM WILD-TYPE      6     13     12      9      6      9      8      2
D38V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RLIM MUTATED        1      0      2      0
  RLIM WILD-TYPE     50     20     17     30
D38V3, multiclass
        clus
vv       RLIM MUTATED RLIM WILD-TYPE
  CLUS_1            1             50
  CLUS_2            0             20
  CLUS_3            2             17
  CLUS_4            0             30
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RLIM MUTATED        3      0      0
  RLIM WILD-TYPE     13     23     18
D38V4, multiclass
        clus
vv       RLIM MUTATED RLIM WILD-TYPE
  CLUS_1            3             13
  CLUS_2            0             23
  CLUS_3            0             18
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RLIM MUTATED        0      0      2
  RLIM WILD-TYPE     28     29     38
D38V5, multiclass
[1] "Remove cluster labels:" "RLIM MUTATED"          
clus
  RLIM MUTATED RLIM WILD-TYPE 
             2             95 
    TCGA-AF-2689     TCGA-AF-3400     TCGA-AF-3913     TCGA-AF-5654 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-AF-6136     TCGA-AF-6655     TCGA-AF-6672     TCGA-AG-3574 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-AG-3578     TCGA-AG-3580     TCGA-AG-3581     TCGA-AG-3582 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-AG-3583     TCGA-AG-3584     TCGA-AG-3586     TCGA-AG-3587 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-AG-3593     TCGA-AG-3594     TCGA-AG-3598     TCGA-AG-3599 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-AG-3600     TCGA-AG-3601     TCGA-AG-3602     TCGA-AG-3605 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-AG-3609     TCGA-AG-3612     TCGA-AG-3727     TCGA-AG-3731 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-AG-3742     TCGA-AG-3878     TCGA-AG-3881     TCGA-AG-3882 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-AG-3885     TCGA-AG-3893     TCGA-AG-3896     TCGA-AG-3898 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-AG-3901     TCGA-AG-3902     TCGA-AG-4001     TCGA-AG-4005 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-AG-4007     TCGA-AG-4008     TCGA-AG-4015     TCGA-AG-A002 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-AG-A008     TCGA-AG-A00C     TCGA-AG-A00H     TCGA-AG-A00Y 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-AG-A011     TCGA-AG-A014     TCGA-AG-A015     TCGA-AG-A016 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-AG-A01W     TCGA-AG-A01Y     TCGA-AG-A020     TCGA-AG-A026 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-AG-A02G     TCGA-AG-A02N     TCGA-AG-A02X     TCGA-AG-A036 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-AH-6544     TCGA-AH-6547     TCGA-AH-6549     TCGA-AH-6643 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-AH-6644     TCGA-CI-6621     TCGA-CL-5918     TCGA-DC-5337 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-DC-5869     TCGA-DC-6155     TCGA-DC-6157     TCGA-DC-6158 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-DC-6160     TCGA-DC-6681     TCGA-DC-6682     TCGA-DC-6683 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-DT-5265     TCGA-DY-A1DC     TCGA-DY-A1DD     TCGA-DY-A1DF 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-DY-A1H8     TCGA-EF-5830     TCGA-EI-6506     TCGA-EI-6507 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-EI-6508     TCGA-EI-6510     TCGA-F5-6464     TCGA-F5-6465 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-F5-6571     TCGA-F5-6702     TCGA-F5-6811     TCGA-F5-6812 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-F5-6813     TCGA-G5-6235     TCGA-G5-6641 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  RLIM MUTATED        0      0      0      0      0      2
  RLIM WILD-TYPE     23     18     24      4     20      6
D38V6, multiclass
[1] "Remove cluster labels:" "RLIM MUTATED"          
clus
  RLIM MUTATED RLIM WILD-TYPE 
             2             95 
    TCGA-AF-2689     TCGA-AF-3400     TCGA-AF-3913     TCGA-AF-5654 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-AF-6136     TCGA-AF-6655     TCGA-AF-6672     TCGA-AG-3574 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-AG-3578     TCGA-AG-3580     TCGA-AG-3581     TCGA-AG-3582 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-AG-3583     TCGA-AG-3584     TCGA-AG-3586     TCGA-AG-3587 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-AG-3593     TCGA-AG-3594     TCGA-AG-3598     TCGA-AG-3599 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-AG-3600     TCGA-AG-3601     TCGA-AG-3602     TCGA-AG-3605 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-AG-3609     TCGA-AG-3612     TCGA-AG-3727     TCGA-AG-3731 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-AG-3742     TCGA-AG-3878     TCGA-AG-3881     TCGA-AG-3882 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-AG-3885     TCGA-AG-3893     TCGA-AG-3896     TCGA-AG-3898 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-AG-3901     TCGA-AG-3902     TCGA-AG-4001     TCGA-AG-4005 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-AG-4007     TCGA-AG-4008     TCGA-AG-4015     TCGA-AG-A002 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-AG-A008     TCGA-AG-A00C     TCGA-AG-A00H     TCGA-AG-A00Y 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-AG-A011     TCGA-AG-A014     TCGA-AG-A015     TCGA-AG-A016 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-AG-A01W     TCGA-AG-A01Y     TCGA-AG-A020     TCGA-AG-A026 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-AG-A02G     TCGA-AG-A02N     TCGA-AG-A02X     TCGA-AG-A036 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-AH-6544     TCGA-AH-6547     TCGA-AH-6549     TCGA-AH-6643 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-AH-6644     TCGA-CI-6621     TCGA-CL-5918     TCGA-DC-5337 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-DC-5869     TCGA-DC-6155     TCGA-DC-6157     TCGA-DC-6158 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-DC-6160     TCGA-DC-6681     TCGA-DC-6682     TCGA-DC-6683 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-DT-5265     TCGA-DY-A1DC     TCGA-DY-A1DD     TCGA-DY-A1DF 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-DY-A1H8     TCGA-EF-5830     TCGA-EI-6506     TCGA-EI-6507 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-EI-6508     TCGA-EI-6510     TCGA-F5-6464     TCGA-F5-6465 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-F5-6571     TCGA-F5-6702     TCGA-F5-6811     TCGA-F5-6812 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-F5-6813     TCGA-G5-6235     TCGA-G5-6641 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RLIM MUTATED        1      0      0      2      0
  RLIM WILD-TYPE     15     13     22     11     57
D38V7, multiclass
        clus
vv       RLIM MUTATED RLIM WILD-TYPE
  CLUS_1            1             15
  CLUS_2            0             13
  CLUS_3            0             22
  CLUS_4            2             11
  CLUS_5            0             57
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  RLIM MUTATED        2      0      0      1      0      0      0
  RLIM WILD-TYPE      9     23      8     11     32     18     17
D38V8, multiclass
        clus
vv       RLIM MUTATED RLIM WILD-TYPE
  CLUS_1            2              9
  CLUS_2            0             23
  CLUS_3            0              8
  CLUS_4            1             11
  CLUS_5            0             32
  CLUS_6            0             18
  CLUS_7            0             17
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RLIM MUTATED        1      1      1      0      0
  RLIM WILD-TYPE     12     27     13      8     55
D38V9, multiclass
        clus
vv       RLIM MUTATED RLIM WILD-TYPE
  CLUS_1            1             12
  CLUS_2            1             27
  CLUS_3            1             13
  CLUS_4            0              8
  CLUS_5            0             55
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RLIM MUTATED        1      2      0
  RLIM WILD-TYPE     19     42     54
D38V10, multiclass
        clus
vv       RLIM MUTATED RLIM WILD-TYPE
  CLUS_1            1             19
  CLUS_2            2             42
  CLUS_3            0             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
  RLIM MUTATED        1      0      0      1
  RLIM WILD-TYPE      7      7     13      7
D38V11, multiclass
[1] "Remove cluster labels:" "RLIM MUTATED"          
clus
  RLIM MUTATED RLIM WILD-TYPE 
             2             34 
    TCGA-AF-4110     TCGA-AF-6655     TCGA-AF-6672     TCGA-AG-3731 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-AG-3732     TCGA-AH-6544     TCGA-AH-6547     TCGA-AH-6549 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-AH-6643     TCGA-CI-6619     TCGA-CI-6620     TCGA-CI-6621 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-CI-6624     TCGA-CL-5918     TCGA-DC-5337     TCGA-DC-5869 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-DC-6157     TCGA-DC-6158     TCGA-DC-6681     TCGA-DC-6682 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-DC-6683     TCGA-DY-A1DC     TCGA-DY-A1DD     TCGA-DY-A1H8 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-EI-6506     TCGA-EI-6507     TCGA-F5-6464     TCGA-F5-6465 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-F5-6571     TCGA-F5-6702     TCGA-F5-6811     TCGA-F5-6812 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-G5-6235     TCGA-G5-6641 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RLIM MUTATED        1      0      1      0      0
  RLIM WILD-TYPE      7      9     11      5      2
D38V12, multiclass
[1] "Remove cluster labels:" "RLIM MUTATED"          
clus
  RLIM MUTATED RLIM WILD-TYPE 
             2             34 
    TCGA-AF-4110     TCGA-AF-6655     TCGA-AF-6672     TCGA-AG-3731 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-AG-3732     TCGA-AH-6544     TCGA-AH-6547     TCGA-AH-6549 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-AH-6643     TCGA-CI-6619     TCGA-CI-6620     TCGA-CI-6621 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-CI-6624     TCGA-CL-5918     TCGA-DC-5337     TCGA-DC-5869 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-DC-6157     TCGA-DC-6158     TCGA-DC-6681     TCGA-DC-6682 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-DC-6683     TCGA-DY-A1DC     TCGA-DY-A1DD     TCGA-DY-A1H8 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-EI-6506     TCGA-EI-6507     TCGA-F5-6464     TCGA-F5-6465 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-F5-6571     TCGA-F5-6702     TCGA-F5-6811     TCGA-F5-6812 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" "RLIM WILD-TYPE" 
    TCGA-G5-6235     TCGA-G5-6641 
"RLIM WILD-TYPE" "RLIM WILD-TYPE" 

Clustering(39) Variable = STK32B MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  STK32B MUTATED        0      0      0
  STK32B WILD-TYPE     25     21     19
D39V1, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  STK32B MUTATED        0      0      0      0      0      0      0      0
  STK32B WILD-TYPE      6     13     12      9      6      9      8      2
D39V2, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  STK32B MUTATED        2      1      0      1
  STK32B WILD-TYPE     49     19     19     29
D39V3, multiclass
        clus
vv       STK32B MUTATED STK32B WILD-TYPE
  CLUS_1              2               49
  CLUS_2              1               19
  CLUS_3              0               19
  CLUS_4              1               29
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  STK32B MUTATED        1      3      0
  STK32B WILD-TYPE     15     20     18
D39V4, multiclass
        clus
vv       STK32B MUTATED STK32B WILD-TYPE
  CLUS_1              1               15
  CLUS_2              3               20
  CLUS_3              0               18
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  STK32B MUTATED        1      1      0
  STK32B WILD-TYPE     27     28     40
D39V5, multiclass
[1] "Remove cluster labels:" "STK32B MUTATED"        
clus
  STK32B MUTATED STK32B WILD-TYPE 
               2               95 
      TCGA-AF-2689       TCGA-AF-3400       TCGA-AF-3913       TCGA-AF-5654 
"STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" 
      TCGA-AF-6136       TCGA-AF-6655       TCGA-AF-6672       TCGA-AG-3574 
"STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" 
      TCGA-AG-3578       TCGA-AG-3580       TCGA-AG-3581       TCGA-AG-3582 
"STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" 
      TCGA-AG-3583       TCGA-AG-3584       TCGA-AG-3586       TCGA-AG-3587 
"STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" 
      TCGA-AG-3593       TCGA-AG-3594       TCGA-AG-3598       TCGA-AG-3599 
"STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" 
      TCGA-AG-3600       TCGA-AG-3601       TCGA-AG-3602       TCGA-AG-3605 
"STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" 
      TCGA-AG-3609       TCGA-AG-3612       TCGA-AG-3727       TCGA-AG-3731 
"STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" 
      TCGA-AG-3742       TCGA-AG-3878       TCGA-AG-3881       TCGA-AG-3882 
"STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" 
      TCGA-AG-3885       TCGA-AG-3893       TCGA-AG-3896       TCGA-AG-3898 
"STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" 
      TCGA-AG-3901       TCGA-AG-3902       TCGA-AG-4001       TCGA-AG-4005 
"STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" 
      TCGA-AG-4007       TCGA-AG-4008       TCGA-AG-4015       TCGA-AG-A002 
"STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" 
      TCGA-AG-A008       TCGA-AG-A00C       TCGA-AG-A00H       TCGA-AG-A00Y 
"STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" 
      TCGA-AG-A011       TCGA-AG-A014       TCGA-AG-A015       TCGA-AG-A016 
"STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" 
      TCGA-AG-A01W       TCGA-AG-A020       TCGA-AG-A026       TCGA-AG-A02G 
"STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" 
      TCGA-AG-A02N       TCGA-AG-A02X       TCGA-AG-A036       TCGA-AH-6544 
"STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" 
      TCGA-AH-6547       TCGA-AH-6549       TCGA-AH-6643       TCGA-AH-6644 
"STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" 
      TCGA-CI-6621       TCGA-CL-5918       TCGA-DC-5337       TCGA-DC-5869 
"STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" 
      TCGA-DC-6155       TCGA-DC-6157       TCGA-DC-6158       TCGA-DC-6160 
"STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" 
      TCGA-DC-6682       TCGA-DC-6683       TCGA-DT-5265       TCGA-DY-A0XA 
"STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" 
      TCGA-DY-A1DC       TCGA-DY-A1DD       TCGA-DY-A1DF       TCGA-DY-A1DG 
"STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" 
      TCGA-DY-A1H8       TCGA-EF-5830       TCGA-EI-6506       TCGA-EI-6507 
"STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" 
      TCGA-EI-6508       TCGA-EI-6510       TCGA-F5-6464       TCGA-F5-6465 
"STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" 
      TCGA-F5-6571       TCGA-F5-6702       TCGA-F5-6811       TCGA-F5-6812 
"STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" 
      TCGA-F5-6813       TCGA-G5-6235       TCGA-G5-6641 
"STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  STK32B MUTATED        0      1      0      0      1      0
  STK32B WILD-TYPE     23     17     24      4     19      8
D39V6, multiclass
[1] "Remove cluster labels:" "STK32B MUTATED"        
clus
  STK32B MUTATED STK32B WILD-TYPE 
               2               95 
      TCGA-AF-2689       TCGA-AF-3400       TCGA-AF-3913       TCGA-AF-5654 
"STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" 
      TCGA-AF-6136       TCGA-AF-6655       TCGA-AF-6672       TCGA-AG-3574 
"STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" 
      TCGA-AG-3578       TCGA-AG-3580       TCGA-AG-3581       TCGA-AG-3582 
"STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" 
      TCGA-AG-3583       TCGA-AG-3584       TCGA-AG-3586       TCGA-AG-3587 
"STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" 
      TCGA-AG-3593       TCGA-AG-3594       TCGA-AG-3598       TCGA-AG-3599 
"STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" 
      TCGA-AG-3600       TCGA-AG-3601       TCGA-AG-3602       TCGA-AG-3605 
"STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" 
      TCGA-AG-3609       TCGA-AG-3612       TCGA-AG-3727       TCGA-AG-3731 
"STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" 
      TCGA-AG-3742       TCGA-AG-3878       TCGA-AG-3881       TCGA-AG-3882 
"STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" 
      TCGA-AG-3885       TCGA-AG-3893       TCGA-AG-3896       TCGA-AG-3898 
"STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" 
      TCGA-AG-3901       TCGA-AG-3902       TCGA-AG-4001       TCGA-AG-4005 
"STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" 
      TCGA-AG-4007       TCGA-AG-4008       TCGA-AG-4015       TCGA-AG-A002 
"STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" 
      TCGA-AG-A008       TCGA-AG-A00C       TCGA-AG-A00H       TCGA-AG-A00Y 
"STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" 
      TCGA-AG-A011       TCGA-AG-A014       TCGA-AG-A015       TCGA-AG-A016 
"STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" 
      TCGA-AG-A01W       TCGA-AG-A020       TCGA-AG-A026       TCGA-AG-A02G 
"STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" 
      TCGA-AG-A02N       TCGA-AG-A02X       TCGA-AG-A036       TCGA-AH-6544 
"STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" 
      TCGA-AH-6547       TCGA-AH-6549       TCGA-AH-6643       TCGA-AH-6644 
"STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" 
      TCGA-CI-6621       TCGA-CL-5918       TCGA-DC-5337       TCGA-DC-5869 
"STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" 
      TCGA-DC-6155       TCGA-DC-6157       TCGA-DC-6158       TCGA-DC-6160 
"STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" 
      TCGA-DC-6682       TCGA-DC-6683       TCGA-DT-5265       TCGA-DY-A0XA 
"STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" 
      TCGA-DY-A1DC       TCGA-DY-A1DD       TCGA-DY-A1DF       TCGA-DY-A1DG 
"STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" 
      TCGA-DY-A1H8       TCGA-EF-5830       TCGA-EI-6506       TCGA-EI-6507 
"STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" 
      TCGA-EI-6508       TCGA-EI-6510       TCGA-F5-6464       TCGA-F5-6465 
"STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" 
      TCGA-F5-6571       TCGA-F5-6702       TCGA-F5-6811       TCGA-F5-6812 
"STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" 
      TCGA-F5-6813       TCGA-G5-6235       TCGA-G5-6641 
"STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  STK32B MUTATED        1      2      0      0      1
  STK32B WILD-TYPE     15     11     22     13     56
D39V7, multiclass
        clus
vv       STK32B MUTATED STK32B WILD-TYPE
  CLUS_1              1               15
  CLUS_2              2               11
  CLUS_3              0               22
  CLUS_4              0               13
  CLUS_5              1               56
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  STK32B MUTATED        0      3      0      0      1      0      0
  STK32B WILD-TYPE     11     20      8     12     31     18     17
D39V8, multiclass
        clus
vv       STK32B MUTATED STK32B WILD-TYPE
  CLUS_1              0               11
  CLUS_2              3               20
  CLUS_3              0                8
  CLUS_4              0               12
  CLUS_5              1               31
  CLUS_6              0               18
  CLUS_7              0               17
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  STK32B MUTATED        1      2      0      1      0
  STK32B WILD-TYPE     12     26     14      7     55
D39V9, multiclass
        clus
vv       STK32B MUTATED STK32B WILD-TYPE
  CLUS_1              1               12
  CLUS_2              2               26
  CLUS_3              0               14
  CLUS_4              1                7
  CLUS_5              0               55
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  STK32B MUTATED        1      3      0
  STK32B WILD-TYPE     19     41     54
D39V10, multiclass
        clus
vv       STK32B MUTATED STK32B WILD-TYPE
  CLUS_1              1               19
  CLUS_2              3               41
  CLUS_3              0               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
  STK32B MUTATED        0      1      0      0
  STK32B WILD-TYPE      8      6     13      8
D39V11, multiclass
[1] "Remove cluster labels:" "STK32B MUTATED"        
clus
  STK32B MUTATED STK32B WILD-TYPE 
               1               35 
      TCGA-AF-2687       TCGA-AF-4110       TCGA-AF-6655       TCGA-AF-6672 
"STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" 
      TCGA-AG-3731       TCGA-AG-3732       TCGA-AH-6544       TCGA-AH-6547 
"STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" 
      TCGA-AH-6549       TCGA-AH-6643       TCGA-CI-6619       TCGA-CI-6620 
"STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" 
      TCGA-CI-6621       TCGA-CI-6624       TCGA-CL-5918       TCGA-DC-5337 
"STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" 
      TCGA-DC-5869       TCGA-DC-6157       TCGA-DC-6158       TCGA-DC-6682 
"STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" 
      TCGA-DC-6683       TCGA-DY-A1DC       TCGA-DY-A1DD       TCGA-DY-A1DG 
"STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" 
      TCGA-DY-A1H8       TCGA-EI-6506       TCGA-EI-6507       TCGA-F5-6464 
"STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" 
      TCGA-F5-6465       TCGA-F5-6571       TCGA-F5-6702       TCGA-F5-6811 
"STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" 
      TCGA-F5-6812       TCGA-G5-6235       TCGA-G5-6641 
"STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  STK32B MUTATED        0      1      0      0      0
  STK32B WILD-TYPE      8      8     12      5      2
D39V12, multiclass
[1] "Remove cluster labels:" "STK32B MUTATED"        
clus
  STK32B MUTATED STK32B WILD-TYPE 
               1               35 
      TCGA-AF-2687       TCGA-AF-4110       TCGA-AF-6655       TCGA-AF-6672 
"STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" 
      TCGA-AG-3731       TCGA-AG-3732       TCGA-AH-6544       TCGA-AH-6547 
"STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" 
      TCGA-AH-6549       TCGA-AH-6643       TCGA-CI-6619       TCGA-CI-6620 
"STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" 
      TCGA-CI-6621       TCGA-CI-6624       TCGA-CL-5918       TCGA-DC-5337 
"STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" 
      TCGA-DC-5869       TCGA-DC-6157       TCGA-DC-6158       TCGA-DC-6682 
"STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" 
      TCGA-DC-6683       TCGA-DY-A1DC       TCGA-DY-A1DD       TCGA-DY-A1DG 
"STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" 
      TCGA-DY-A1H8       TCGA-EI-6506       TCGA-EI-6507       TCGA-F5-6464 
"STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" 
      TCGA-F5-6465       TCGA-F5-6571       TCGA-F5-6702       TCGA-F5-6811 
"STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" 
      TCGA-F5-6812       TCGA-G5-6235       TCGA-G5-6641 
"STK32B WILD-TYPE" "STK32B WILD-TYPE" "STK32B WILD-TYPE" 
