[1] "terrence_modification_tag"
[1] TRUE
[1] "nver"         "-nVNozzle.R1"
[1] "nfn"                                 "/xchip/tcga/Tools/Nozzle/v1.current"
[1] "Nozzle.R1"
[1] "successfully load Nozzle.R1"
[1] "ofn"            "-oTCOADREAD-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/COADREAD-TP/11592014/COADREAD-TP.transferedmergedcluster.txt"
[1] "dfn:"
[1] "/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_Correlate_Genomic_Events_Preprocess/COADREAD-TP/10686949/transformed.cor.cli.txt"

nPatients in clinical file=628, in cluster file=223, common to both=223
[1]  46 223
[1] "APC MUTATION ANALYSIS"
[1] 3
  APC MUTATED APC WILD-TYPE 
          163            60 
  APC MUTATED APC WILD-TYPE 
          163            60 
[1] "TP53 MUTATION ANALYSIS"
[1] 3
  TP53 MUTATED TP53 WILD-TYPE 
           117            106 
  TP53 MUTATED TP53 WILD-TYPE 
           117            106 
[1] "KRAS MUTATION ANALYSIS"
[1] 3
  KRAS MUTATED KRAS WILD-TYPE 
            97            126 
  KRAS MUTATED KRAS WILD-TYPE 
            97            126 
[1] "NRAS MUTATION ANALYSIS"
[1] 3
  NRAS MUTATED NRAS WILD-TYPE 
            20            203 
  NRAS MUTATED NRAS WILD-TYPE 
            20            203 
[1] "SMAD4 MUTATION ANALYSIS"
[1] 3
  SMAD4 MUTATED SMAD4 WILD-TYPE 
             26             197 
  SMAD4 MUTATED SMAD4 WILD-TYPE 
             26             197 
[1] "FBXW7 MUTATION ANALYSIS"
[1] 3
  FBXW7 MUTATED FBXW7 WILD-TYPE 
             38             185 
  FBXW7 MUTATED FBXW7 WILD-TYPE 
             38             185 
[1] "SMAD2 MUTATION ANALYSIS"
[1] 3
  SMAD2 MUTATED SMAD2 WILD-TYPE 
             15             208 
  SMAD2 MUTATED SMAD2 WILD-TYPE 
             15             208 
[1] "FAM123B MUTATION ANALYSIS"
[1] 3
  FAM123B MUTATED FAM123B WILD-TYPE 
               24               199 
  FAM123B MUTATED FAM123B WILD-TYPE 
               24               199 
[1] "PIK3CA MUTATION ANALYSIS"
[1] 3
  PIK3CA MUTATED PIK3CA WILD-TYPE 
              33              190 
  PIK3CA MUTATED PIK3CA WILD-TYPE 
              33              190 
[1] "TCF7L2 MUTATION ANALYSIS"
[1] 3
  TCF7L2 MUTATED TCF7L2 WILD-TYPE 
              18              205 
  TCF7L2 MUTATED TCF7L2 WILD-TYPE 
              18              205 
[1] "ARID1A MUTATION ANALYSIS"
[1] 3
  ARID1A MUTATED ARID1A WILD-TYPE 
              20              203 
  ARID1A MUTATED ARID1A WILD-TYPE 
              20              203 
[1] "BRAF MUTATION ANALYSIS"
[1] 3
  BRAF MUTATED BRAF WILD-TYPE 
            21            202 
  BRAF MUTATED BRAF WILD-TYPE 
            21            202 
[1] "MGC42105 MUTATION ANALYSIS"
[1] 3
  MGC42105 MUTATED MGC42105 WILD-TYPE 
                11                212 
  MGC42105 MUTATED MGC42105 WILD-TYPE 
                11                212 
[1] "ACVR1B MUTATION ANALYSIS"
[1] 3
  ACVR1B MUTATED ACVR1B WILD-TYPE 
              14              209 
  ACVR1B MUTATED ACVR1B WILD-TYPE 
              14              209 
[1] "CDC27 MUTATION ANALYSIS"
[1] 3
  CDC27 MUTATED CDC27 WILD-TYPE 
             13             210 
  CDC27 MUTATED CDC27 WILD-TYPE 
             13             210 
[1] "KIAA1804 MUTATION ANALYSIS"
[1] 3
  KIAA1804 MUTATED KIAA1804 WILD-TYPE 
                15                208 
  KIAA1804 MUTATED KIAA1804 WILD-TYPE 
                15                208 
[1] "PCDHGB1 MUTATION ANALYSIS"
[1] 3
  PCDHGB1 MUTATED PCDHGB1 WILD-TYPE 
                8               215 
  PCDHGB1 MUTATED PCDHGB1 WILD-TYPE 
                8               215 
[1] "PCBP1 MUTATION ANALYSIS"
[1] 3
  PCBP1 MUTATED PCBP1 WILD-TYPE 
              5             218 
  PCBP1 MUTATED PCBP1 WILD-TYPE 
              5             218 
[1] "ZHX2 MUTATION ANALYSIS"
[1] 3
  ZHX2 MUTATED ZHX2 WILD-TYPE 
            10            213 
  ZHX2 MUTATED ZHX2 WILD-TYPE 
            10            213 
[1] "PCDHA3 MUTATION ANALYSIS"
[1] 3
  PCDHA3 MUTATED PCDHA3 WILD-TYPE 
              12              211 
  PCDHA3 MUTATED PCDHA3 WILD-TYPE 
              12              211 
[1] "PCDHA2 MUTATION ANALYSIS"
[1] 3
  PCDHA2 MUTATED PCDHA2 WILD-TYPE 
              12              211 
  PCDHA2 MUTATED PCDHA2 WILD-TYPE 
              12              211 
[1] "ELF3 MUTATION ANALYSIS"
[1] 3
  ELF3 MUTATED ELF3 WILD-TYPE 
             8            215 
  ELF3 MUTATED ELF3 WILD-TYPE 
             8            215 
[1] "CRTC1 MUTATION ANALYSIS"
[1] 3
  CRTC1 MUTATED CRTC1 WILD-TYPE 
              4             219 
  CRTC1 MUTATED CRTC1 WILD-TYPE 
              4             219 
[1] "CASP8 MUTATION ANALYSIS"
[1] 3
  CASP8 MUTATED CASP8 WILD-TYPE 
             10             213 
  CASP8 MUTATED CASP8 WILD-TYPE 
             10             213 
[1] "CACNG3 MUTATION ANALYSIS"
[1] 3
  CACNG3 MUTATED CACNG3 WILD-TYPE 
               8              215 
  CACNG3 MUTATED CACNG3 WILD-TYPE 
               8              215 
[1] "PCDHGA7 MUTATION ANALYSIS"
[1] 3
  PCDHGA7 MUTATED PCDHGA7 WILD-TYPE 
                5               218 
  PCDHGA7 MUTATED PCDHGA7 WILD-TYPE 
                5               218 
[1] "CCBP2 MUTATION ANALYSIS"
[1] 3
  CCBP2 MUTATED CCBP2 WILD-TYPE 
             10             213 
  CCBP2 MUTATED CCBP2 WILD-TYPE 
             10             213 
[1] "MAP2K4 MUTATION ANALYSIS"
[1] 3
  MAP2K4 MUTATED MAP2K4 WILD-TYPE 
              11              212 
  MAP2K4 MUTATED MAP2K4 WILD-TYPE 
              11              212 
[1] "PCDHGA9 MUTATION ANALYSIS"
[1] 3
  PCDHGA9 MUTATED PCDHGA9 WILD-TYPE 
                6               217 
  PCDHGA9 MUTATED PCDHGA9 WILD-TYPE 
                6               217 
[1] "RBM10 MUTATION ANALYSIS"
[1] 3
  RBM10 MUTATED RBM10 WILD-TYPE 
              8             215 
  RBM10 MUTATED RBM10 WILD-TYPE 
              8             215 
[1] "PTEN MUTATION ANALYSIS"
[1] 3
  PTEN MUTATED PTEN WILD-TYPE 
             7            216 
  PTEN MUTATED PTEN WILD-TYPE 
             7            216 
[1] "DNMT1 MUTATION ANALYSIS"
[1] 3
  DNMT1 MUTATED DNMT1 WILD-TYPE 
             17             206 
  DNMT1 MUTATED DNMT1 WILD-TYPE 
             17             206 
[1] "BCOR MUTATION ANALYSIS"
[1] 3
  BCOR MUTATED BCOR WILD-TYPE 
             9            214 
  BCOR MUTATED BCOR WILD-TYPE 
             9            214 
[1] "PCDHGB5 MUTATION ANALYSIS"
[1] 3
  PCDHGB5 MUTATED PCDHGB5 WILD-TYPE 
                7               216 
  PCDHGB5 MUTATED PCDHGB5 WILD-TYPE 
                7               216 
[1] "ZFP3 MUTATION ANALYSIS"
[1] 3
  ZFP3 MUTATED ZFP3 WILD-TYPE 
             8            215 
  ZFP3 MUTATED ZFP3 WILD-TYPE 
             8            215 
[1] "RWDD2B MUTATION ANALYSIS"
[1] 3
  RWDD2B MUTATED RWDD2B WILD-TYPE 
               7              216 
  RWDD2B MUTATED RWDD2B WILD-TYPE 
               7              216 
[1] "TBC1D10C MUTATION ANALYSIS"
[1] 3
  TBC1D10C MUTATED TBC1D10C WILD-TYPE 
                 3                220 
  TBC1D10C MUTATED TBC1D10C WILD-TYPE 
                 3                220 
[1] "ERCC6L MUTATION ANALYSIS"
[1] 3
  ERCC6L MUTATED ERCC6L WILD-TYPE 
               5              218 
  ERCC6L MUTATED ERCC6L WILD-TYPE 
               5              218 
[1] "ERBB3 MUTATION ANALYSIS"
[1] 3
  ERBB3 MUTATED ERBB3 WILD-TYPE 
             14             209 
  ERBB3 MUTATED ERBB3 WILD-TYPE 
             14             209 
[1] "KLK2 MUTATION ANALYSIS"
[1] 3
  KLK2 MUTATED KLK2 WILD-TYPE 
             3            220 
  KLK2 MUTATED KLK2 WILD-TYPE 
             3            220 
[1] "TAPBP MUTATION ANALYSIS"
[1] 3
  TAPBP MUTATED TAPBP WILD-TYPE 
              5             218 
  TAPBP MUTATED TAPBP WILD-TYPE 
              5             218 
[1] "ERBB2 MUTATION ANALYSIS"
[1] 3
  ERBB2 MUTATED ERBB2 WILD-TYPE 
              9             214 
  ERBB2 MUTATED ERBB2 WILD-TYPE 
              9             214 
[1] "MORC2 MUTATION ANALYSIS"
[1] 3
  MORC2 MUTATED MORC2 WILD-TYPE 
              5             218 
  MORC2 MUTATED MORC2 WILD-TYPE 
              5             218 
[1] "ABCA8 MUTATION ANALYSIS"
[1] 3
  ABCA8 MUTATED ABCA8 WILD-TYPE 
             12             211 
  ABCA8 MUTATED ABCA8 WILD-TYPE 
             12             211 
[1] "SETD2 MUTATION ANALYSIS"
[1] 3
  SETD2 MUTATED SETD2 WILD-TYPE 
             13             210 
  SETD2 MUTATED SETD2 WILD-TYPE 
             13             210 
[1] "ESR1 MUTATION ANALYSIS"
[1] 3
  ESR1 MUTATED ESR1 WILD-TYPE 
            11            212 
  ESR1 MUTATED ESR1 WILD-TYPE 
            11            212 
[1] "terrence_modification_tag"
[1] TRUE
[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 223 columns.

Variable 1:'MRNA_CNMF':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 2:'MRNA_CHIERARCHICAL':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 3:'CN_CNMF':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 4:'METHLYATION_CNMF':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 5:'RPPA_CNMF':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 6:'RPPA_CHIERARCHICAL':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 7:'MRNASEQ_CNMF':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 8:'MRNASEQ_CHIERARCHICAL':	nDistinctValues=7,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 9:'MIRSEQ_CNMF':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 10:'MIRSEQ_CHIERARCHICAL':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 11:'MIRSEQ_MATURE_CNMF':	nDistinctValues=0,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 12:'MIRSEQ_MATURE_CHIERARCHICAL':	nDistinctValues=0,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
[1] "rownames(nsurv.mat)"
 [1] "MRNA_CNMF"             "MRNA_CHIERARCHICAL"    "CN_CNMF"              
 [4] "METHLYATION_CNMF"      "RPPA_CNMF"             "RPPA_CHIERARCHICAL"   
 [7] "MRNASEQ_CNMF"          "MRNASEQ_CHIERARCHICAL" "MIRSEQ_CNMF"          
[10] "MIRSEQ_CHIERARCHICAL" 
[1] "TUMOR.?STAGE"
[1] "TUMOR.?GRADE"
[1] "PATHOLOGY.T"
[1] "PATHOLOGY.N"
Output Data has 223 columns, 0 survival variables, and 10 non-survival variables.
MRNA_CNMF, nv=4, binary=FALSE, numeric=FALSE
MRNA_CHIERARCHICAL, nv=4, binary=FALSE, numeric=FALSE
CN_CNMF, nv=3, binary=FALSE, numeric=FALSE
METHLYATION_CNMF, nv=3, binary=FALSE, numeric=FALSE
RPPA_CNMF, nv=4, binary=FALSE, numeric=FALSE
RPPA_CHIERARCHICAL, nv=3, binary=FALSE, numeric=FALSE
MRNASEQ_CNMF, nv=4, binary=FALSE, numeric=FALSE
MRNASEQ_CHIERARCHICAL, nv=7, binary=FALSE, numeric=FALSE
MIRSEQ_CNMF, nv=3, binary=FALSE, numeric=FALSE
MIRSEQ_CHIERARCHICAL, nv=3, binary=FALSE, numeric=FALSE

Clustering(1) Variable = APC MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  APC MUTATED       21     45     52     31
  APC WILD-TYPE     21     12     15      8
D1V1, multiclass
        clus
vv       APC MUTATED APC WILD-TYPE
  CLUS_1          21            21
  CLUS_2          45            12
  CLUS_3          52            15
  CLUS_4          31             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
  APC MUTATED       26     31     51     41
  APC WILD-TYPE     22      6     22      6
D1V2, multiclass
        clus
vv       APC MUTATED APC WILD-TYPE
  CLUS_1          26            22
  CLUS_2          31             6
  CLUS_3          51            22
  CLUS_4          41             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
  APC MUTATED       55     62     43
  APC WILD-TYPE     32     17     11
D1V3, multiclass
        clus
vv       APC MUTATED APC WILD-TYPE
  CLUS_1          55            32
  CLUS_2          62            17
  CLUS_3          43            11
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  APC MUTATED        1      5      2
  APC WILD-TYPE      0      0      0
D1V4, multiclass
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  APC MUTATED       33     45     16     20
  APC WILD-TYPE      7     22      8      6
D1V5, multiclass
        clus
vv       APC MUTATED APC WILD-TYPE
  CLUS_1          33             7
  CLUS_2          45            22
  CLUS_3          16             8
  CLUS_4          20             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
  APC MUTATED       10     87     17
  APC WILD-TYPE      1     39      3
D1V6, multiclass
        clus
vv       APC MUTATED APC WILD-TYPE
  CLUS_1          10             1
  CLUS_2          87            39
  CLUS_3          17             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
  APC MUTATED        9      4     22    126
  APC WILD-TYPE      5      2      7     45
D1V7, multiclass
        clus
vv       APC MUTATED APC WILD-TYPE
  CLUS_1           9             5
  CLUS_2           4             2
  CLUS_3          22             7
  CLUS_4         126            45
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  APC MUTATED        1      3      1      0    101     14     41
  APC WILD-TYPE      0      2      0      1     29     21      6
D1V8, multiclass
        clus
vv       APC MUTATED APC WILD-TYPE
  CLUS_1           1             0
  CLUS_2           3             2
  CLUS_3           1             0
  CLUS_4           0             1
  CLUS_5         101            29
  CLUS_6          14            21
  CLUS_7          41             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
  APC MUTATED        3      6    143
  APC WILD-TYPE      0      3     51
D1V9, multiclass
        clus
vv       APC MUTATED APC WILD-TYPE
  CLUS_1           3             0
  CLUS_2           6             3
  CLUS_3         143            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
  APC MUTATED        6     45    101
  APC WILD-TYPE      1     17     36
D1V10, multiclass
        clus
vv       APC MUTATED APC WILD-TYPE
  CLUS_1           6             1
  CLUS_2          45            17
  CLUS_3         101            36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(2) Variable = TP53 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TP53 MUTATED       17     40     37     14
  TP53 WILD-TYPE     25     17     30     25
D2V1, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1           17             25
  CLUS_2           40             17
  CLUS_3           37             30
  CLUS_4           14             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 CLUS_4
  TP53 MUTATED       15     25     36     32
  TP53 WILD-TYPE     33     12     37     15
D2V2, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1           15             33
  CLUS_2           25             12
  CLUS_3           36             37
  CLUS_4           32             15
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TP53 MUTATED       22     60     33
  TP53 WILD-TYPE     65     19     21
D2V3, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1           22             65
  CLUS_2           60             19
  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
  TP53 MUTATED        1      4      2
  TP53 WILD-TYPE      0      1      0
D2V4, multiclass
[1] "Remove cluster labels:" "TP53 WILD-TYPE"        
clus
  TP53 MUTATED TP53 WILD-TYPE 
             7              1 
  TCGA-A6-3810   TCGA-AG-A01W   TCGA-AG-A01Y   TCGA-AG-A020   TCGA-AG-A026 
"TP53 MUTATED" "TP53 MUTATED" "TP53 MUTATED" "TP53 MUTATED" "TP53 MUTATED" 
  TCGA-AG-A02N   TCGA-AG-A036 
"TP53 MUTATED" "TP53 MUTATED" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TP53 MUTATED       18     34     14     12
  TP53 WILD-TYPE     22     33     10     14
D2V5, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1           18             22
  CLUS_2           34             33
  CLUS_3           14             10
  CLUS_4           12             14
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TP53 MUTATED        6     62     10
  TP53 WILD-TYPE      5     64     10
D2V6, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1            6              5
  CLUS_2           62             64
  CLUS_3           10             10
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TP53 MUTATED        8      1     10     96
  TP53 WILD-TYPE      6      5     19     75
D2V7, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1            8              6
  CLUS_2            1              5
  CLUS_3           10             19
  CLUS_4           96             75
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  TP53 MUTATED        0      4      0      0     83      8     20
  TP53 WILD-TYPE      1      1      1      1     47     27     27
D2V8, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1            0              1
  CLUS_2            4              1
  CLUS_3            0              1
  CLUS_4            0              1
  CLUS_5           83             47
  CLUS_6            8             27
  CLUS_7           20             27
[1] 7 2
[1] TRUE
[1] "dimension of contingency table 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        3      2    104
  TP53 WILD-TYPE      0      7     90
D2V9, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1            3              0
  CLUS_2            2              7
  CLUS_3          104             90
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TP53 MUTATED        5     28     76
  TP53 WILD-TYPE      2     34     61
D2V10, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1            5              2
  CLUS_2           28             34
  CLUS_3           76             61
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(3) Variable = KRAS MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KRAS MUTATED       13     15     31     27
  KRAS WILD-TYPE     29     42     36     12
D3V1, multiclass
        clus
vv       KRAS MUTATED KRAS WILD-TYPE
  CLUS_1           13             29
  CLUS_2           15             42
  CLUS_3           31             36
  CLUS_4           27             12
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger 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       20      9     44     13
  KRAS WILD-TYPE     28     28     29     34
D3V2, multiclass
        clus
vv       KRAS MUTATED KRAS WILD-TYPE
  CLUS_1           20             28
  CLUS_2            9             28
  CLUS_3           44             29
  CLUS_4           13             34
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  KRAS MUTATED       44     30     22
  KRAS WILD-TYPE     43     49     32
D3V3, multiclass
        clus
vv       KRAS MUTATED KRAS WILD-TYPE
  CLUS_1           44             43
  CLUS_2           30             49
  CLUS_3           22             32
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  KRAS MUTATED        0      1      2
  KRAS WILD-TYPE      1      4      0
D3V4, multiclass
        clus
vv       KRAS MUTATED KRAS WILD-TYPE
  CLUS_1            0              1
  CLUS_2            1              4
  CLUS_3            2              0
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger 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       16     34      9     13
  KRAS WILD-TYPE     24     33     15     13
D3V5, multiclass
        clus
vv       KRAS MUTATED KRAS WILD-TYPE
  CLUS_1           16             24
  CLUS_2           34             33
  CLUS_3            9             15
  CLUS_4           13             13
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  KRAS MUTATED        5     57     10
  KRAS WILD-TYPE      6     69     10
D3V6, multiclass
        clus
vv       KRAS MUTATED KRAS WILD-TYPE
  CLUS_1            5              6
  CLUS_2           57             69
  CLUS_3           10             10
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KRAS MUTATED        2      3     20     69
  KRAS WILD-TYPE     12      3      9    102
D3V7, multiclass
        clus
vv       KRAS MUTATED KRAS WILD-TYPE
  CLUS_1            2             12
  CLUS_2            3              3
  CLUS_3           20              9
  CLUS_4           69            102
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  KRAS MUTATED        0      3      1      0     43     10     37
  KRAS WILD-TYPE      1      2      0      1     87     25     10
D3V8, multiclass
        clus
vv       KRAS MUTATED KRAS WILD-TYPE
  CLUS_1            0              1
  CLUS_2            3              2
  CLUS_3            1              0
  CLUS_4            0              1
  CLUS_5           43             87
  CLUS_6           10             25
  CLUS_7           37             10
[1] 7 2
[1] TRUE
[1] "dimension of contingency table 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        0      7     80
  KRAS WILD-TYPE      3      2    114
D3V9, multiclass
        clus
vv       KRAS MUTATED KRAS WILD-TYPE
  CLUS_1            0              3
  CLUS_2            7              2
  CLUS_3           80            114
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  KRAS MUTATED        3     20     64
  KRAS WILD-TYPE      4     42     73
D3V10, multiclass
        clus
vv       KRAS MUTATED KRAS WILD-TYPE
  CLUS_1            3              4
  CLUS_2           20             42
  CLUS_3           64             73
[1] 3 2
[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 = NRAS MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NRAS MUTATED        0      8      6      5
  NRAS WILD-TYPE     42     49     61     34
D4V1, multiclass
        clus
vv       NRAS MUTATED NRAS WILD-TYPE
  CLUS_1            0             42
  CLUS_2            8             49
  CLUS_3            6             61
  CLUS_4            5             34
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NRAS MUTATED        2      4     12      1
  NRAS WILD-TYPE     46     33     61     46
D4V2, multiclass
        clus
vv       NRAS MUTATED NRAS WILD-TYPE
  CLUS_1            2             46
  CLUS_2            4             33
  CLUS_3           12             61
  CLUS_4            1             46
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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       10      9      1
  NRAS WILD-TYPE     77     70     53
D4V3, multiclass
        clus
vv       NRAS MUTATED NRAS WILD-TYPE
  CLUS_1           10             77
  CLUS_2            9             70
  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
  NRAS MUTATED        0      0      0
  NRAS WILD-TYPE      1      5      2
D4V4, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NRAS MUTATED        3      7      1      2
  NRAS WILD-TYPE     37     60     23     24
D4V5, multiclass
        clus
vv       NRAS MUTATED NRAS WILD-TYPE
  CLUS_1            3             37
  CLUS_2            7             60
  CLUS_3            1             23
  CLUS_4            2             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
  NRAS MUTATED        0     11      2
  NRAS WILD-TYPE     11    115     18
D4V6, multiclass
        clus
vv       NRAS MUTATED NRAS WILD-TYPE
  CLUS_1            0             11
  CLUS_2           11            115
  CLUS_3            2             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
  NRAS MUTATED        1      0      5     13
  NRAS WILD-TYPE     13      6     24    158
D4V7, multiclass
        clus
vv       NRAS MUTATED NRAS WILD-TYPE
  CLUS_1            1             13
  CLUS_2            0              6
  CLUS_3            5             24
  CLUS_4           13            158
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  NRAS MUTATED        0      0      0      0     12      0      7
  NRAS WILD-TYPE      1      5      1      1    118     35     40
D4V8, multiclass
        clus
vv       NRAS MUTATED NRAS WILD-TYPE
  CLUS_1            0              1
  CLUS_2            0              5
  CLUS_3            0              1
  CLUS_4            0              1
  CLUS_5           12            118
  CLUS_6            0             35
  CLUS_7            7             40
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NRAS MUTATED        1      0     17
  NRAS WILD-TYPE      2      9    177
D4V9, multiclass
        clus
vv       NRAS MUTATED NRAS WILD-TYPE
  CLUS_1            1              2
  CLUS_2            0              9
  CLUS_3           17            177
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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      5     12
  NRAS WILD-TYPE      6     57    125
D4V10, multiclass
        clus
vv       NRAS MUTATED NRAS WILD-TYPE
  CLUS_1            1              6
  CLUS_2            5             57
  CLUS_3           12            125
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(5) Variable = SMAD4 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SMAD4 MUTATED        7      4      4      9
  SMAD4 WILD-TYPE     35     53     63     30
D5V1, multiclass
        clus
vv       SMAD4 MUTATED SMAD4 WILD-TYPE
  CLUS_1             7              35
  CLUS_2             4              53
  CLUS_3             4              63
  CLUS_4             9              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 CLUS_4
  SMAD4 MUTATED        9      2     11      2
  SMAD4 WILD-TYPE     39     35     62     45
D5V2, multiclass
        clus
vv       SMAD4 MUTATED SMAD4 WILD-TYPE
  CLUS_1             9              39
  CLUS_2             2              35
  CLUS_3            11              62
  CLUS_4             2              45
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SMAD4 MUTATED       15      5      6
  SMAD4 WILD-TYPE     72     74     48
D5V3, multiclass
        clus
vv       SMAD4 MUTATED SMAD4 WILD-TYPE
  CLUS_1            15              72
  CLUS_2             5              74
  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
  SMAD4 MUTATED        0      1      0
  SMAD4 WILD-TYPE      1      4      2
D5V4, multiclass
[1] "Remove cluster labels:" "SMAD4 MUTATED"         
clus
  SMAD4 MUTATED SMAD4 WILD-TYPE 
              1               7 
     TCGA-A6-2677      TCGA-A6-3810      TCGA-AG-A01W      TCGA-AG-A01Y 
"SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" 
     TCGA-AG-A026      TCGA-AG-A02N      TCGA-AG-A036 
"SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SMAD4 MUTATED        4     10      4      3
  SMAD4 WILD-TYPE     36     57     20     23
D5V5, multiclass
        clus
vv       SMAD4 MUTATED SMAD4 WILD-TYPE
  CLUS_1             4              36
  CLUS_2            10              57
  CLUS_3             4              20
  CLUS_4             3              23
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SMAD4 MUTATED        1     18      2
  SMAD4 WILD-TYPE     10    108     18
D5V6, multiclass
        clus
vv       SMAD4 MUTATED SMAD4 WILD-TYPE
  CLUS_1             1              10
  CLUS_2            18             108
  CLUS_3             2              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
  SMAD4 MUTATED        0      1      4     20
  SMAD4 WILD-TYPE     14      5     25    151
D5V7, multiclass
        clus
vv       SMAD4 MUTATED SMAD4 WILD-TYPE
  CLUS_1             0              14
  CLUS_2             1               5
  CLUS_3             4              25
  CLUS_4            20             151
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  SMAD4 MUTATED        0      0      0      0      9      6     10
  SMAD4 WILD-TYPE      1      5      1      1    121     29     37
D5V8, multiclass
        clus
vv       SMAD4 MUTATED SMAD4 WILD-TYPE
  CLUS_1             0               1
  CLUS_2             0               5
  CLUS_3             0               1
  CLUS_4             0               1
  CLUS_5             9             121
  CLUS_6             6              29
  CLUS_7            10              37
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SMAD4 MUTATED        0      1     24
  SMAD4 WILD-TYPE      3      8    170
D5V9, multiclass
        clus
vv       SMAD4 MUTATED SMAD4 WILD-TYPE
  CLUS_1             0               3
  CLUS_2             1               8
  CLUS_3            24             170
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SMAD4 MUTATED        0      5     20
  SMAD4 WILD-TYPE      7     57    117
D5V10, multiclass
        clus
vv       SMAD4 MUTATED SMAD4 WILD-TYPE
  CLUS_1             0               7
  CLUS_2             5              57
  CLUS_3            20             117
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(6) Variable = FBXW7 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FBXW7 MUTATED       11      6      7      9
  FBXW7 WILD-TYPE     31     51     60     30
D6V1, multiclass
        clus
vv       FBXW7 MUTATED FBXW7 WILD-TYPE
  CLUS_1            11              31
  CLUS_2             6              51
  CLUS_3             7              60
  CLUS_4             9              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 CLUS_4
  FBXW7 MUTATED       15      4     10      4
  FBXW7 WILD-TYPE     33     33     63     43
D6V2, multiclass
        clus
vv       FBXW7 MUTATED FBXW7 WILD-TYPE
  CLUS_1            15              33
  CLUS_2             4              33
  CLUS_3            10              63
  CLUS_4             4              43
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FBXW7 MUTATED       24      5      9
  FBXW7 WILD-TYPE     63     74     45
D6V3, multiclass
        clus
vv       FBXW7 MUTATED FBXW7 WILD-TYPE
  CLUS_1            24              63
  CLUS_2             5              74
  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
  FBXW7 MUTATED        0      1      1
  FBXW7 WILD-TYPE      1      4      1
D6V4, multiclass
[1] "Remove cluster labels:" "FBXW7 MUTATED"         
clus
  FBXW7 MUTATED FBXW7 WILD-TYPE 
              2               6 
     TCGA-A6-3810      TCGA-AG-A01W      TCGA-AG-A01Y      TCGA-AG-A020 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-AG-A026      TCGA-AG-A036 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FBXW7 MUTATED        7      9      2     11
  FBXW7 WILD-TYPE     33     58     22     15
D6V5, multiclass
        clus
vv       FBXW7 MUTATED FBXW7 WILD-TYPE
  CLUS_1             7              33
  CLUS_2             9              58
  CLUS_3             2              22
  CLUS_4            11              15
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FBXW7 MUTATED        1     21      7
  FBXW7 WILD-TYPE     10    105     13
D6V6, multiclass
        clus
vv       FBXW7 MUTATED FBXW7 WILD-TYPE
  CLUS_1             1              10
  CLUS_2            21             105
  CLUS_3             7              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
  FBXW7 MUTATED        1      0     12     25
  FBXW7 WILD-TYPE     13      6     17    146
D6V7, multiclass
        clus
vv       FBXW7 MUTATED FBXW7 WILD-TYPE
  CLUS_1             1              13
  CLUS_2             0               6
  CLUS_3            12              17
  CLUS_4            25             146
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  FBXW7 MUTATED        1      1      0      0     12     15      9
  FBXW7 WILD-TYPE      0      4      1      1    118     20     38
D6V8, multiclass
        clus
vv       FBXW7 MUTATED FBXW7 WILD-TYPE
  CLUS_1             1               0
  CLUS_2             1               4
  CLUS_3             0               1
  CLUS_4             0               1
  CLUS_5            12             118
  CLUS_6            15              20
  CLUS_7             9              38
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FBXW7 MUTATED        0      0     36
  FBXW7 WILD-TYPE      3      9    158
D6V9, multiclass
        clus
vv       FBXW7 MUTATED FBXW7 WILD-TYPE
  CLUS_1             0               3
  CLUS_2             0               9
  CLUS_3            36             158
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FBXW7 MUTATED        3      5     28
  FBXW7 WILD-TYPE      4     57    109
D6V10, multiclass
        clus
vv       FBXW7 MUTATED FBXW7 WILD-TYPE
  CLUS_1             3               4
  CLUS_2             5              57
  CLUS_3            28             109
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(7) Variable = SMAD2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SMAD2 MUTATED        4      2      2      5
  SMAD2 WILD-TYPE     38     55     65     34
D7V1, multiclass
        clus
vv       SMAD2 MUTATED SMAD2 WILD-TYPE
  CLUS_1             4              38
  CLUS_2             2              55
  CLUS_3             2              65
  CLUS_4             5              34
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger 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        5      2      4      2
  SMAD2 WILD-TYPE     43     35     69     45
D7V2, multiclass
        clus
vv       SMAD2 MUTATED SMAD2 WILD-TYPE
  CLUS_1             5              43
  CLUS_2             2              35
  CLUS_3             4              69
  CLUS_4             2              45
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SMAD2 MUTATED       10      3      2
  SMAD2 WILD-TYPE     77     76     52
D7V3, multiclass
        clus
vv       SMAD2 MUTATED SMAD2 WILD-TYPE
  CLUS_1            10              77
  CLUS_2             3              76
  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
  SMAD2 MUTATED        0      0      1
  SMAD2 WILD-TYPE      1      5      1
D7V4, multiclass
[1] "Remove cluster labels:" "SMAD2 MUTATED"         
clus
  SMAD2 MUTATED SMAD2 WILD-TYPE 
              1               7 
     TCGA-A6-2677      TCGA-A6-3810      TCGA-AG-A01Y      TCGA-AG-A020 
"SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" 
     TCGA-AG-A026      TCGA-AG-A02N      TCGA-AG-A036 
"SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SMAD2 MUTATED        2      3      2      3
  SMAD2 WILD-TYPE     38     64     22     23
D7V5, multiclass
        clus
vv       SMAD2 MUTATED SMAD2 WILD-TYPE
  CLUS_1             2              38
  CLUS_2             3              64
  CLUS_3             2              22
  CLUS_4             3              23
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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      8      2
  SMAD2 WILD-TYPE     11    118     18
D7V6, multiclass
        clus
vv       SMAD2 MUTATED SMAD2 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             8             118
  CLUS_3             2              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
  SMAD2 MUTATED        0      0      3     12
  SMAD2 WILD-TYPE     14      6     26    159
D7V7, multiclass
        clus
vv       SMAD2 MUTATED SMAD2 WILD-TYPE
  CLUS_1             0              14
  CLUS_2             0               6
  CLUS_3             3              26
  CLUS_4            12             159
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will 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        1      0      0      0      6      0      8
  SMAD2 WILD-TYPE      0      5      1      1    124     35     39
D7V8, multiclass
        clus
vv       SMAD2 MUTATED SMAD2 WILD-TYPE
  CLUS_1             1               0
  CLUS_2             0               5
  CLUS_3             0               1
  CLUS_4             0               1
  CLUS_5             6             124
  CLUS_6             0              35
  CLUS_7             8              39
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SMAD2 MUTATED        0      0     14
  SMAD2 WILD-TYPE      3      9    180
D7V9, multiclass
        clus
vv       SMAD2 MUTATED SMAD2 WILD-TYPE
  CLUS_1             0               3
  CLUS_2             0               9
  CLUS_3            14             180
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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     11
  SMAD2 WILD-TYPE      7     59    126
D7V10, multiclass
        clus
vv       SMAD2 MUTATED SMAD2 WILD-TYPE
  CLUS_1             0               7
  CLUS_2             3              59
  CLUS_3            11             126
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(8) Variable = FAM123B MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FAM123B MUTATED        9      5      4      5
  FAM123B WILD-TYPE     33     52     63     34
D8V1, multiclass
        clus
vv       FAM123B MUTATED FAM123B WILD-TYPE
  CLUS_1               9                33
  CLUS_2               5                52
  CLUS_3               4                63
  CLUS_4               5                34
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FAM123B MUTATED        9      4      7      3
  FAM123B WILD-TYPE     39     33     66     44
D8V2, multiclass
        clus
vv       FAM123B MUTATED FAM123B WILD-TYPE
  CLUS_1               9                39
  CLUS_2               4                33
  CLUS_3               7                66
  CLUS_4               3                44
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  FAM123B MUTATED       16      5      2
  FAM123B WILD-TYPE     71     74     52
D8V3, multiclass
        clus
vv       FAM123B MUTATED FAM123B WILD-TYPE
  CLUS_1              16                71
  CLUS_2               5                74
  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
  FAM123B MUTATED        0      0      1
  FAM123B WILD-TYPE      1      5      1
D8V4, multiclass
[1] "Remove cluster labels:" "FAM123B MUTATED"       
clus
  FAM123B MUTATED FAM123B WILD-TYPE 
                1                 7 
       TCGA-A6-2677        TCGA-A6-3810        TCGA-AG-A01W        TCGA-AG-A01Y 
"FAM123B WILD-TYPE" "FAM123B WILD-TYPE" "FAM123B WILD-TYPE" "FAM123B WILD-TYPE" 
       TCGA-AG-A020        TCGA-AG-A026        TCGA-AG-A036 
"FAM123B WILD-TYPE" "FAM123B WILD-TYPE" "FAM123B WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FAM123B MUTATED        2      7      2      4
  FAM123B WILD-TYPE     38     60     22     22
D8V5, multiclass
        clus
vv       FAM123B MUTATED FAM123B WILD-TYPE
  CLUS_1               2                38
  CLUS_2               7                60
  CLUS_3               2                22
  CLUS_4               4                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
  FAM123B MUTATED        1     12      2
  FAM123B WILD-TYPE     10    114     18
D8V6, multiclass
        clus
vv       FAM123B MUTATED FAM123B WILD-TYPE
  CLUS_1               1                10
  CLUS_2              12               114
  CLUS_3               2                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
  FAM123B MUTATED        1      1      6     16
  FAM123B WILD-TYPE     13      5     23    155
D8V7, multiclass
        clus
vv       FAM123B MUTATED FAM123B WILD-TYPE
  CLUS_1               1                13
  CLUS_2               1                 5
  CLUS_3               6                23
  CLUS_4              16               155
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  FAM123B MUTATED        0      0      0      0     10      5      9
  FAM123B WILD-TYPE      1      5      1      1    120     30     38
D8V8, multiclass
        clus
vv       FAM123B MUTATED FAM123B WILD-TYPE
  CLUS_1               0                 1
  CLUS_2               0                 5
  CLUS_3               0                 1
  CLUS_4               0                 1
  CLUS_5              10               120
  CLUS_6               5                30
  CLUS_7               9                38
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  FAM123B MUTATED        0      1     22
  FAM123B WILD-TYPE      3      8    172
D8V9, multiclass
        clus
vv       FAM123B MUTATED FAM123B WILD-TYPE
  CLUS_1               0                 3
  CLUS_2               1                 8
  CLUS_3              22               172
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  FAM123B MUTATED        2      3     18
  FAM123B WILD-TYPE      5     59    119
D8V10, multiclass
        clus
vv       FAM123B MUTATED FAM123B WILD-TYPE
  CLUS_1               2                 5
  CLUS_2               3                59
  CLUS_3              18               119
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(9) Variable = PIK3CA MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PIK3CA MUTATED        8      4      7      7
  PIK3CA WILD-TYPE     34     53     60     32
D9V1, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1              8               34
  CLUS_2              4               53
  CLUS_3              7               60
  CLUS_4              7               32
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PIK3CA MUTATED        9      3     10      4
  PIK3CA WILD-TYPE     39     34     63     43
D9V2, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1              9               39
  CLUS_2              3               34
  CLUS_3             10               63
  CLUS_4              4               43
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PIK3CA MUTATED       23      5      4
  PIK3CA WILD-TYPE     64     74     50
D9V3, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1             23               64
  CLUS_2              5               74
  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
  PIK3CA MUTATED        0      1      1
  PIK3CA WILD-TYPE      1      4      1
D9V4, multiclass
[1] "Remove cluster labels:" "PIK3CA MUTATED"        
clus
  PIK3CA MUTATED PIK3CA WILD-TYPE 
               2                6 
      TCGA-A6-2677       TCGA-A6-3810       TCGA-AG-A01W       TCGA-AG-A01Y 
"PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" 
      TCGA-AG-A026       TCGA-AG-A036 
"PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PIK3CA MUTATED       11      9      1      6
  PIK3CA WILD-TYPE     29     58     23     20
D9V5, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1             11               29
  CLUS_2              9               58
  CLUS_3              1               23
  CLUS_4              6               20
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PIK3CA MUTATED        3     19      5
  PIK3CA WILD-TYPE      8    107     15
D9V6, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1              3                8
  CLUS_2             19              107
  CLUS_3              5               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 CLUS_4
  PIK3CA MUTATED        0      2      7     24
  PIK3CA WILD-TYPE     14      4     22    147
D9V7, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1              0               14
  CLUS_2              2                4
  CLUS_3              7               22
  CLUS_4             24              147
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will 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        0      1      0      0     11      5     16
  PIK3CA WILD-TYPE      1      4      1      1    119     30     31
D9V8, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1              0                1
  CLUS_2              1                4
  CLUS_3              0                1
  CLUS_4              0                1
  CLUS_5             11              119
  CLUS_6              5               30
  CLUS_7             16               31
[1] 7 2
[1] TRUE
[1] "dimension of contingency table 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        0      3     26
  PIK3CA WILD-TYPE      3      6    168
D9V9, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1              0                3
  CLUS_2              3                6
  CLUS_3             26              168
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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        1      7     21
  PIK3CA WILD-TYPE      6     55    116
D9V10, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1              1                6
  CLUS_2              7               55
  CLUS_3             21              116
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(10) Variable = TCF7L2 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TCF7L2 MUTATED        3      4      5      3
  TCF7L2 WILD-TYPE     39     53     62     36
D10V1, multiclass
        clus
vv       TCF7L2 MUTATED TCF7L2 WILD-TYPE
  CLUS_1              3               39
  CLUS_2              4               53
  CLUS_3              5               62
  CLUS_4              3               36
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TCF7L2 MUTATED        2      4      5      4
  TCF7L2 WILD-TYPE     46     33     68     43
D10V2, multiclass
        clus
vv       TCF7L2 MUTATED TCF7L2 WILD-TYPE
  CLUS_1              2               46
  CLUS_2              4               33
  CLUS_3              5               68
  CLUS_4              4               43
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TCF7L2 MUTATED        6      7      5
  TCF7L2 WILD-TYPE     81     72     49
D10V3, multiclass
        clus
vv       TCF7L2 MUTATED TCF7L2 WILD-TYPE
  CLUS_1              6               81
  CLUS_2              7               72
  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
  TCF7L2 MUTATED        0      0      0
  TCF7L2 WILD-TYPE      1      5      2
D10V4, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TCF7L2 MUTATED        3      5      1      3
  TCF7L2 WILD-TYPE     37     62     23     23
D10V5, multiclass
        clus
vv       TCF7L2 MUTATED TCF7L2 WILD-TYPE
  CLUS_1              3               37
  CLUS_2              5               62
  CLUS_3              1               23
  CLUS_4              3               23
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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      9      2
  TCF7L2 WILD-TYPE     10    117     18
D10V6, multiclass
        clus
vv       TCF7L2 MUTATED TCF7L2 WILD-TYPE
  CLUS_1              1               10
  CLUS_2              9              117
  CLUS_3              2               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
  TCF7L2 MUTATED        1      0      0     16
  TCF7L2 WILD-TYPE     13      6     29    155
D10V7, multiclass
        clus
vv       TCF7L2 MUTATED TCF7L2 WILD-TYPE
  CLUS_1              1               13
  CLUS_2              0                6
  CLUS_3              0               29
  CLUS_4             16              155
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will 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        0      0      0      0     12      2      3
  TCF7L2 WILD-TYPE      1      5      1      1    118     33     44
D10V8, multiclass
        clus
vv       TCF7L2 MUTATED TCF7L2 WILD-TYPE
  CLUS_1              0                1
  CLUS_2              0                5
  CLUS_3              0                1
  CLUS_4              0                1
  CLUS_5             12              118
  CLUS_6              2               33
  CLUS_7              3               44
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TCF7L2 MUTATED        0      0     15
  TCF7L2 WILD-TYPE      3      9    179
D10V9, multiclass
        clus
vv       TCF7L2 MUTATED TCF7L2 WILD-TYPE
  CLUS_1              0                3
  CLUS_2              0                9
  CLUS_3             15              179
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TCF7L2 MUTATED        2      4      9
  TCF7L2 WILD-TYPE      5     58    128
D10V10, multiclass
        clus
vv       TCF7L2 MUTATED TCF7L2 WILD-TYPE
  CLUS_1              2                5
  CLUS_2              4               58
  CLUS_3              9              128
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(11) Variable = ARID1A MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ARID1A MUTATED        9      3      3      4
  ARID1A WILD-TYPE     33     54     64     35
D11V1, multiclass
        clus
vv       ARID1A MUTATED ARID1A WILD-TYPE
  CLUS_1              9               33
  CLUS_2              3               54
  CLUS_3              3               64
  CLUS_4              4               35
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger 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        8      4      4      3
  ARID1A WILD-TYPE     40     33     69     44
D11V2, multiclass
        clus
vv       ARID1A MUTATED ARID1A WILD-TYPE
  CLUS_1              8               40
  CLUS_2              4               33
  CLUS_3              4               69
  CLUS_4              3               44
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ARID1A MUTATED       15      3      2
  ARID1A WILD-TYPE     72     76     52
D11V3, multiclass
        clus
vv       ARID1A MUTATED ARID1A WILD-TYPE
  CLUS_1             15               72
  CLUS_2              3               76
  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
  ARID1A MUTATED        0      0      0
  ARID1A WILD-TYPE      1      5      2
D11V4, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ARID1A MUTATED        4      6      2      3
  ARID1A WILD-TYPE     36     61     22     23
D11V5, multiclass
        clus
vv       ARID1A MUTATED ARID1A WILD-TYPE
  CLUS_1              4               36
  CLUS_2              6               61
  CLUS_3              2               22
  CLUS_4              3               23
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        0     12      3
  ARID1A WILD-TYPE     11    114     17
D11V6, multiclass
        clus
vv       ARID1A MUTATED ARID1A WILD-TYPE
  CLUS_1              0               11
  CLUS_2             12              114
  CLUS_3              3               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
  ARID1A MUTATED        1      0      2     17
  ARID1A WILD-TYPE     13      6     27    154
D11V7, multiclass
        clus
vv       ARID1A MUTATED ARID1A WILD-TYPE
  CLUS_1              1               13
  CLUS_2              0                6
  CLUS_3              2               27
  CLUS_4             17              154
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will 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        0      0      0      0     10      7      3
  ARID1A WILD-TYPE      1      5      1      1    120     28     44
D11V8, multiclass
        clus
vv       ARID1A MUTATED ARID1A WILD-TYPE
  CLUS_1              0                1
  CLUS_2              0                5
  CLUS_3              0                1
  CLUS_4              0                1
  CLUS_5             10              120
  CLUS_6              7               28
  CLUS_7              3               44
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ARID1A MUTATED        0      0     16
  ARID1A WILD-TYPE      3      9    178
D11V9, multiclass
        clus
vv       ARID1A MUTATED ARID1A WILD-TYPE
  CLUS_1              0                3
  CLUS_2              0                9
  CLUS_3             16              178
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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      8      6
  ARID1A WILD-TYPE      5     54    131
D11V10, multiclass
        clus
vv       ARID1A MUTATED ARID1A WILD-TYPE
  CLUS_1              2                5
  CLUS_2              8               54
  CLUS_3              6              131
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(12) Variable = BRAF MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  BRAF MUTATED       13      1      1      4
  BRAF WILD-TYPE     29     56     66     35
D12V1, multiclass
        clus
vv       BRAF MUTATED BRAF WILD-TYPE
  CLUS_1           13             29
  CLUS_2            1             56
  CLUS_3            1             66
  CLUS_4            4             35
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  BRAF MUTATED       15      1      3      0
  BRAF WILD-TYPE     33     36     70     47
D12V2, multiclass
        clus
vv       BRAF MUTATED BRAF WILD-TYPE
  CLUS_1           15             33
  CLUS_2            1             36
  CLUS_3            3             70
  CLUS_4            0             47
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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       17      0      4
  BRAF WILD-TYPE     70     79     50
D12V3, multiclass
        clus
vv       BRAF MUTATED BRAF WILD-TYPE
  CLUS_1           17             70
  CLUS_2            0             79
  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
  BRAF MUTATED        0      0      0
  BRAF WILD-TYPE      1      5      2
D12V4, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  BRAF MUTATED        3      4      4      1
  BRAF WILD-TYPE     37     63     20     25
D12V5, multiclass
        clus
vv       BRAF MUTATED BRAF WILD-TYPE
  CLUS_1            3             37
  CLUS_2            4             63
  CLUS_3            4             20
  CLUS_4            1             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
  BRAF MUTATED        1     10      1
  BRAF WILD-TYPE     10    116     19
D12V6, multiclass
        clus
vv       BRAF MUTATED BRAF WILD-TYPE
  CLUS_1            1             10
  CLUS_2           10            116
  CLUS_3            1             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
  BRAF MUTATED        0      1      5     15
  BRAF WILD-TYPE     14      5     24    156
D12V7, multiclass
        clus
vv       BRAF MUTATED BRAF WILD-TYPE
  CLUS_1            0             14
  CLUS_2            1              5
  CLUS_3            5             24
  CLUS_4           15            156
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will 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        0      0      0      1      4     15      1
  BRAF WILD-TYPE      1      5      1      0    126     20     46
D12V8, multiclass
        clus
vv       BRAF MUTATED BRAF WILD-TYPE
  CLUS_1            0              1
  CLUS_2            0              5
  CLUS_3            0              1
  CLUS_4            1              0
  CLUS_5            4            126
  CLUS_6           15             20
  CLUS_7            1             46
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  BRAF MUTATED        0      1     20
  BRAF WILD-TYPE      3      8    174
D12V9, multiclass
        clus
vv       BRAF MUTATED BRAF WILD-TYPE
  CLUS_1            0              3
  CLUS_2            1              8
  CLUS_3           20            174
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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        0      3     18
  BRAF WILD-TYPE      7     59    119
D12V10, multiclass
        clus
vv       BRAF MUTATED BRAF WILD-TYPE
  CLUS_1            0              7
  CLUS_2            3             59
  CLUS_3           18            119
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(13) Variable = MGC42105 MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MGC42105 MUTATED        6      0      1      4
  MGC42105 WILD-TYPE     36     57     66     35
D13V1, multiclass
        clus
vv       MGC42105 MUTATED MGC42105 WILD-TYPE
  CLUS_1                6                 36
  CLUS_2                0                 57
  CLUS_3                1                 66
  CLUS_4                4                 35
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MGC42105 MUTATED        6      0      4      1
  MGC42105 WILD-TYPE     42     37     69     46
D13V2, multiclass
        clus
vv       MGC42105 MUTATED MGC42105 WILD-TYPE
  CLUS_1                6                 42
  CLUS_2                0                 37
  CLUS_3                4                 69
  CLUS_4                1                 46
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  MGC42105 MUTATED        8      2      1
  MGC42105 WILD-TYPE     79     77     53
D13V3, multiclass
        clus
vv       MGC42105 MUTATED MGC42105 WILD-TYPE
  CLUS_1                8                 79
  CLUS_2                2                 77
  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
  MGC42105 MUTATED        0      0      0
  MGC42105 WILD-TYPE      1      5      2
D13V4, multiclass
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MGC42105 MUTATED        0      3      1      3
  MGC42105 WILD-TYPE     40     64     23     23
D13V5, multiclass
        clus
vv       MGC42105 MUTATED MGC42105 WILD-TYPE
  CLUS_1                0                 40
  CLUS_2                3                 64
  CLUS_3                1                 23
  CLUS_4                3                 23
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  MGC42105 MUTATED        0      6      1
  MGC42105 WILD-TYPE     11    120     19
D13V6, multiclass
        clus
vv       MGC42105 MUTATED MGC42105 WILD-TYPE
  CLUS_1                0                 11
  CLUS_2                6                120
  CLUS_3                1                 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
  MGC42105 MUTATED        0      0      1      9
  MGC42105 WILD-TYPE     14      6     28    162
D13V7, multiclass
        clus
vv       MGC42105 MUTATED MGC42105 WILD-TYPE
  CLUS_1                0                 14
  CLUS_2                0                  6
  CLUS_3                1                 28
  CLUS_4                9                162
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  MGC42105 MUTATED        1      0      0      0      3      4      2
  MGC42105 WILD-TYPE      0      5      1      1    127     31     45
D13V8, multiclass
        clus
vv       MGC42105 MUTATED MGC42105 WILD-TYPE
  CLUS_1                1                  0
  CLUS_2                0                  5
  CLUS_3                0                  1
  CLUS_4                0                  1
  CLUS_5                3                127
  CLUS_6                4                 31
  CLUS_7                2                 45
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  MGC42105 MUTATED        0      0     11
  MGC42105 WILD-TYPE      3      9    183
D13V9, multiclass
        clus
vv       MGC42105 MUTATED MGC42105 WILD-TYPE
  CLUS_1                0                  3
  CLUS_2                0                  9
  CLUS_3               11                183
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  MGC42105 MUTATED        0      1     10
  MGC42105 WILD-TYPE      7     61    127
D13V10, multiclass
        clus
vv       MGC42105 MUTATED MGC42105 WILD-TYPE
  CLUS_1                0                  7
  CLUS_2                1                 61
  CLUS_3               10                127
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(14) Variable = ACVR1B MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ACVR1B MUTATED        3      2      2      4
  ACVR1B WILD-TYPE     39     55     65     35
D14V1, multiclass
        clus
vv       ACVR1B MUTATED ACVR1B WILD-TYPE
  CLUS_1              3               39
  CLUS_2              2               55
  CLUS_3              2               65
  CLUS_4              4               35
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ACVR1B MUTATED        5      4      2      0
  ACVR1B WILD-TYPE     43     33     71     47
D14V2, multiclass
        clus
vv       ACVR1B MUTATED ACVR1B WILD-TYPE
  CLUS_1              5               43
  CLUS_2              4               33
  CLUS_3              2               71
  CLUS_4              0               47
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ACVR1B MUTATED       11      2      1
  ACVR1B WILD-TYPE     76     77     53
D14V3, multiclass
        clus
vv       ACVR1B MUTATED ACVR1B WILD-TYPE
  CLUS_1             11               76
  CLUS_2              2               77
  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
  ACVR1B MUTATED        0      0      0
  ACVR1B WILD-TYPE      1      5      2
D14V4, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ACVR1B MUTATED        2      5      1      3
  ACVR1B WILD-TYPE     38     62     23     23
D14V5, multiclass
        clus
vv       ACVR1B MUTATED ACVR1B WILD-TYPE
  CLUS_1              2               38
  CLUS_2              5               62
  CLUS_3              1               23
  CLUS_4              3               23
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ACVR1B MUTATED        1      7      3
  ACVR1B WILD-TYPE     10    119     17
D14V6, multiclass
        clus
vv       ACVR1B MUTATED ACVR1B WILD-TYPE
  CLUS_1              1               10
  CLUS_2              7              119
  CLUS_3              3               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
  ACVR1B MUTATED        1      0      2     11
  ACVR1B WILD-TYPE     13      6     27    160
D14V7, multiclass
        clus
vv       ACVR1B MUTATED ACVR1B WILD-TYPE
  CLUS_1              1               13
  CLUS_2              0                6
  CLUS_3              2               27
  CLUS_4             11              160
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  ACVR1B MUTATED        0      0      0      0      4      6      4
  ACVR1B WILD-TYPE      1      5      1      1    126     29     43
D14V8, multiclass
        clus
vv       ACVR1B MUTATED ACVR1B WILD-TYPE
  CLUS_1              0                1
  CLUS_2              0                5
  CLUS_3              0                1
  CLUS_4              0                1
  CLUS_5              4              126
  CLUS_6              6               29
  CLUS_7              4               43
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ACVR1B MUTATED        0      1     13
  ACVR1B WILD-TYPE      3      8    181
D14V9, multiclass
        clus
vv       ACVR1B MUTATED ACVR1B WILD-TYPE
  CLUS_1              0                3
  CLUS_2              1                8
  CLUS_3             13              181
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ACVR1B MUTATED        1      2     11
  ACVR1B WILD-TYPE      6     60    126
D14V10, multiclass
        clus
vv       ACVR1B MUTATED ACVR1B WILD-TYPE
  CLUS_1              1                6
  CLUS_2              2               60
  CLUS_3             11              126
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(15) Variable = CDC27 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CDC27 MUTATED        4      0      1      7
  CDC27 WILD-TYPE     38     57     66     32
D15V1, multiclass
        clus
vv       CDC27 MUTATED CDC27 WILD-TYPE
  CLUS_1             4              38
  CLUS_2             0              57
  CLUS_3             1              66
  CLUS_4             7              32
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CDC27 MUTATED        6      1      3      2
  CDC27 WILD-TYPE     42     36     70     45
D15V2, multiclass
        clus
vv       CDC27 MUTATED CDC27 WILD-TYPE
  CLUS_1             6              42
  CLUS_2             1              36
  CLUS_3             3              70
  CLUS_4             2              45
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CDC27 MUTATED       12      0      1
  CDC27 WILD-TYPE     75     79     53
D15V3, multiclass
        clus
vv       CDC27 MUTATED CDC27 WILD-TYPE
  CLUS_1            12              75
  CLUS_2             0              79
  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
  CDC27 MUTATED        0      0      0
  CDC27 WILD-TYPE      1      5      2
D15V4, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CDC27 MUTATED        2      5      1      2
  CDC27 WILD-TYPE     38     62     23     24
D15V5, multiclass
        clus
vv       CDC27 MUTATED CDC27 WILD-TYPE
  CLUS_1             2              38
  CLUS_2             5              62
  CLUS_3             1              23
  CLUS_4             2              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
  CDC27 MUTATED        1      8      1
  CDC27 WILD-TYPE     10    118     19
D15V6, multiclass
        clus
vv       CDC27 MUTATED CDC27 WILD-TYPE
  CLUS_1             1              10
  CLUS_2             8             118
  CLUS_3             1              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
  CDC27 MUTATED        0      1      1     11
  CDC27 WILD-TYPE     14      5     28    160
D15V7, multiclass
        clus
vv       CDC27 MUTATED CDC27 WILD-TYPE
  CLUS_1             0              14
  CLUS_2             1               5
  CLUS_3             1              28
  CLUS_4            11             160
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  CDC27 MUTATED        1      0      0      1      4      4      3
  CDC27 WILD-TYPE      0      5      1      0    126     31     44
D15V8, multiclass
        clus
vv       CDC27 MUTATED CDC27 WILD-TYPE
  CLUS_1             1               0
  CLUS_2             0               5
  CLUS_3             0               1
  CLUS_4             1               0
  CLUS_5             4             126
  CLUS_6             4              31
  CLUS_7             3              44
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CDC27 MUTATED        0      1      9
  CDC27 WILD-TYPE      3      8    185
D15V9, multiclass
        clus
vv       CDC27 MUTATED CDC27 WILD-TYPE
  CLUS_1             0               3
  CLUS_2             1               8
  CLUS_3             9             185
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CDC27 MUTATED        3      3      4
  CDC27 WILD-TYPE      4     59    133
D15V10, multiclass
        clus
vv       CDC27 MUTATED CDC27 WILD-TYPE
  CLUS_1             3               4
  CLUS_2             3              59
  CLUS_3             4             133
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(16) Variable = KIAA1804 MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KIAA1804 MUTATED        3      1      6      4
  KIAA1804 WILD-TYPE     39     56     61     35
D16V1, multiclass
        clus
vv       KIAA1804 MUTATED KIAA1804 WILD-TYPE
  CLUS_1                3                 39
  CLUS_2                1                 56
  CLUS_3                6                 61
  CLUS_4                4                 35
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger 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        4      2      4      4
  KIAA1804 WILD-TYPE     44     35     69     43
D16V2, multiclass
        clus
vv       KIAA1804 MUTATED KIAA1804 WILD-TYPE
  CLUS_1                4                 44
  CLUS_2                2                 35
  CLUS_3                4                 69
  CLUS_4                4                 43
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  KIAA1804 MUTATED       10      5      0
  KIAA1804 WILD-TYPE     77     74     54
D16V3, multiclass
        clus
vv       KIAA1804 MUTATED KIAA1804 WILD-TYPE
  CLUS_1               10                 77
  CLUS_2                5                 74
  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
  KIAA1804 MUTATED        0      0      1
  KIAA1804 WILD-TYPE      1      5      1
D16V4, multiclass
[1] "Remove cluster labels:" "KIAA1804 MUTATED"      
clus
  KIAA1804 MUTATED KIAA1804 WILD-TYPE 
                 1                  7 
        TCGA-A6-2677         TCGA-A6-3810         TCGA-AG-A01W 
"KIAA1804 WILD-TYPE" "KIAA1804 WILD-TYPE" "KIAA1804 WILD-TYPE" 
        TCGA-AG-A01Y         TCGA-AG-A020         TCGA-AG-A026 
"KIAA1804 WILD-TYPE" "KIAA1804 WILD-TYPE" "KIAA1804 WILD-TYPE" 
        TCGA-AG-A036 
"KIAA1804 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KIAA1804 MUTATED        2      6      1      4
  KIAA1804 WILD-TYPE     38     61     23     22
D16V5, multiclass
        clus
vv       KIAA1804 MUTATED KIAA1804 WILD-TYPE
  CLUS_1                2                 38
  CLUS_2                6                 61
  CLUS_3                1                 23
  CLUS_4                4                 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
  KIAA1804 MUTATED        0     12      1
  KIAA1804 WILD-TYPE     11    114     19
D16V6, multiclass
        clus
vv       KIAA1804 MUTATED KIAA1804 WILD-TYPE
  CLUS_1                0                 11
  CLUS_2               12                114
  CLUS_3                1                 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
  KIAA1804 MUTATED        0      0      3     12
  KIAA1804 WILD-TYPE     14      6     26    159
D16V7, multiclass
        clus
vv       KIAA1804 MUTATED KIAA1804 WILD-TYPE
  CLUS_1                0                 14
  CLUS_2                0                  6
  CLUS_3                3                 26
  CLUS_4               12                159
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will 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        1      0      0      0      5      4      5
  KIAA1804 WILD-TYPE      0      5      1      1    125     31     42
D16V8, multiclass
        clus
vv       KIAA1804 MUTATED KIAA1804 WILD-TYPE
  CLUS_1                1                  0
  CLUS_2                0                  5
  CLUS_3                0                  1
  CLUS_4                0                  1
  CLUS_5                5                125
  CLUS_6                4                 31
  CLUS_7                5                 42
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  KIAA1804 MUTATED        0      0     15
  KIAA1804 WILD-TYPE      3      9    179
D16V9, multiclass
        clus
vv       KIAA1804 MUTATED KIAA1804 WILD-TYPE
  CLUS_1                0                  3
  CLUS_2                0                  9
  CLUS_3               15                179
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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      2     12
  KIAA1804 WILD-TYPE      6     60    125
D16V10, multiclass
        clus
vv       KIAA1804 MUTATED KIAA1804 WILD-TYPE
  CLUS_1                1                  6
  CLUS_2                2                 60
  CLUS_3               12                125
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(17) Variable = PCDHGB1 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PCDHGB1 MUTATED        3      1      1      3
  PCDHGB1 WILD-TYPE     39     56     66     36
D17V1, multiclass
        clus
vv       PCDHGB1 MUTATED PCDHGB1 WILD-TYPE
  CLUS_1               3                39
  CLUS_2               1                56
  CLUS_3               1                66
  CLUS_4               3                36
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PCDHGB1 MUTATED        4      2      1      1
  PCDHGB1 WILD-TYPE     44     35     72     46
D17V2, multiclass
        clus
vv       PCDHGB1 MUTATED PCDHGB1 WILD-TYPE
  CLUS_1               4                44
  CLUS_2               2                35
  CLUS_3               1                72
  CLUS_4               1                46
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PCDHGB1 MUTATED        6      2      0
  PCDHGB1 WILD-TYPE     81     77     54
D17V3, multiclass
        clus
vv       PCDHGB1 MUTATED PCDHGB1 WILD-TYPE
  CLUS_1               6                81
  CLUS_2               2                77
  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
  PCDHGB1 MUTATED        0      0      0
  PCDHGB1 WILD-TYPE      1      5      2
D17V4, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PCDHGB1 MUTATED        1      2      0      2
  PCDHGB1 WILD-TYPE     39     65     24     24
D17V5, multiclass
        clus
vv       PCDHGB1 MUTATED PCDHGB1 WILD-TYPE
  CLUS_1               1                39
  CLUS_2               2                65
  CLUS_3               0                24
  CLUS_4               2                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
  PCDHGB1 MUTATED        0      4      1
  PCDHGB1 WILD-TYPE     11    122     19
D17V6, multiclass
        clus
vv       PCDHGB1 MUTATED PCDHGB1 WILD-TYPE
  CLUS_1               0                11
  CLUS_2               4               122
  CLUS_3               1                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
  PCDHGB1 MUTATED        0      0      2      6
  PCDHGB1 WILD-TYPE     14      6     27    165
D17V7, multiclass
        clus
vv       PCDHGB1 MUTATED PCDHGB1 WILD-TYPE
  CLUS_1               0                14
  CLUS_2               0                 6
  CLUS_3               2                27
  CLUS_4               6               165
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  PCDHGB1 MUTATED        0      0      0      0      3      2      3
  PCDHGB1 WILD-TYPE      1      5      1      1    127     33     44
D17V8, multiclass
        clus
vv       PCDHGB1 MUTATED PCDHGB1 WILD-TYPE
  CLUS_1               0                 1
  CLUS_2               0                 5
  CLUS_3               0                 1
  CLUS_4               0                 1
  CLUS_5               3               127
  CLUS_6               2                33
  CLUS_7               3                44
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PCDHGB1 MUTATED        0      0      6
  PCDHGB1 WILD-TYPE      3      9    188
D17V9, multiclass
        clus
vv       PCDHGB1 MUTATED PCDHGB1 WILD-TYPE
  CLUS_1               0                 3
  CLUS_2               0                 9
  CLUS_3               6               188
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PCDHGB1 MUTATED        1      1      4
  PCDHGB1 WILD-TYPE      6     61    133
D17V10, multiclass
        clus
vv       PCDHGB1 MUTATED PCDHGB1 WILD-TYPE
  CLUS_1               1                 6
  CLUS_2               1                61
  CLUS_3               4               133
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(18) Variable = PCBP1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PCBP1 MUTATED        0      1      2      2
  PCBP1 WILD-TYPE     42     56     65     37
D18V1, multiclass
        clus
vv       PCBP1 MUTATED PCBP1 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             1              56
  CLUS_3             2              65
  CLUS_4             2              37
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PCBP1 MUTATED        1      0      2      2
  PCBP1 WILD-TYPE     47     37     71     45
D18V2, multiclass
        clus
vv       PCBP1 MUTATED PCBP1 WILD-TYPE
  CLUS_1             1              47
  CLUS_2             0              37
  CLUS_3             2              71
  CLUS_4             2              45
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PCBP1 MUTATED        2      1      2
  PCBP1 WILD-TYPE     85     78     52
D18V3, multiclass
        clus
vv       PCBP1 MUTATED PCBP1 WILD-TYPE
  CLUS_1             2              85
  CLUS_2             1              78
  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
  PCBP1 MUTATED        0      0      0
  PCBP1 WILD-TYPE      1      5      2
D18V4, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PCBP1 MUTATED        0      2      0      0
  PCBP1 WILD-TYPE     40     65     24     26
D18V5, multiclass
[1] "Remove cluster labels:" "PCBP1 MUTATED"         
clus
  PCBP1 MUTATED PCBP1 WILD-TYPE 
              2             155 
     TCGA-A6-2672      TCGA-A6-2676      TCGA-A6-2677      TCGA-A6-2678 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808      TCGA-A6-3810 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AA-3514      TCGA-AA-3517      TCGA-AA-3519      TCGA-AA-3520 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3525      TCGA-AA-3529 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AA-3530      TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AA-3548      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3558      TCGA-AA-3560      TCGA-AA-3561 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3672      TCGA-AA-3678 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AA-3681      TCGA-AA-3688      TCGA-AA-3695      TCGA-AA-3696 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AA-3818      TCGA-AA-3819      TCGA-AA-3831      TCGA-AA-3833 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3848 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AA-3850      TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3856 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AA-3864      TCGA-AA-3866      TCGA-AA-3869      TCGA-AA-3872 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AA-3930      TCGA-AA-3947      TCGA-AA-3955      TCGA-AA-3971 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AA-3972      TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3982 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AA-3986      TCGA-AA-3989      TCGA-AA-A004      TCGA-AA-A00A 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J      TCGA-AA-A00K 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00Q      TCGA-AA-A00R 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z      TCGA-AA-A010 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F      TCGA-AA-A01K 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AA-A01P      TCGA-AA-A01Q      TCGA-AA-A01R      TCGA-AA-A01S 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AA-A01T      TCGA-AA-A01V      TCGA-AA-A01X      TCGA-AA-A022 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02O      TCGA-AA-A02W      TCGA-AA-A02Y 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AA-A03F      TCGA-AA-A03J      TCGA-AF-2689      TCGA-AF-3400 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AF-3913      TCGA-AG-3574      TCGA-AG-3578      TCGA-AG-3580 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AG-3581      TCGA-AG-3582      TCGA-AG-3583      TCGA-AG-3584 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AG-3586      TCGA-AG-3587      TCGA-AG-3593      TCGA-AG-3594 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AG-3598      TCGA-AG-3599      TCGA-AG-3600      TCGA-AG-3601 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AG-3602      TCGA-AG-3605      TCGA-AG-3609      TCGA-AG-3612 
"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-3893      TCGA-AG-3896      TCGA-AG-3898      TCGA-AG-3901 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AG-3902      TCGA-AG-4001      TCGA-AG-4005      TCGA-AG-4007 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AG-4008      TCGA-AG-4015      TCGA-AG-A002      TCGA-AG-A008 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AG-A00C      TCGA-AG-A00H      TCGA-AG-A00Y      TCGA-AG-A011 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AG-A014      TCGA-AG-A015      TCGA-AG-A016      TCGA-AG-A01W 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AG-A01Y      TCGA-AG-A020      TCGA-AG-A026      TCGA-AG-A02G 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AG-A02N      TCGA-AG-A02X      TCGA-AG-A036 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PCBP1 MUTATED        0      2      0
  PCBP1 WILD-TYPE     11    124     20
D18V6, multiclass
[1] "Remove cluster labels:" "PCBP1 MUTATED"         
clus
  PCBP1 MUTATED PCBP1 WILD-TYPE 
              2             155 
     TCGA-A6-2672      TCGA-A6-2676      TCGA-A6-2677      TCGA-A6-2678 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808      TCGA-A6-3810 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AA-3514      TCGA-AA-3517      TCGA-AA-3519      TCGA-AA-3520 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3525      TCGA-AA-3529 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AA-3530      TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AA-3548      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3558      TCGA-AA-3560      TCGA-AA-3561 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3672      TCGA-AA-3678 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AA-3681      TCGA-AA-3688      TCGA-AA-3695      TCGA-AA-3696 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AA-3818      TCGA-AA-3819      TCGA-AA-3831      TCGA-AA-3833 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AA-3837      TCGA-AA-3844      TCGA-AA-3845      TCGA-AA-3848 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AA-3850      TCGA-AA-3852      TCGA-AA-3854      TCGA-AA-3856 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AA-3864      TCGA-AA-3866      TCGA-AA-3869      TCGA-AA-3872 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AA-3930      TCGA-AA-3947      TCGA-AA-3955      TCGA-AA-3971 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AA-3972      TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3982 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AA-3986      TCGA-AA-3989      TCGA-AA-A004      TCGA-AA-A00A 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J      TCGA-AA-A00K 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00Q      TCGA-AA-A00R 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z      TCGA-AA-A010 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F      TCGA-AA-A01K 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AA-A01P      TCGA-AA-A01Q      TCGA-AA-A01R      TCGA-AA-A01S 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AA-A01T      TCGA-AA-A01V      TCGA-AA-A01X      TCGA-AA-A022 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F      TCGA-AA-A02H 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AA-A02J      TCGA-AA-A02O      TCGA-AA-A02W      TCGA-AA-A02Y 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AA-A03F      TCGA-AA-A03J      TCGA-AF-2689      TCGA-AF-3400 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AF-3913      TCGA-AG-3574      TCGA-AG-3578      TCGA-AG-3580 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AG-3581      TCGA-AG-3582      TCGA-AG-3583      TCGA-AG-3584 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AG-3586      TCGA-AG-3587      TCGA-AG-3593      TCGA-AG-3594 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AG-3598      TCGA-AG-3599      TCGA-AG-3600      TCGA-AG-3601 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AG-3602      TCGA-AG-3605      TCGA-AG-3609      TCGA-AG-3612 
"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-3893      TCGA-AG-3896      TCGA-AG-3898      TCGA-AG-3901 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AG-3902      TCGA-AG-4001      TCGA-AG-4005      TCGA-AG-4007 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AG-4008      TCGA-AG-4015      TCGA-AG-A002      TCGA-AG-A008 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AG-A00C      TCGA-AG-A00H      TCGA-AG-A00Y      TCGA-AG-A011 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AG-A014      TCGA-AG-A015      TCGA-AG-A016      TCGA-AG-A01W 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AG-A01Y      TCGA-AG-A020      TCGA-AG-A026      TCGA-AG-A02G 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
     TCGA-AG-A02N      TCGA-AG-A02X      TCGA-AG-A036 
"PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" "PCBP1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PCBP1 MUTATED        0      0      0      5
  PCBP1 WILD-TYPE     14      6     29    166
D18V7, multiclass
        clus
vv       PCBP1 MUTATED PCBP1 WILD-TYPE
  CLUS_1             0              14
  CLUS_2             0               6
  CLUS_3             0              29
  CLUS_4             5             166
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will 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      0      0      0      5      0      0
  PCBP1 WILD-TYPE      1      5      1      1    125     35     47
D18V8, multiclass
        clus
vv       PCBP1 MUTATED PCBP1 WILD-TYPE
  CLUS_1             0               1
  CLUS_2             0               5
  CLUS_3             0               1
  CLUS_4             0               1
  CLUS_5             5             125
  CLUS_6             0              35
  CLUS_7             0              47
[1] 7 2
[1] TRUE
[1] "dimension of contingency table 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      0      4
  PCBP1 WILD-TYPE      3      9    190
D18V9, multiclass
        clus
vv       PCBP1 MUTATED PCBP1 WILD-TYPE
  CLUS_1             0               3
  CLUS_2             0               9
  CLUS_3             4             190
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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      3
  PCBP1 WILD-TYPE      7     61    134
D18V10, multiclass
        clus
vv       PCBP1 MUTATED PCBP1 WILD-TYPE
  CLUS_1             0               7
  CLUS_2             1              61
  CLUS_3             3             134
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(19) Variable = ZHX2 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZHX2 MUTATED        5      1      2      1
  ZHX2 WILD-TYPE     37     56     65     38
D19V1, multiclass
        clus
vv       ZHX2 MUTATED ZHX2 WILD-TYPE
  CLUS_1            5             37
  CLUS_2            1             56
  CLUS_3            2             65
  CLUS_4            1             38
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZHX2 MUTATED        4      1      1      3
  ZHX2 WILD-TYPE     44     36     72     44
D19V2, multiclass
        clus
vv       ZHX2 MUTATED ZHX2 WILD-TYPE
  CLUS_1            4             44
  CLUS_2            1             36
  CLUS_3            1             72
  CLUS_4            3             44
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ZHX2 MUTATED        6      2      2
  ZHX2 WILD-TYPE     81     77     52
D19V3, multiclass
        clus
vv       ZHX2 MUTATED ZHX2 WILD-TYPE
  CLUS_1            6             81
  CLUS_2            2             77
  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
  ZHX2 MUTATED        0      0      0
  ZHX2 WILD-TYPE      1      5      2
D19V4, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZHX2 MUTATED        0      4      0      2
  ZHX2 WILD-TYPE     40     63     24     24
D19V5, multiclass
        clus
vv       ZHX2 MUTATED ZHX2 WILD-TYPE
  CLUS_1            0             40
  CLUS_2            4             63
  CLUS_3            0             24
  CLUS_4            2             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
  ZHX2 MUTATED        0      4      2
  ZHX2 WILD-TYPE     11    122     18
D19V6, multiclass
        clus
vv       ZHX2 MUTATED ZHX2 WILD-TYPE
  CLUS_1            0             11
  CLUS_2            4            122
  CLUS_3            2             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
  ZHX2 MUTATED        0      0      0     10
  ZHX2 WILD-TYPE     14      6     29    161
D19V7, multiclass
        clus
vv       ZHX2 MUTATED ZHX2 WILD-TYPE
  CLUS_1            0             14
  CLUS_2            0              6
  CLUS_3            0             29
  CLUS_4           10            161
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  ZHX2 MUTATED        0      0      0      0      3      3      4
  ZHX2 WILD-TYPE      1      5      1      1    127     32     43
D19V8, multiclass
        clus
vv       ZHX2 MUTATED ZHX2 WILD-TYPE
  CLUS_1            0              1
  CLUS_2            0              5
  CLUS_3            0              1
  CLUS_4            0              1
  CLUS_5            3            127
  CLUS_6            3             32
  CLUS_7            4             43
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ZHX2 MUTATED        0      0      8
  ZHX2 WILD-TYPE      3      9    186
D19V9, multiclass
        clus
vv       ZHX2 MUTATED ZHX2 WILD-TYPE
  CLUS_1            0              3
  CLUS_2            0              9
  CLUS_3            8            186
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ZHX2 MUTATED        1      1      6
  ZHX2 WILD-TYPE      6     61    131
D19V10, multiclass
        clus
vv       ZHX2 MUTATED ZHX2 WILD-TYPE
  CLUS_1            1              6
  CLUS_2            1             61
  CLUS_3            6            131
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(20) Variable = PCDHA3 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PCDHA3 MUTATED        4      3      0      3
  PCDHA3 WILD-TYPE     38     54     67     36
D20V1, multiclass
        clus
vv       PCDHA3 MUTATED PCDHA3 WILD-TYPE
  CLUS_1              4               38
  CLUS_2              3               54
  CLUS_3              0               67
  CLUS_4              3               36
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PCDHA3 MUTATED        6      4      0      0
  PCDHA3 WILD-TYPE     42     33     73     47
D20V2, multiclass
        clus
vv       PCDHA3 MUTATED PCDHA3 WILD-TYPE
  CLUS_1              6               42
  CLUS_2              4               33
  CLUS_3              0               73
  CLUS_4              0               47
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PCDHA3 MUTATED        9      2      1
  PCDHA3 WILD-TYPE     78     77     53
D20V3, multiclass
        clus
vv       PCDHA3 MUTATED PCDHA3 WILD-TYPE
  CLUS_1              9               78
  CLUS_2              2               77
  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
  PCDHA3 MUTATED        0      0      1
  PCDHA3 WILD-TYPE      1      5      1
D20V4, multiclass
[1] "Remove cluster labels:" "PCDHA3 MUTATED"        
clus
  PCDHA3 MUTATED PCDHA3 WILD-TYPE 
               1                7 
      TCGA-A6-2677       TCGA-A6-3810       TCGA-AG-A01W       TCGA-AG-A01Y 
"PCDHA3 WILD-TYPE" "PCDHA3 WILD-TYPE" "PCDHA3 WILD-TYPE" "PCDHA3 WILD-TYPE" 
      TCGA-AG-A020       TCGA-AG-A026       TCGA-AG-A036 
"PCDHA3 WILD-TYPE" "PCDHA3 WILD-TYPE" "PCDHA3 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PCDHA3 MUTATED        2      4      2      2
  PCDHA3 WILD-TYPE     38     63     22     24
D20V5, multiclass
        clus
vv       PCDHA3 MUTATED PCDHA3 WILD-TYPE
  CLUS_1              2               38
  CLUS_2              4               63
  CLUS_3              2               22
  CLUS_4              2               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
  PCDHA3 MUTATED        0      9      1
  PCDHA3 WILD-TYPE     11    117     19
D20V6, multiclass
        clus
vv       PCDHA3 MUTATED PCDHA3 WILD-TYPE
  CLUS_1              0               11
  CLUS_2              9              117
  CLUS_3              1               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
  PCDHA3 MUTATED        1      0      3      8
  PCDHA3 WILD-TYPE     13      6     26    163
D20V7, multiclass
        clus
vv       PCDHA3 MUTATED PCDHA3 WILD-TYPE
  CLUS_1              1               13
  CLUS_2              0                6
  CLUS_3              3               26
  CLUS_4              8              163
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  PCDHA3 MUTATED        0      0      0      0      3      3      6
  PCDHA3 WILD-TYPE      1      5      1      1    127     32     41
D20V8, multiclass
        clus
vv       PCDHA3 MUTATED PCDHA3 WILD-TYPE
  CLUS_1              0                1
  CLUS_2              0                5
  CLUS_3              0                1
  CLUS_4              0                1
  CLUS_5              3              127
  CLUS_6              3               32
  CLUS_7              6               41
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PCDHA3 MUTATED        0      0     11
  PCDHA3 WILD-TYPE      3      9    183
D20V9, multiclass
        clus
vv       PCDHA3 MUTATED PCDHA3 WILD-TYPE
  CLUS_1              0                3
  CLUS_2              0                9
  CLUS_3             11              183
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PCDHA3 MUTATED        1      2      8
  PCDHA3 WILD-TYPE      6     60    129
D20V10, multiclass
        clus
vv       PCDHA3 MUTATED PCDHA3 WILD-TYPE
  CLUS_1              1                6
  CLUS_2              2               60
  CLUS_3              8              129
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(21) Variable = PCDHA2 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PCDHA2 MUTATED        3      3      1      4
  PCDHA2 WILD-TYPE     39     54     66     35
D21V1, multiclass
        clus
vv       PCDHA2 MUTATED PCDHA2 WILD-TYPE
  CLUS_1              3               39
  CLUS_2              3               54
  CLUS_3              1               66
  CLUS_4              4               35
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PCDHA2 MUTATED        4      2      3      2
  PCDHA2 WILD-TYPE     44     35     70     45
D21V2, multiclass
        clus
vv       PCDHA2 MUTATED PCDHA2 WILD-TYPE
  CLUS_1              4               44
  CLUS_2              2               35
  CLUS_3              3               70
  CLUS_4              2               45
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PCDHA2 MUTATED        9      2      1
  PCDHA2 WILD-TYPE     78     77     53
D21V3, multiclass
        clus
vv       PCDHA2 MUTATED PCDHA2 WILD-TYPE
  CLUS_1              9               78
  CLUS_2              2               77
  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
  PCDHA2 MUTATED        0      0      1
  PCDHA2 WILD-TYPE      1      5      1
D21V4, multiclass
[1] "Remove cluster labels:" "PCDHA2 MUTATED"        
clus
  PCDHA2 MUTATED PCDHA2 WILD-TYPE 
               1                7 
      TCGA-A6-2677       TCGA-A6-3810       TCGA-AG-A01W       TCGA-AG-A01Y 
"PCDHA2 WILD-TYPE" "PCDHA2 WILD-TYPE" "PCDHA2 WILD-TYPE" "PCDHA2 WILD-TYPE" 
      TCGA-AG-A020       TCGA-AG-A026       TCGA-AG-A036 
"PCDHA2 WILD-TYPE" "PCDHA2 WILD-TYPE" "PCDHA2 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PCDHA2 MUTATED        1      2      1      0
  PCDHA2 WILD-TYPE     39     65     23     26
D21V5, multiclass
        clus
vv       PCDHA2 MUTATED PCDHA2 WILD-TYPE
  CLUS_1              1               39
  CLUS_2              2               65
  CLUS_3              1               23
  CLUS_4              0               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
  PCDHA2 MUTATED        0      4      0
  PCDHA2 WILD-TYPE     11    122     20
D21V6, multiclass
        clus
vv       PCDHA2 MUTATED PCDHA2 WILD-TYPE
  CLUS_1              0               11
  CLUS_2              4              122
  CLUS_3              0               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
  PCDHA2 MUTATED        0      0      2     10
  PCDHA2 WILD-TYPE     14      6     27    161
D21V7, multiclass
        clus
vv       PCDHA2 MUTATED PCDHA2 WILD-TYPE
  CLUS_1              0               14
  CLUS_2              0                6
  CLUS_3              2               27
  CLUS_4             10              161
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  PCDHA2 MUTATED        0      0      0      0      5      3      4
  PCDHA2 WILD-TYPE      1      5      1      1    125     32     43
D21V8, multiclass
        clus
vv       PCDHA2 MUTATED PCDHA2 WILD-TYPE
  CLUS_1              0                1
  CLUS_2              0                5
  CLUS_3              0                1
  CLUS_4              0                1
  CLUS_5              5              125
  CLUS_6              3               32
  CLUS_7              4               43
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PCDHA2 MUTATED        0      1     11
  PCDHA2 WILD-TYPE      3      8    183
D21V9, multiclass
        clus
vv       PCDHA2 MUTATED PCDHA2 WILD-TYPE
  CLUS_1              0                3
  CLUS_2              1                8
  CLUS_3             11              183
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PCDHA2 MUTATED        2      3      7
  PCDHA2 WILD-TYPE      5     59    130
D21V10, multiclass
        clus
vv       PCDHA2 MUTATED PCDHA2 WILD-TYPE
  CLUS_1              2                5
  CLUS_2              3               59
  CLUS_3              7              130
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(22) Variable = ELF3 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ELF3 MUTATED        1      1      3      2
  ELF3 WILD-TYPE     41     56     64     37
D22V1, multiclass
        clus
vv       ELF3 MUTATED ELF3 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            1             56
  CLUS_3            3             64
  CLUS_4            2             37
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ELF3 MUTATED        1      1      4      1
  ELF3 WILD-TYPE     47     36     69     46
D22V2, multiclass
        clus
vv       ELF3 MUTATED ELF3 WILD-TYPE
  CLUS_1            1             47
  CLUS_2            1             36
  CLUS_3            4             69
  CLUS_4            1             46
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ELF3 MUTATED        4      0      4
  ELF3 WILD-TYPE     83     79     50
D22V3, multiclass
        clus
vv       ELF3 MUTATED ELF3 WILD-TYPE
  CLUS_1            4             83
  CLUS_2            0             79
  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
  ELF3 MUTATED        0      0      0
  ELF3 WILD-TYPE      1      5      2
D22V4, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ELF3 MUTATED        2      3      0      1
  ELF3 WILD-TYPE     38     64     24     25
D22V5, multiclass
        clus
vv       ELF3 MUTATED ELF3 WILD-TYPE
  CLUS_1            2             38
  CLUS_2            3             64
  CLUS_3            0             24
  CLUS_4            1             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
  ELF3 MUTATED        1      4      1
  ELF3 WILD-TYPE     10    122     19
D22V6, multiclass
        clus
vv       ELF3 MUTATED ELF3 WILD-TYPE
  CLUS_1            1             10
  CLUS_2            4            122
  CLUS_3            1             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
  ELF3 MUTATED        1      1      3      3
  ELF3 WILD-TYPE     13      5     26    168
D22V7, multiclass
        clus
vv       ELF3 MUTATED ELF3 WILD-TYPE
  CLUS_1            1             13
  CLUS_2            1              5
  CLUS_3            3             26
  CLUS_4            3            168
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  ELF3 MUTATED        0      1      0      0      2      1      4
  ELF3 WILD-TYPE      1      4      1      1    128     34     43
D22V8, multiclass
        clus
vv       ELF3 MUTATED ELF3 WILD-TYPE
  CLUS_1            0              1
  CLUS_2            1              4
  CLUS_3            0              1
  CLUS_4            0              1
  CLUS_5            2            128
  CLUS_6            1             34
  CLUS_7            4             43
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ELF3 MUTATED        0      0      8
  ELF3 WILD-TYPE      3      9    186
D22V9, multiclass
        clus
vv       ELF3 MUTATED ELF3 WILD-TYPE
  CLUS_1            0              3
  CLUS_2            0              9
  CLUS_3            8            186
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ELF3 MUTATED        1      3      4
  ELF3 WILD-TYPE      6     59    133
D22V10, multiclass
        clus
vv       ELF3 MUTATED ELF3 WILD-TYPE
  CLUS_1            1              6
  CLUS_2            3             59
  CLUS_3            4            133
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(23) Variable = CRTC1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CRTC1 MUTATED        0      0      4      0
  CRTC1 WILD-TYPE     42     57     63     39
D23V1, multiclass
        clus
vv       CRTC1 MUTATED CRTC1 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             0              57
  CLUS_3             4              63
  CLUS_4             0              39
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CRTC1 MUTATED        0      0      1      3
  CRTC1 WILD-TYPE     48     37     72     44
D23V2, multiclass
        clus
vv       CRTC1 MUTATED CRTC1 WILD-TYPE
  CLUS_1             0              48
  CLUS_2             0              37
  CLUS_3             1              72
  CLUS_4             3              44
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CRTC1 MUTATED        1      2      1
  CRTC1 WILD-TYPE     86     77     53
D23V3, multiclass
        clus
vv       CRTC1 MUTATED CRTC1 WILD-TYPE
  CLUS_1             1              86
  CLUS_2             2              77
  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
  CRTC1 MUTATED        0      0      0
  CRTC1 WILD-TYPE      1      5      2
D23V4, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CRTC1 MUTATED        1      0      0      0
  CRTC1 WILD-TYPE     39     67     24     26
D23V5, multiclass
[1] "Remove cluster labels:" "CRTC1 MUTATED"         
clus
  CRTC1 MUTATED CRTC1 WILD-TYPE 
              1             156 
     TCGA-A6-2672      TCGA-A6-2676      TCGA-A6-2677      TCGA-A6-2678 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808      TCGA-A6-3810 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AA-3514      TCGA-AA-3517      TCGA-AA-3519      TCGA-AA-3520 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3525      TCGA-AA-3529 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AA-3530      TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AA-3548      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3558      TCGA-AA-3560      TCGA-AA-3561 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3672      TCGA-AA-3678 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AA-3681      TCGA-AA-3688      TCGA-AA-3695      TCGA-AA-3696 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3818      TCGA-AA-3819      TCGA-AA-3831 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AA-3833      TCGA-AA-3837      TCGA-AA-3844      TCGA-AA-3845 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3852      TCGA-AA-3854 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AA-3856      TCGA-AA-3864      TCGA-AA-3866      TCGA-AA-3869 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3930      TCGA-AA-3947      TCGA-AA-3955 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AA-3972      TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3982 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AA-3986      TCGA-AA-3989      TCGA-AA-A004      TCGA-AA-A00A 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J      TCGA-AA-A00K 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00Q      TCGA-AA-A00R 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z      TCGA-AA-A010 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F      TCGA-AA-A01I 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AA-A01K      TCGA-AA-A01P      TCGA-AA-A01Q      TCGA-AA-A01R 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AA-A01S      TCGA-AA-A01T      TCGA-AA-A01V      TCGA-AA-A01X 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AA-A022      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02O      TCGA-AA-A02W 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AA-A02Y      TCGA-AA-A03F      TCGA-AA-A03J      TCGA-AF-2689 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AF-3400      TCGA-AF-3913      TCGA-AG-3574      TCGA-AG-3578 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AG-3580      TCGA-AG-3581      TCGA-AG-3582      TCGA-AG-3583 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AG-3584      TCGA-AG-3586      TCGA-AG-3587      TCGA-AG-3593 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AG-3594      TCGA-AG-3598      TCGA-AG-3599      TCGA-AG-3600 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AG-3601      TCGA-AG-3602      TCGA-AG-3605      TCGA-AG-3609 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AG-3612      TCGA-AG-3727      TCGA-AG-3878      TCGA-AG-3881 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AG-3882      TCGA-AG-3893      TCGA-AG-3896      TCGA-AG-3898 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AG-3901      TCGA-AG-3902      TCGA-AG-4001      TCGA-AG-4005 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AG-4007      TCGA-AG-4008      TCGA-AG-4015      TCGA-AG-A002 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AG-A008      TCGA-AG-A00C      TCGA-AG-A00H      TCGA-AG-A00Y 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AG-A011      TCGA-AG-A014      TCGA-AG-A015      TCGA-AG-A016 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AG-A01W      TCGA-AG-A01Y      TCGA-AG-A020      TCGA-AG-A026 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AG-A02G      TCGA-AG-A02N      TCGA-AG-A02X      TCGA-AG-A036 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CRTC1 MUTATED        0      1      0
  CRTC1 WILD-TYPE     11    125     20
D23V6, multiclass
[1] "Remove cluster labels:" "CRTC1 MUTATED"         
clus
  CRTC1 MUTATED CRTC1 WILD-TYPE 
              1             156 
     TCGA-A6-2672      TCGA-A6-2676      TCGA-A6-2677      TCGA-A6-2678 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808      TCGA-A6-3810 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AA-3514      TCGA-AA-3517      TCGA-AA-3519      TCGA-AA-3520 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3525      TCGA-AA-3529 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AA-3530      TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AA-3548      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3558      TCGA-AA-3560      TCGA-AA-3561 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3672      TCGA-AA-3678 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AA-3681      TCGA-AA-3688      TCGA-AA-3695      TCGA-AA-3696 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3818      TCGA-AA-3819      TCGA-AA-3831 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AA-3833      TCGA-AA-3837      TCGA-AA-3844      TCGA-AA-3845 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3852      TCGA-AA-3854 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AA-3856      TCGA-AA-3864      TCGA-AA-3866      TCGA-AA-3869 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AA-3872      TCGA-AA-3930      TCGA-AA-3947      TCGA-AA-3955 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AA-3972      TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3982 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AA-3986      TCGA-AA-3989      TCGA-AA-A004      TCGA-AA-A00A 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J      TCGA-AA-A00K 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00Q      TCGA-AA-A00R 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z      TCGA-AA-A010 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F      TCGA-AA-A01I 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AA-A01K      TCGA-AA-A01P      TCGA-AA-A01Q      TCGA-AA-A01R 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AA-A01S      TCGA-AA-A01T      TCGA-AA-A01V      TCGA-AA-A01X 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AA-A022      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02O      TCGA-AA-A02W 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AA-A02Y      TCGA-AA-A03F      TCGA-AA-A03J      TCGA-AF-2689 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AF-3400      TCGA-AF-3913      TCGA-AG-3574      TCGA-AG-3578 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AG-3580      TCGA-AG-3581      TCGA-AG-3582      TCGA-AG-3583 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AG-3584      TCGA-AG-3586      TCGA-AG-3587      TCGA-AG-3593 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AG-3594      TCGA-AG-3598      TCGA-AG-3599      TCGA-AG-3600 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AG-3601      TCGA-AG-3602      TCGA-AG-3605      TCGA-AG-3609 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AG-3612      TCGA-AG-3727      TCGA-AG-3878      TCGA-AG-3881 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AG-3882      TCGA-AG-3893      TCGA-AG-3896      TCGA-AG-3898 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AG-3901      TCGA-AG-3902      TCGA-AG-4001      TCGA-AG-4005 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AG-4007      TCGA-AG-4008      TCGA-AG-4015      TCGA-AG-A002 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AG-A008      TCGA-AG-A00C      TCGA-AG-A00H      TCGA-AG-A00Y 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AG-A011      TCGA-AG-A014      TCGA-AG-A015      TCGA-AG-A016 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AG-A01W      TCGA-AG-A01Y      TCGA-AG-A020      TCGA-AG-A026 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
     TCGA-AG-A02G      TCGA-AG-A02N      TCGA-AG-A02X      TCGA-AG-A036 
"CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" "CRTC1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CRTC1 MUTATED        0      0      0      4
  CRTC1 WILD-TYPE     14      6     29    167
D23V7, multiclass
        clus
vv       CRTC1 MUTATED CRTC1 WILD-TYPE
  CLUS_1             0              14
  CLUS_2             0               6
  CLUS_3             0              29
  CLUS_4             4             167
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  CRTC1 MUTATED        0      0      0      0      4      0      0
  CRTC1 WILD-TYPE      1      5      1      1    126     35     47
D23V8, multiclass
        clus
vv       CRTC1 MUTATED CRTC1 WILD-TYPE
  CLUS_1             0               1
  CLUS_2             0               5
  CLUS_3             0               1
  CLUS_4             0               1
  CLUS_5             4             126
  CLUS_6             0              35
  CLUS_7             0              47
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CRTC1 MUTATED        0      0      4
  CRTC1 WILD-TYPE      3      9    190
D23V9, multiclass
        clus
vv       CRTC1 MUTATED CRTC1 WILD-TYPE
  CLUS_1             0               3
  CLUS_2             0               9
  CLUS_3             4             190
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CRTC1 MUTATED        0      1      3
  CRTC1 WILD-TYPE      7     61    134
D23V10, multiclass
        clus
vv       CRTC1 MUTATED CRTC1 WILD-TYPE
  CLUS_1             0               7
  CLUS_2             1              61
  CLUS_3             3             134
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(24) Variable = CASP8 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CASP8 MUTATED        6      0      0      3
  CASP8 WILD-TYPE     36     57     67     36
D24V1, multiclass
        clus
vv       CASP8 MUTATED CASP8 WILD-TYPE
  CLUS_1             6              36
  CLUS_2             0              57
  CLUS_3             0              67
  CLUS_4             3              36
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CASP8 MUTATED        9      0      0      0
  CASP8 WILD-TYPE     39     37     73     47
D24V2, multiclass
        clus
vv       CASP8 MUTATED CASP8 WILD-TYPE
  CLUS_1             9              39
  CLUS_2             0              37
  CLUS_3             0              73
  CLUS_4             0              47
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CASP8 MUTATED       10      0      0
  CASP8 WILD-TYPE     77     79     54
D24V3, multiclass
        clus
vv       CASP8 MUTATED CASP8 WILD-TYPE
  CLUS_1            10              77
  CLUS_2             0              79
  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
  CASP8 MUTATED        0      0      0
  CASP8 WILD-TYPE      1      5      2
D24V4, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CASP8 MUTATED        4      1      0      3
  CASP8 WILD-TYPE     36     66     24     23
D24V5, multiclass
        clus
vv       CASP8 MUTATED CASP8 WILD-TYPE
  CLUS_1             4              36
  CLUS_2             1              66
  CLUS_3             0              24
  CLUS_4             3              23
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CASP8 MUTATED        1      5      2
  CASP8 WILD-TYPE     10    121     18
D24V6, multiclass
        clus
vv       CASP8 MUTATED CASP8 WILD-TYPE
  CLUS_1             1              10
  CLUS_2             5             121
  CLUS_3             2              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
  CASP8 MUTATED        0      0      1      9
  CASP8 WILD-TYPE     14      6     28    162
D24V7, multiclass
        clus
vv       CASP8 MUTATED CASP8 WILD-TYPE
  CLUS_1             0              14
  CLUS_2             0               6
  CLUS_3             1              28
  CLUS_4             9             162
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  CASP8 MUTATED        0      0      0      0      0      8      2
  CASP8 WILD-TYPE      1      5      1      1    130     27     45
D24V8, multiclass
        clus
vv       CASP8 MUTATED CASP8 WILD-TYPE
  CLUS_1             0               1
  CLUS_2             0               5
  CLUS_3             0               1
  CLUS_4             0               1
  CLUS_5             0             130
  CLUS_6             8              27
  CLUS_7             2              45
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CASP8 MUTATED        0      0      8
  CASP8 WILD-TYPE      3      9    186
D24V9, multiclass
        clus
vv       CASP8 MUTATED CASP8 WILD-TYPE
  CLUS_1             0               3
  CLUS_2             0               9
  CLUS_3             8             186
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CASP8 MUTATED        1      0      7
  CASP8 WILD-TYPE      6     62    130
D24V10, multiclass
        clus
vv       CASP8 MUTATED CASP8 WILD-TYPE
  CLUS_1             1               6
  CLUS_2             0              62
  CLUS_3             7             130
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(25) Variable = CACNG3 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CACNG3 MUTATED        4      1      0      3
  CACNG3 WILD-TYPE     38     56     67     36
D25V1, multiclass
        clus
vv       CACNG3 MUTATED CACNG3 WILD-TYPE
  CLUS_1              4               38
  CLUS_2              1               56
  CLUS_3              0               67
  CLUS_4              3               36
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CACNG3 MUTATED        4      1      3      0
  CACNG3 WILD-TYPE     44     36     70     47
D25V2, multiclass
        clus
vv       CACNG3 MUTATED CACNG3 WILD-TYPE
  CLUS_1              4               44
  CLUS_2              1               36
  CLUS_3              3               70
  CLUS_4              0               47
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CACNG3 MUTATED        7      0      0
  CACNG3 WILD-TYPE     80     79     54
D25V3, multiclass
        clus
vv       CACNG3 MUTATED CACNG3 WILD-TYPE
  CLUS_1              7               80
  CLUS_2              0               79
  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
  CACNG3 MUTATED        0      0      0
  CACNG3 WILD-TYPE      1      5      2
D25V4, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CACNG3 MUTATED        1      1      1      3
  CACNG3 WILD-TYPE     39     66     23     23
D25V5, multiclass
        clus
vv       CACNG3 MUTATED CACNG3 WILD-TYPE
  CLUS_1              1               39
  CLUS_2              1               66
  CLUS_3              1               23
  CLUS_4              3               23
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CACNG3 MUTATED        1      4      1
  CACNG3 WILD-TYPE     10    122     19
D25V6, multiclass
        clus
vv       CACNG3 MUTATED CACNG3 WILD-TYPE
  CLUS_1              1               10
  CLUS_2              4              122
  CLUS_3              1               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
  CACNG3 MUTATED        0      1      2      5
  CACNG3 WILD-TYPE     14      5     27    166
D25V7, multiclass
        clus
vv       CACNG3 MUTATED CACNG3 WILD-TYPE
  CLUS_1              0               14
  CLUS_2              1                5
  CLUS_3              2               27
  CLUS_4              5              166
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  CACNG3 MUTATED        1      0      0      0      2      3      2
  CACNG3 WILD-TYPE      0      5      1      1    128     32     45
D25V8, multiclass
        clus
vv       CACNG3 MUTATED CACNG3 WILD-TYPE
  CLUS_1              1                0
  CLUS_2              0                5
  CLUS_3              0                1
  CLUS_4              0                1
  CLUS_5              2              128
  CLUS_6              3               32
  CLUS_7              2               45
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CACNG3 MUTATED        0      1      7
  CACNG3 WILD-TYPE      3      8    187
D25V9, multiclass
        clus
vv       CACNG3 MUTATED CACNG3 WILD-TYPE
  CLUS_1              0                3
  CLUS_2              1                8
  CLUS_3              7              187
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CACNG3 MUTATED        2      1      5
  CACNG3 WILD-TYPE      5     61    132
D25V10, multiclass
        clus
vv       CACNG3 MUTATED CACNG3 WILD-TYPE
  CLUS_1              2                5
  CLUS_2              1               61
  CLUS_3              5              132
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(26) Variable = PCDHGA7 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PCDHGA7 MUTATED        2      0      2      1
  PCDHGA7 WILD-TYPE     40     57     65     38
D26V1, multiclass
        clus
vv       PCDHGA7 MUTATED PCDHGA7 WILD-TYPE
  CLUS_1               2                40
  CLUS_2               0                57
  CLUS_3               2                65
  CLUS_4               1                38
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PCDHGA7 MUTATED        2      0      1      2
  PCDHGA7 WILD-TYPE     46     37     72     45
D26V2, multiclass
        clus
vv       PCDHGA7 MUTATED PCDHGA7 WILD-TYPE
  CLUS_1               2                46
  CLUS_2               0                37
  CLUS_3               1                72
  CLUS_4               2                45
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PCDHGA7 MUTATED        3      0      2
  PCDHGA7 WILD-TYPE     84     79     52
D26V3, multiclass
        clus
vv       PCDHGA7 MUTATED PCDHGA7 WILD-TYPE
  CLUS_1               3                84
  CLUS_2               0                79
  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
  PCDHGA7 MUTATED        0      0      0
  PCDHGA7 WILD-TYPE      1      5      2
D26V4, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PCDHGA7 MUTATED        1      0      0      1
  PCDHGA7 WILD-TYPE     39     67     24     25
D26V5, multiclass
[1] "Remove cluster labels:" "PCDHGA7 MUTATED"       
clus
  PCDHGA7 MUTATED PCDHGA7 WILD-TYPE 
                2               155 
       TCGA-A6-2672        TCGA-A6-2676        TCGA-A6-2677        TCGA-A6-2678 
"PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" 
       TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808        TCGA-A6-3810 
"PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" 
       TCGA-AA-3514        TCGA-AA-3517        TCGA-AA-3519        TCGA-AA-3520 
"PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3525        TCGA-AA-3529 
"PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" 
       TCGA-AA-3530        TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534 
"PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" 
       TCGA-AA-3548        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3558        TCGA-AA-3560        TCGA-AA-3561 
"PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" 
       TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3672        TCGA-AA-3681 
"PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" 
       TCGA-AA-3688        TCGA-AA-3695        TCGA-AA-3696        TCGA-AA-3710 
"PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" 
       TCGA-AA-3715        TCGA-AA-3811        TCGA-AA-3812        TCGA-AA-3814 
"PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" 
       TCGA-AA-3818        TCGA-AA-3819        TCGA-AA-3831        TCGA-AA-3833 
"PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" 
       TCGA-AA-3837        TCGA-AA-3844        TCGA-AA-3845        TCGA-AA-3848 
"PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" 
       TCGA-AA-3850        TCGA-AA-3852        TCGA-AA-3854        TCGA-AA-3856 
"PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" 
       TCGA-AA-3864        TCGA-AA-3866        TCGA-AA-3869        TCGA-AA-3872 
"PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" 
       TCGA-AA-3930        TCGA-AA-3947        TCGA-AA-3955        TCGA-AA-3971 
"PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" 
       TCGA-AA-3972        TCGA-AA-3973        TCGA-AA-3975        TCGA-AA-3982 
"PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" 
       TCGA-AA-3986        TCGA-AA-3989        TCGA-AA-A004        TCGA-AA-A00A 
"PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" 
       TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J        TCGA-AA-A00K 
"PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" 
       TCGA-AA-A00L        TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U 
"PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" 
       TCGA-AA-A00W        TCGA-AA-A00Z        TCGA-AA-A010        TCGA-AA-A017 
"PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" 
       TCGA-AA-A01D        TCGA-AA-A01F        TCGA-AA-A01I        TCGA-AA-A01K 
"PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" 
       TCGA-AA-A01P        TCGA-AA-A01Q        TCGA-AA-A01R        TCGA-AA-A01S 
"PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" 
       TCGA-AA-A01T        TCGA-AA-A01V        TCGA-AA-A01X        TCGA-AA-A022 
"PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" 
       TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F        TCGA-AA-A02H 
"PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" 
       TCGA-AA-A02J        TCGA-AA-A02O        TCGA-AA-A02W        TCGA-AA-A02Y 
"PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" 
       TCGA-AA-A03F        TCGA-AA-A03J        TCGA-AF-2689        TCGA-AF-3400 
"PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" 
       TCGA-AF-3913        TCGA-AG-3574        TCGA-AG-3578        TCGA-AG-3580 
"PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" 
       TCGA-AG-3581        TCGA-AG-3582        TCGA-AG-3583        TCGA-AG-3584 
"PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" 
       TCGA-AG-3586        TCGA-AG-3587        TCGA-AG-3593        TCGA-AG-3594 
"PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" 
       TCGA-AG-3598        TCGA-AG-3599        TCGA-AG-3600        TCGA-AG-3601 
"PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" 
       TCGA-AG-3602        TCGA-AG-3605        TCGA-AG-3609        TCGA-AG-3612 
"PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" 
       TCGA-AG-3727        TCGA-AG-3878        TCGA-AG-3881        TCGA-AG-3882 
"PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" 
       TCGA-AG-3893        TCGA-AG-3896        TCGA-AG-3898        TCGA-AG-3901 
"PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" 
       TCGA-AG-3902        TCGA-AG-4001        TCGA-AG-4005        TCGA-AG-4007 
"PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" 
       TCGA-AG-4008        TCGA-AG-4015        TCGA-AG-A002        TCGA-AG-A008 
"PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" 
       TCGA-AG-A00C        TCGA-AG-A00H        TCGA-AG-A00Y        TCGA-AG-A011 
"PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" 
       TCGA-AG-A014        TCGA-AG-A015        TCGA-AG-A016        TCGA-AG-A01W 
"PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" 
       TCGA-AG-A01Y        TCGA-AG-A020        TCGA-AG-A026        TCGA-AG-A02G 
"PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" 
       TCGA-AG-A02N        TCGA-AG-A02X        TCGA-AG-A036 
"PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PCDHGA7 MUTATED        0      1      1
  PCDHGA7 WILD-TYPE     11    125     19
D26V6, multiclass
[1] "Remove cluster labels:" "PCDHGA7 MUTATED"       
clus
  PCDHGA7 MUTATED PCDHGA7 WILD-TYPE 
                2               155 
       TCGA-A6-2672        TCGA-A6-2676        TCGA-A6-2677        TCGA-A6-2678 
"PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" 
       TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3808        TCGA-A6-3810 
"PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" 
       TCGA-AA-3514        TCGA-AA-3517        TCGA-AA-3519        TCGA-AA-3520 
"PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" 
       TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3525        TCGA-AA-3529 
"PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" 
       TCGA-AA-3530        TCGA-AA-3531        TCGA-AA-3532        TCGA-AA-3534 
"PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" 
       TCGA-AA-3548        TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554 
"PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" 
       TCGA-AA-3555        TCGA-AA-3558        TCGA-AA-3560        TCGA-AA-3561 
"PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" 
       TCGA-AA-3562        TCGA-AA-3664        TCGA-AA-3672        TCGA-AA-3681 
"PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" 
       TCGA-AA-3688        TCGA-AA-3695        TCGA-AA-3696        TCGA-AA-3710 
"PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" 
       TCGA-AA-3715        TCGA-AA-3811        TCGA-AA-3812        TCGA-AA-3814 
"PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" 
       TCGA-AA-3818        TCGA-AA-3819        TCGA-AA-3831        TCGA-AA-3833 
"PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" 
       TCGA-AA-3837        TCGA-AA-3844        TCGA-AA-3845        TCGA-AA-3848 
"PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" 
       TCGA-AA-3850        TCGA-AA-3852        TCGA-AA-3854        TCGA-AA-3856 
"PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" 
       TCGA-AA-3864        TCGA-AA-3866        TCGA-AA-3869        TCGA-AA-3872 
"PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" 
       TCGA-AA-3930        TCGA-AA-3947        TCGA-AA-3955        TCGA-AA-3971 
"PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" 
       TCGA-AA-3972        TCGA-AA-3973        TCGA-AA-3975        TCGA-AA-3982 
"PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" 
       TCGA-AA-3986        TCGA-AA-3989        TCGA-AA-A004        TCGA-AA-A00A 
"PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" 
       TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J        TCGA-AA-A00K 
"PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" 
       TCGA-AA-A00L        TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U 
"PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" 
       TCGA-AA-A00W        TCGA-AA-A00Z        TCGA-AA-A010        TCGA-AA-A017 
"PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" 
       TCGA-AA-A01D        TCGA-AA-A01F        TCGA-AA-A01I        TCGA-AA-A01K 
"PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" 
       TCGA-AA-A01P        TCGA-AA-A01Q        TCGA-AA-A01R        TCGA-AA-A01S 
"PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" 
       TCGA-AA-A01T        TCGA-AA-A01V        TCGA-AA-A01X        TCGA-AA-A022 
"PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" 
       TCGA-AA-A024        TCGA-AA-A029        TCGA-AA-A02F        TCGA-AA-A02H 
"PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" 
       TCGA-AA-A02J        TCGA-AA-A02O        TCGA-AA-A02W        TCGA-AA-A02Y 
"PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" 
       TCGA-AA-A03F        TCGA-AA-A03J        TCGA-AF-2689        TCGA-AF-3400 
"PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" 
       TCGA-AF-3913        TCGA-AG-3574        TCGA-AG-3578        TCGA-AG-3580 
"PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" 
       TCGA-AG-3581        TCGA-AG-3582        TCGA-AG-3583        TCGA-AG-3584 
"PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" 
       TCGA-AG-3586        TCGA-AG-3587        TCGA-AG-3593        TCGA-AG-3594 
"PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" 
       TCGA-AG-3598        TCGA-AG-3599        TCGA-AG-3600        TCGA-AG-3601 
"PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" 
       TCGA-AG-3602        TCGA-AG-3605        TCGA-AG-3609        TCGA-AG-3612 
"PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" 
       TCGA-AG-3727        TCGA-AG-3878        TCGA-AG-3881        TCGA-AG-3882 
"PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" 
       TCGA-AG-3893        TCGA-AG-3896        TCGA-AG-3898        TCGA-AG-3901 
"PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" 
       TCGA-AG-3902        TCGA-AG-4001        TCGA-AG-4005        TCGA-AG-4007 
"PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" 
       TCGA-AG-4008        TCGA-AG-4015        TCGA-AG-A002        TCGA-AG-A008 
"PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" 
       TCGA-AG-A00C        TCGA-AG-A00H        TCGA-AG-A00Y        TCGA-AG-A011 
"PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" 
       TCGA-AG-A014        TCGA-AG-A015        TCGA-AG-A016        TCGA-AG-A01W 
"PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" 
       TCGA-AG-A01Y        TCGA-AG-A020        TCGA-AG-A026        TCGA-AG-A02G 
"PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" 
       TCGA-AG-A02N        TCGA-AG-A02X        TCGA-AG-A036 
"PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" "PCDHGA7 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PCDHGA7 MUTATED        0      0      1      4
  PCDHGA7 WILD-TYPE     14      6     28    167
D26V7, multiclass
        clus
vv       PCDHGA7 MUTATED PCDHGA7 WILD-TYPE
  CLUS_1               0                14
  CLUS_2               0                 6
  CLUS_3               1                28
  CLUS_4               4               167
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  PCDHGA7 MUTATED        0      0      0      0      3      1      1
  PCDHGA7 WILD-TYPE      1      5      1      1    127     34     46
D26V8, multiclass
        clus
vv       PCDHGA7 MUTATED PCDHGA7 WILD-TYPE
  CLUS_1               0                 1
  CLUS_2               0                 5
  CLUS_3               0                 1
  CLUS_4               0                 1
  CLUS_5               3               127
  CLUS_6               1                34
  CLUS_7               1                46
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PCDHGA7 MUTATED        0      0      4
  PCDHGA7 WILD-TYPE      3      9    190
D26V9, multiclass
        clus
vv       PCDHGA7 MUTATED PCDHGA7 WILD-TYPE
  CLUS_1               0                 3
  CLUS_2               0                 9
  CLUS_3               4               190
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PCDHGA7 MUTATED        0      2      2
  PCDHGA7 WILD-TYPE      7     60    135
D26V10, multiclass
        clus
vv       PCDHGA7 MUTATED PCDHGA7 WILD-TYPE
  CLUS_1               0                 7
  CLUS_2               2                60
  CLUS_3               2               135
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(27) Variable = CCBP2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CCBP2 MUTATED        3      2      1      4
  CCBP2 WILD-TYPE     39     55     66     35
D27V1, multiclass
        clus
vv       CCBP2 MUTATED CCBP2 WILD-TYPE
  CLUS_1             3              39
  CLUS_2             2              55
  CLUS_3             1              66
  CLUS_4             4              35
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CCBP2 MUTATED        3      0      7      0
  CCBP2 WILD-TYPE     45     37     66     47
D27V2, multiclass
        clus
vv       CCBP2 MUTATED CCBP2 WILD-TYPE
  CLUS_1             3              45
  CLUS_2             0              37
  CLUS_3             7              66
  CLUS_4             0              47
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CCBP2 MUTATED        6      3      1
  CCBP2 WILD-TYPE     81     76     53
D27V3, multiclass
        clus
vv       CCBP2 MUTATED CCBP2 WILD-TYPE
  CLUS_1             6              81
  CLUS_2             3              76
  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
  CCBP2 MUTATED        0      0      0
  CCBP2 WILD-TYPE      1      5      2
D27V4, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CCBP2 MUTATED        2      2      0      4
  CCBP2 WILD-TYPE     38     65     24     22
D27V5, multiclass
        clus
vv       CCBP2 MUTATED CCBP2 WILD-TYPE
  CLUS_1             2              38
  CLUS_2             2              65
  CLUS_3             0              24
  CLUS_4             4              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
  CCBP2 MUTATED        0      7      1
  CCBP2 WILD-TYPE     11    119     19
D27V6, multiclass
        clus
vv       CCBP2 MUTATED CCBP2 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             7             119
  CLUS_3             1              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
  CCBP2 MUTATED        0      0      3      7
  CCBP2 WILD-TYPE     14      6     26    164
D27V7, multiclass
        clus
vv       CCBP2 MUTATED CCBP2 WILD-TYPE
  CLUS_1             0              14
  CLUS_2             0               6
  CLUS_3             3              26
  CLUS_4             7             164
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  CCBP2 MUTATED        1      0      0      0      4      3      2
  CCBP2 WILD-TYPE      0      5      1      1    126     32     45
D27V8, multiclass
        clus
vv       CCBP2 MUTATED CCBP2 WILD-TYPE
  CLUS_1             1               0
  CLUS_2             0               5
  CLUS_3             0               1
  CLUS_4             0               1
  CLUS_5             4             126
  CLUS_6             3              32
  CLUS_7             2              45
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CCBP2 MUTATED        0      0      9
  CCBP2 WILD-TYPE      3      9    185
D27V9, multiclass
        clus
vv       CCBP2 MUTATED CCBP2 WILD-TYPE
  CLUS_1             0               3
  CLUS_2             0               9
  CLUS_3             9             185
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CCBP2 MUTATED        1      2      6
  CCBP2 WILD-TYPE      6     60    131
D27V10, multiclass
        clus
vv       CCBP2 MUTATED CCBP2 WILD-TYPE
  CLUS_1             1               6
  CLUS_2             2              60
  CLUS_3             6             131
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(28) Variable = MAP2K4 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MAP2K4 MUTATED        3      1      4      3
  MAP2K4 WILD-TYPE     39     56     63     36
D28V1, multiclass
        clus
vv       MAP2K4 MUTATED MAP2K4 WILD-TYPE
  CLUS_1              3               39
  CLUS_2              1               56
  CLUS_3              4               63
  CLUS_4              3               36
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MAP2K4 MUTATED        5      1      3      2
  MAP2K4 WILD-TYPE     43     36     70     45
D28V2, multiclass
        clus
vv       MAP2K4 MUTATED MAP2K4 WILD-TYPE
  CLUS_1              5               43
  CLUS_2              1               36
  CLUS_3              3               70
  CLUS_4              2               45
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  MAP2K4 MUTATED        8      3      0
  MAP2K4 WILD-TYPE     79     76     54
D28V3, multiclass
        clus
vv       MAP2K4 MUTATED MAP2K4 WILD-TYPE
  CLUS_1              8               79
  CLUS_2              3               76
  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
  MAP2K4 MUTATED        0      0      0
  MAP2K4 WILD-TYPE      1      5      2
D28V4, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MAP2K4 MUTATED        1      4      0      4
  MAP2K4 WILD-TYPE     39     63     24     22
D28V5, multiclass
        clus
vv       MAP2K4 MUTATED MAP2K4 WILD-TYPE
  CLUS_1              1               39
  CLUS_2              4               63
  CLUS_3              0               24
  CLUS_4              4               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
  MAP2K4 MUTATED        0      7      2
  MAP2K4 WILD-TYPE     11    119     18
D28V6, multiclass
        clus
vv       MAP2K4 MUTATED MAP2K4 WILD-TYPE
  CLUS_1              0               11
  CLUS_2              7              119
  CLUS_3              2               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
  MAP2K4 MUTATED        0      0      3      8
  MAP2K4 WILD-TYPE     14      6     26    163
D28V7, multiclass
        clus
vv       MAP2K4 MUTATED MAP2K4 WILD-TYPE
  CLUS_1              0               14
  CLUS_2              0                6
  CLUS_3              3               26
  CLUS_4              8              163
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  MAP2K4 MUTATED        0      0      0      0      5      3      3
  MAP2K4 WILD-TYPE      1      5      1      1    125     32     44
D28V8, multiclass
        clus
vv       MAP2K4 MUTATED MAP2K4 WILD-TYPE
  CLUS_1              0                1
  CLUS_2              0                5
  CLUS_3              0                1
  CLUS_4              0                1
  CLUS_5              5              125
  CLUS_6              3               32
  CLUS_7              3               44
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  MAP2K4 MUTATED        0      0      9
  MAP2K4 WILD-TYPE      3      9    185
D28V9, multiclass
        clus
vv       MAP2K4 MUTATED MAP2K4 WILD-TYPE
  CLUS_1              0                3
  CLUS_2              0                9
  CLUS_3              9              185
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  MAP2K4 MUTATED        1      2      6
  MAP2K4 WILD-TYPE      6     60    131
D28V10, multiclass
        clus
vv       MAP2K4 MUTATED MAP2K4 WILD-TYPE
  CLUS_1              1                6
  CLUS_2              2               60
  CLUS_3              6              131
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(29) Variable = PCDHGA9 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PCDHGA9 MUTATED        2      1      0      3
  PCDHGA9 WILD-TYPE     40     56     67     36
D29V1, multiclass
        clus
vv       PCDHGA9 MUTATED PCDHGA9 WILD-TYPE
  CLUS_1               2                40
  CLUS_2               1                56
  CLUS_3               0                67
  CLUS_4               3                36
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PCDHGA9 MUTATED        4      1      1      0
  PCDHGA9 WILD-TYPE     44     36     72     47
D29V2, multiclass
        clus
vv       PCDHGA9 MUTATED PCDHGA9 WILD-TYPE
  CLUS_1               4                44
  CLUS_2               1                36
  CLUS_3               1                72
  CLUS_4               0                47
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PCDHGA9 MUTATED        3      1      2
  PCDHGA9 WILD-TYPE     84     78     52
D29V3, multiclass
        clus
vv       PCDHGA9 MUTATED PCDHGA9 WILD-TYPE
  CLUS_1               3                84
  CLUS_2               1                78
  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
  PCDHGA9 MUTATED        0      0      0
  PCDHGA9 WILD-TYPE      1      5      2
D29V4, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PCDHGA9 MUTATED        1      1      1      1
  PCDHGA9 WILD-TYPE     39     66     23     25
D29V5, multiclass
        clus
vv       PCDHGA9 MUTATED PCDHGA9 WILD-TYPE
  CLUS_1               1                39
  CLUS_2               1                66
  CLUS_3               1                23
  CLUS_4               1                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
  PCDHGA9 MUTATED        0      3      1
  PCDHGA9 WILD-TYPE     11    123     19
D29V6, multiclass
        clus
vv       PCDHGA9 MUTATED PCDHGA9 WILD-TYPE
  CLUS_1               0                11
  CLUS_2               3               123
  CLUS_3               1                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
  PCDHGA9 MUTATED        0      0      2      4
  PCDHGA9 WILD-TYPE     14      6     27    167
D29V7, multiclass
        clus
vv       PCDHGA9 MUTATED PCDHGA9 WILD-TYPE
  CLUS_1               0                14
  CLUS_2               0                 6
  CLUS_3               2                27
  CLUS_4               4               167
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  PCDHGA9 MUTATED        0      0      0      0      1      3      2
  PCDHGA9 WILD-TYPE      1      5      1      1    129     32     45
D29V8, multiclass
        clus
vv       PCDHGA9 MUTATED PCDHGA9 WILD-TYPE
  CLUS_1               0                 1
  CLUS_2               0                 5
  CLUS_3               0                 1
  CLUS_4               0                 1
  CLUS_5               1               129
  CLUS_6               3                32
  CLUS_7               2                45
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PCDHGA9 MUTATED        0      0      6
  PCDHGA9 WILD-TYPE      3      9    188
D29V9, multiclass
        clus
vv       PCDHGA9 MUTATED PCDHGA9 WILD-TYPE
  CLUS_1               0                 3
  CLUS_2               0                 9
  CLUS_3               6               188
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PCDHGA9 MUTATED        0      1      5
  PCDHGA9 WILD-TYPE      7     61    132
D29V10, multiclass
        clus
vv       PCDHGA9 MUTATED PCDHGA9 WILD-TYPE
  CLUS_1               0                 7
  CLUS_2               1                61
  CLUS_3               5               132
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(30) Variable = RBM10 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RBM10 MUTATED        2      1      1      3
  RBM10 WILD-TYPE     40     56     66     36
D30V1, multiclass
        clus
vv       RBM10 MUTATED RBM10 WILD-TYPE
  CLUS_1             2              40
  CLUS_2             1              56
  CLUS_3             1              66
  CLUS_4             3              36
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RBM10 MUTATED        3      1      2      1
  RBM10 WILD-TYPE     45     36     71     46
D30V2, multiclass
        clus
vv       RBM10 MUTATED RBM10 WILD-TYPE
  CLUS_1             3              45
  CLUS_2             1              36
  CLUS_3             2              71
  CLUS_4             1              46
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RBM10 MUTATED        4      2      2
  RBM10 WILD-TYPE     83     77     52
D30V3, multiclass
        clus
vv       RBM10 MUTATED RBM10 WILD-TYPE
  CLUS_1             4              83
  CLUS_2             2              77
  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
  RBM10 MUTATED        0      0      0
  RBM10 WILD-TYPE      1      5      2
D30V4, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RBM10 MUTATED        0      4      0      2
  RBM10 WILD-TYPE     40     63     24     24
D30V5, multiclass
        clus
vv       RBM10 MUTATED RBM10 WILD-TYPE
  CLUS_1             0              40
  CLUS_2             4              63
  CLUS_3             0              24
  CLUS_4             2              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
  RBM10 MUTATED        0      5      1
  RBM10 WILD-TYPE     11    121     19
D30V6, multiclass
        clus
vv       RBM10 MUTATED RBM10 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             5             121
  CLUS_3             1              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
  RBM10 MUTATED        0      0      1      6
  RBM10 WILD-TYPE     14      6     28    165
D30V7, multiclass
        clus
vv       RBM10 MUTATED RBM10 WILD-TYPE
  CLUS_1             0              14
  CLUS_2             0               6
  CLUS_3             1              28
  CLUS_4             6             165
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will 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      1      0      0      3      3      0
  RBM10 WILD-TYPE      1      4      1      1    127     32     47
D30V8, multiclass
        clus
vv       RBM10 MUTATED RBM10 WILD-TYPE
  CLUS_1             0               1
  CLUS_2             1               4
  CLUS_3             0               1
  CLUS_4             0               1
  CLUS_5             3             127
  CLUS_6             3              32
  CLUS_7             0              47
[1] 7 2
[1] TRUE
[1] "dimension of contingency table 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      8
  RBM10 WILD-TYPE      3      9    186
D30V9, multiclass
        clus
vv       RBM10 MUTATED RBM10 WILD-TYPE
  CLUS_1             0               3
  CLUS_2             0               9
  CLUS_3             8             186
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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      2      6
  RBM10 WILD-TYPE      7     60    131
D30V10, multiclass
        clus
vv       RBM10 MUTATED RBM10 WILD-TYPE
  CLUS_1             0               7
  CLUS_2             2              60
  CLUS_3             6             131
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(31) Variable = PTEN MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PTEN MUTATED        2      0      1      4
  PTEN WILD-TYPE     40     57     66     35
D31V1, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1            2             40
  CLUS_2            0             57
  CLUS_3            1             66
  CLUS_4            4             35
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PTEN MUTATED        3      1      3      0
  PTEN WILD-TYPE     45     36     70     47
D31V2, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1            3             45
  CLUS_2            1             36
  CLUS_3            3             70
  CLUS_4            0             47
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PTEN MUTATED        6      0      1
  PTEN WILD-TYPE     81     79     53
D31V3, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1            6             81
  CLUS_2            0             79
  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
  PTEN MUTATED        0      0      0
  PTEN WILD-TYPE      1      5      2
D31V4, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PTEN MUTATED        2      1      0      1
  PTEN WILD-TYPE     38     66     24     25
D31V5, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1            2             38
  CLUS_2            1             66
  CLUS_3            0             24
  CLUS_4            1             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
  PTEN MUTATED        0      4      0
  PTEN WILD-TYPE     11    122     20
D31V6, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1            0             11
  CLUS_2            4            122
  CLUS_3            0             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
  PTEN MUTATED        0      1      2      4
  PTEN WILD-TYPE     14      5     27    167
D31V7, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1            0             14
  CLUS_2            1              5
  CLUS_3            2             27
  CLUS_4            4            167
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  PTEN MUTATED        1      0      0      0      0      1      5
  PTEN WILD-TYPE      0      5      1      1    130     34     42
D31V8, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1            1              0
  CLUS_2            0              5
  CLUS_3            0              1
  CLUS_4            0              1
  CLUS_5            0            130
  CLUS_6            1             34
  CLUS_7            5             42
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PTEN MUTATED        0      1      6
  PTEN WILD-TYPE      3      8    188
D31V9, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1            0              3
  CLUS_2            1              8
  CLUS_3            6            188
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PTEN MUTATED        2      1      4
  PTEN WILD-TYPE      5     61    133
D31V10, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1            2              5
  CLUS_2            1             61
  CLUS_3            4            133
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(32) Variable = DNMT1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DNMT1 MUTATED        4      2      2      7
  DNMT1 WILD-TYPE     38     55     65     32
D32V1, multiclass
        clus
vv       DNMT1 MUTATED DNMT1 WILD-TYPE
  CLUS_1             4              38
  CLUS_2             2              55
  CLUS_3             2              65
  CLUS_4             7              32
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DNMT1 MUTATED        8      1      3      3
  DNMT1 WILD-TYPE     40     36     70     44
D32V2, multiclass
        clus
vv       DNMT1 MUTATED DNMT1 WILD-TYPE
  CLUS_1             8              40
  CLUS_2             1              36
  CLUS_3             3              70
  CLUS_4             3              44
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DNMT1 MUTATED       11      4      2
  DNMT1 WILD-TYPE     76     75     52
D32V3, multiclass
        clus
vv       DNMT1 MUTATED DNMT1 WILD-TYPE
  CLUS_1            11              76
  CLUS_2             4              75
  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
  DNMT1 MUTATED        0      0      1
  DNMT1 WILD-TYPE      1      5      1
D32V4, multiclass
[1] "Remove cluster labels:" "DNMT1 MUTATED"         
clus
  DNMT1 MUTATED DNMT1 WILD-TYPE 
              1               7 
     TCGA-A6-2677      TCGA-A6-3810      TCGA-AG-A01W      TCGA-AG-A01Y 
"DNMT1 WILD-TYPE" "DNMT1 WILD-TYPE" "DNMT1 WILD-TYPE" "DNMT1 WILD-TYPE" 
     TCGA-AG-A020      TCGA-AG-A026      TCGA-AG-A036 
"DNMT1 WILD-TYPE" "DNMT1 WILD-TYPE" "DNMT1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DNMT1 MUTATED        2      4      1      6
  DNMT1 WILD-TYPE     38     63     23     20
D32V5, multiclass
        clus
vv       DNMT1 MUTATED DNMT1 WILD-TYPE
  CLUS_1             2              38
  CLUS_2             4              63
  CLUS_3             1              23
  CLUS_4             6              20
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DNMT1 MUTATED        1      9      3
  DNMT1 WILD-TYPE     10    117     17
D32V6, multiclass
        clus
vv       DNMT1 MUTATED DNMT1 WILD-TYPE
  CLUS_1             1              10
  CLUS_2             9             117
  CLUS_3             3              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
  DNMT1 MUTATED        0      0      4     12
  DNMT1 WILD-TYPE     14      6     25    159
D32V7, multiclass
        clus
vv       DNMT1 MUTATED DNMT1 WILD-TYPE
  CLUS_1             0              14
  CLUS_2             0               6
  CLUS_3             4              25
  CLUS_4            12             159
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  DNMT1 MUTATED        1      1      0      0      4      6      4
  DNMT1 WILD-TYPE      0      4      1      1    126     29     43
D32V8, multiclass
        clus
vv       DNMT1 MUTATED DNMT1 WILD-TYPE
  CLUS_1             1               0
  CLUS_2             1               4
  CLUS_3             0               1
  CLUS_4             0               1
  CLUS_5             4             126
  CLUS_6             6              29
  CLUS_7             4              43
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DNMT1 MUTATED        0      0     15
  DNMT1 WILD-TYPE      3      9    179
D32V9, multiclass
        clus
vv       DNMT1 MUTATED DNMT1 WILD-TYPE
  CLUS_1             0               3
  CLUS_2             0               9
  CLUS_3            15             179
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DNMT1 MUTATED        1      1     13
  DNMT1 WILD-TYPE      6     61    124
D32V10, multiclass
        clus
vv       DNMT1 MUTATED DNMT1 WILD-TYPE
  CLUS_1             1               6
  CLUS_2             1              61
  CLUS_3            13             124
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(33) Variable = BCOR MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  BCOR MUTATED        3      0      1      4
  BCOR WILD-TYPE     39     57     66     35
D33V1, multiclass
        clus
vv       BCOR MUTATED BCOR WILD-TYPE
  CLUS_1            3             39
  CLUS_2            0             57
  CLUS_3            1             66
  CLUS_4            4             35
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  BCOR MUTATED        4      1      1      2
  BCOR WILD-TYPE     44     36     72     45
D33V2, multiclass
        clus
vv       BCOR MUTATED BCOR WILD-TYPE
  CLUS_1            4             44
  CLUS_2            1             36
  CLUS_3            1             72
  CLUS_4            2             45
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  BCOR MUTATED        8      0      1
  BCOR WILD-TYPE     79     79     53
D33V3, multiclass
        clus
vv       BCOR MUTATED BCOR WILD-TYPE
  CLUS_1            8             79
  CLUS_2            0             79
  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
  BCOR MUTATED        0      0      0
  BCOR WILD-TYPE      1      5      2
D33V4, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  BCOR MUTATED        1      5      0      2
  BCOR WILD-TYPE     39     62     24     24
D33V5, multiclass
        clus
vv       BCOR MUTATED BCOR WILD-TYPE
  CLUS_1            1             39
  CLUS_2            5             62
  CLUS_3            0             24
  CLUS_4            2             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
  BCOR MUTATED        0      7      1
  BCOR WILD-TYPE     11    119     19
D33V6, multiclass
        clus
vv       BCOR MUTATED BCOR WILD-TYPE
  CLUS_1            0             11
  CLUS_2            7            119
  CLUS_3            1             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
  BCOR MUTATED        0      0      2      7
  BCOR WILD-TYPE     14      6     27    164
D33V7, multiclass
        clus
vv       BCOR MUTATED BCOR WILD-TYPE
  CLUS_1            0             14
  CLUS_2            0              6
  CLUS_3            2             27
  CLUS_4            7            164
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  BCOR MUTATED        0      0      0      0      1      3      5
  BCOR WILD-TYPE      1      5      1      1    129     32     42
D33V8, multiclass
        clus
vv       BCOR MUTATED BCOR WILD-TYPE
  CLUS_1            0              1
  CLUS_2            0              5
  CLUS_3            0              1
  CLUS_4            0              1
  CLUS_5            1            129
  CLUS_6            3             32
  CLUS_7            5             42
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  BCOR MUTATED        0      0      8
  BCOR WILD-TYPE      3      9    186
D33V9, multiclass
        clus
vv       BCOR MUTATED BCOR WILD-TYPE
  CLUS_1            0              3
  CLUS_2            0              9
  CLUS_3            8            186
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  BCOR MUTATED        2      1      5
  BCOR WILD-TYPE      5     61    132
D33V10, multiclass
        clus
vv       BCOR MUTATED BCOR WILD-TYPE
  CLUS_1            2              5
  CLUS_2            1             61
  CLUS_3            5            132
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(34) Variable = PCDHGB5 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PCDHGB5 MUTATED        2      2      0      3
  PCDHGB5 WILD-TYPE     40     55     67     36
D34V1, multiclass
        clus
vv       PCDHGB5 MUTATED PCDHGB5 WILD-TYPE
  CLUS_1               2                40
  CLUS_2               2                55
  CLUS_3               0                67
  CLUS_4               3                36
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PCDHGB5 MUTATED        4      2      1      0
  PCDHGB5 WILD-TYPE     44     35     72     47
D34V2, multiclass
        clus
vv       PCDHGB5 MUTATED PCDHGB5 WILD-TYPE
  CLUS_1               4                44
  CLUS_2               2                35
  CLUS_3               1                72
  CLUS_4               0                47
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PCDHGB5 MUTATED        5      0      2
  PCDHGB5 WILD-TYPE     82     79     52
D34V3, multiclass
        clus
vv       PCDHGB5 MUTATED PCDHGB5 WILD-TYPE
  CLUS_1               5                82
  CLUS_2               0                79
  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
  PCDHGB5 MUTATED        0      1      0
  PCDHGB5 WILD-TYPE      1      4      2
D34V4, multiclass
[1] "Remove cluster labels:" "PCDHGB5 MUTATED"       
clus
  PCDHGB5 MUTATED PCDHGB5 WILD-TYPE 
                1                 7 
       TCGA-A6-2677        TCGA-A6-3810        TCGA-AG-A01W        TCGA-AG-A01Y 
"PCDHGB5 WILD-TYPE" "PCDHGB5 WILD-TYPE" "PCDHGB5 WILD-TYPE" "PCDHGB5 WILD-TYPE" 
       TCGA-AG-A020        TCGA-AG-A02N        TCGA-AG-A036 
"PCDHGB5 WILD-TYPE" "PCDHGB5 WILD-TYPE" "PCDHGB5 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PCDHGB5 MUTATED        2      3      0      1
  PCDHGB5 WILD-TYPE     38     64     24     25
D34V5, multiclass
        clus
vv       PCDHGB5 MUTATED PCDHGB5 WILD-TYPE
  CLUS_1               2                38
  CLUS_2               3                64
  CLUS_3               0                24
  CLUS_4               1                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
  PCDHGB5 MUTATED        0      5      1
  PCDHGB5 WILD-TYPE     11    121     19
D34V6, multiclass
        clus
vv       PCDHGB5 MUTATED PCDHGB5 WILD-TYPE
  CLUS_1               0                11
  CLUS_2               5               121
  CLUS_3               1                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
  PCDHGB5 MUTATED        2      0      2      3
  PCDHGB5 WILD-TYPE     12      6     27    168
D34V7, multiclass
        clus
vv       PCDHGB5 MUTATED PCDHGB5 WILD-TYPE
  CLUS_1               2                12
  CLUS_2               0                 6
  CLUS_3               2                27
  CLUS_4               3               168
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  PCDHGB5 MUTATED        0      0      0      0      3      1      3
  PCDHGB5 WILD-TYPE      1      5      1      1    127     34     44
D34V8, multiclass
        clus
vv       PCDHGB5 MUTATED PCDHGB5 WILD-TYPE
  CLUS_1               0                 1
  CLUS_2               0                 5
  CLUS_3               0                 1
  CLUS_4               0                 1
  CLUS_5               3               127
  CLUS_6               1                34
  CLUS_7               3                44
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PCDHGB5 MUTATED        0      0      5
  PCDHGB5 WILD-TYPE      3      9    189
D34V9, multiclass
        clus
vv       PCDHGB5 MUTATED PCDHGB5 WILD-TYPE
  CLUS_1               0                 3
  CLUS_2               0                 9
  CLUS_3               5               189
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PCDHGB5 MUTATED        0      1      4
  PCDHGB5 WILD-TYPE      7     61    133
D34V10, multiclass
        clus
vv       PCDHGB5 MUTATED PCDHGB5 WILD-TYPE
  CLUS_1               0                 7
  CLUS_2               1                61
  CLUS_3               4               133
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(35) Variable = ZFP3 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZFP3 MUTATED        3      0      0      5
  ZFP3 WILD-TYPE     39     57     67     34
D35V1, multiclass
        clus
vv       ZFP3 MUTATED ZFP3 WILD-TYPE
  CLUS_1            3             39
  CLUS_2            0             57
  CLUS_3            0             67
  CLUS_4            5             34
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZFP3 MUTATED        5      1      2      0
  ZFP3 WILD-TYPE     43     36     71     47
D35V2, multiclass
        clus
vv       ZFP3 MUTATED ZFP3 WILD-TYPE
  CLUS_1            5             43
  CLUS_2            1             36
  CLUS_3            2             71
  CLUS_4            0             47
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ZFP3 MUTATED        8      0      0
  ZFP3 WILD-TYPE     79     79     54
D35V3, multiclass
        clus
vv       ZFP3 MUTATED ZFP3 WILD-TYPE
  CLUS_1            8             79
  CLUS_2            0             79
  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
  ZFP3 MUTATED        0      0      0
  ZFP3 WILD-TYPE      1      5      2
D35V4, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZFP3 MUTATED        0      3      1      2
  ZFP3 WILD-TYPE     40     64     23     24
D35V5, multiclass
        clus
vv       ZFP3 MUTATED ZFP3 WILD-TYPE
  CLUS_1            0             40
  CLUS_2            3             64
  CLUS_3            1             23
  CLUS_4            2             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
  ZFP3 MUTATED        0      5      1
  ZFP3 WILD-TYPE     11    121     19
D35V6, multiclass
        clus
vv       ZFP3 MUTATED ZFP3 WILD-TYPE
  CLUS_1            0             11
  CLUS_2            5            121
  CLUS_3            1             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
  ZFP3 MUTATED        0      0      3      5
  ZFP3 WILD-TYPE     14      6     26    166
D35V7, multiclass
        clus
vv       ZFP3 MUTATED ZFP3 WILD-TYPE
  CLUS_1            0             14
  CLUS_2            0              6
  CLUS_3            3             26
  CLUS_4            5            166
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  ZFP3 MUTATED        1      0      0      0      0      4      3
  ZFP3 WILD-TYPE      0      5      1      1    130     31     44
D35V8, multiclass
        clus
vv       ZFP3 MUTATED ZFP3 WILD-TYPE
  CLUS_1            1              0
  CLUS_2            0              5
  CLUS_3            0              1
  CLUS_4            0              1
  CLUS_5            0            130
  CLUS_6            4             31
  CLUS_7            3             44
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ZFP3 MUTATED        0      0      8
  ZFP3 WILD-TYPE      3      9    186
D35V9, multiclass
        clus
vv       ZFP3 MUTATED ZFP3 WILD-TYPE
  CLUS_1            0              3
  CLUS_2            0              9
  CLUS_3            8            186
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ZFP3 MUTATED        2      0      6
  ZFP3 WILD-TYPE      5     62    131
D35V10, multiclass
        clus
vv       ZFP3 MUTATED ZFP3 WILD-TYPE
  CLUS_1            2              5
  CLUS_2            0             62
  CLUS_3            6            131
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(36) Variable = RWDD2B MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RWDD2B MUTATED        4      1      0      2
  RWDD2B WILD-TYPE     38     56     67     37
D36V1, multiclass
        clus
vv       RWDD2B MUTATED RWDD2B WILD-TYPE
  CLUS_1              4               38
  CLUS_2              1               56
  CLUS_3              0               67
  CLUS_4              2               37
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RWDD2B MUTATED        3      1      2      1
  RWDD2B WILD-TYPE     45     36     71     46
D36V2, multiclass
        clus
vv       RWDD2B MUTATED RWDD2B WILD-TYPE
  CLUS_1              3               45
  CLUS_2              1               36
  CLUS_3              2               71
  CLUS_4              1               46
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  RWDD2B MUTATED        6      0      1
  RWDD2B WILD-TYPE     81     79     53
D36V3, multiclass
        clus
vv       RWDD2B MUTATED RWDD2B WILD-TYPE
  CLUS_1              6               81
  CLUS_2              0               79
  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
  RWDD2B MUTATED        0      0      0
  RWDD2B WILD-TYPE      1      5      2
D36V4, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RWDD2B MUTATED        1      1      0      1
  RWDD2B WILD-TYPE     39     66     24     25
D36V5, multiclass
        clus
vv       RWDD2B MUTATED RWDD2B WILD-TYPE
  CLUS_1              1               39
  CLUS_2              1               66
  CLUS_3              0               24
  CLUS_4              1               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
  RWDD2B MUTATED        0      2      1
  RWDD2B WILD-TYPE     11    124     19
D36V6, multiclass
        clus
vv       RWDD2B MUTATED RWDD2B WILD-TYPE
  CLUS_1              0               11
  CLUS_2              2              124
  CLUS_3              1               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
  RWDD2B MUTATED        0      0      1      6
  RWDD2B WILD-TYPE     14      6     28    165
D36V7, multiclass
        clus
vv       RWDD2B MUTATED RWDD2B WILD-TYPE
  CLUS_1              0               14
  CLUS_2              0                6
  CLUS_3              1               28
  CLUS_4              6              165
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  RWDD2B MUTATED        0      0      0      0      2      1      4
  RWDD2B WILD-TYPE      1      5      1      1    128     34     43
D36V8, multiclass
        clus
vv       RWDD2B MUTATED RWDD2B WILD-TYPE
  CLUS_1              0                1
  CLUS_2              0                5
  CLUS_3              0                1
  CLUS_4              0                1
  CLUS_5              2              128
  CLUS_6              1               34
  CLUS_7              4               43
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  RWDD2B MUTATED        0      0      6
  RWDD2B WILD-TYPE      3      9    188
D36V9, multiclass
        clus
vv       RWDD2B MUTATED RWDD2B WILD-TYPE
  CLUS_1              0                3
  CLUS_2              0                9
  CLUS_3              6              188
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  RWDD2B MUTATED        3      1      2
  RWDD2B WILD-TYPE      4     61    135
D36V10, multiclass
        clus
vv       RWDD2B MUTATED RWDD2B WILD-TYPE
  CLUS_1              3                4
  CLUS_2              1               61
  CLUS_3              2              135
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(37) Variable = TBC1D10C MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TBC1D10C MUTATED        1      0      1      1
  TBC1D10C WILD-TYPE     41     57     66     38
D37V1, multiclass
        clus
vv       TBC1D10C MUTATED TBC1D10C WILD-TYPE
  CLUS_1                1                 41
  CLUS_2                0                 57
  CLUS_3                1                 66
  CLUS_4                1                 38
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TBC1D10C MUTATED        2      0      0      1
  TBC1D10C WILD-TYPE     46     37     73     46
D37V2, multiclass
        clus
vv       TBC1D10C MUTATED TBC1D10C WILD-TYPE
  CLUS_1                2                 46
  CLUS_2                0                 37
  CLUS_3                0                 73
  CLUS_4                1                 46
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  TBC1D10C MUTATED        2      1      0
  TBC1D10C WILD-TYPE     85     78     54
D37V3, multiclass
        clus
vv       TBC1D10C MUTATED TBC1D10C WILD-TYPE
  CLUS_1                2                 85
  CLUS_2                1                 78
  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
  TBC1D10C MUTATED        0      0      0
  TBC1D10C WILD-TYPE      1      5      2
D37V4, multiclass
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TBC1D10C MUTATED        1      0      0      0
  TBC1D10C WILD-TYPE     39     67     24     26
D37V5, multiclass
[1] "Remove cluster labels:" "TBC1D10C MUTATED"      
clus
  TBC1D10C MUTATED TBC1D10C WILD-TYPE 
                 1                156 
        TCGA-A6-2672         TCGA-A6-2676         TCGA-A6-2677 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-A6-2678         TCGA-A6-2683         TCGA-A6-3807 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-A6-3808         TCGA-A6-3810         TCGA-AA-3514 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-3517         TCGA-AA-3519         TCGA-AA-3520 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-3521         TCGA-AA-3522         TCGA-AA-3525 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-3529         TCGA-AA-3530         TCGA-AA-3531 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-3532         TCGA-AA-3534         TCGA-AA-3548 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-3552         TCGA-AA-3553         TCGA-AA-3554 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-3555         TCGA-AA-3558         TCGA-AA-3560 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-3561         TCGA-AA-3562         TCGA-AA-3664 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-3672         TCGA-AA-3678         TCGA-AA-3681 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-3688         TCGA-AA-3695         TCGA-AA-3696 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-3710         TCGA-AA-3715         TCGA-AA-3811 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-3812         TCGA-AA-3814         TCGA-AA-3818 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-3819         TCGA-AA-3831         TCGA-AA-3833 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-3837         TCGA-AA-3844         TCGA-AA-3845 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-3848         TCGA-AA-3850         TCGA-AA-3852 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-3854         TCGA-AA-3856         TCGA-AA-3864 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-3866         TCGA-AA-3869         TCGA-AA-3872 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-3930         TCGA-AA-3947         TCGA-AA-3955 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-3972         TCGA-AA-3973         TCGA-AA-3975 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-3982         TCGA-AA-3986         TCGA-AA-3989 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-A004         TCGA-AA-A00A         TCGA-AA-A00E 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-A00F         TCGA-AA-A00J         TCGA-AA-A00K 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-A00L         TCGA-AA-A00N         TCGA-AA-A00Q 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-A00R         TCGA-AA-A00U         TCGA-AA-A00W 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-A00Z         TCGA-AA-A010         TCGA-AA-A017 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-A01D         TCGA-AA-A01F         TCGA-AA-A01I 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-A01K         TCGA-AA-A01P         TCGA-AA-A01Q 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-A01R         TCGA-AA-A01S         TCGA-AA-A01T 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-A01V         TCGA-AA-A01X         TCGA-AA-A022 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-A024         TCGA-AA-A029         TCGA-AA-A02F 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-A02H         TCGA-AA-A02J         TCGA-AA-A02O 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-A02W         TCGA-AA-A02Y         TCGA-AA-A03F 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-A03J         TCGA-AF-2689         TCGA-AF-3400 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AF-3913         TCGA-AG-3574         TCGA-AG-3578 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AG-3580         TCGA-AG-3581         TCGA-AG-3582 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AG-3583         TCGA-AG-3584         TCGA-AG-3586 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AG-3587         TCGA-AG-3593         TCGA-AG-3594 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AG-3598         TCGA-AG-3599         TCGA-AG-3600 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AG-3601         TCGA-AG-3602         TCGA-AG-3605 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AG-3609         TCGA-AG-3612         TCGA-AG-3727 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AG-3878         TCGA-AG-3881         TCGA-AG-3882 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AG-3893         TCGA-AG-3896         TCGA-AG-3898 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AG-3901         TCGA-AG-3902         TCGA-AG-4001 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AG-4005         TCGA-AG-4007         TCGA-AG-4008 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AG-4015         TCGA-AG-A002         TCGA-AG-A008 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AG-A00C         TCGA-AG-A00H         TCGA-AG-A00Y 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AG-A011         TCGA-AG-A014         TCGA-AG-A015 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AG-A016         TCGA-AG-A01W         TCGA-AG-A01Y 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AG-A020         TCGA-AG-A026         TCGA-AG-A02G 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AG-A02N         TCGA-AG-A02X         TCGA-AG-A036 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  TBC1D10C MUTATED        0      1      0
  TBC1D10C WILD-TYPE     11    125     20
D37V6, multiclass
[1] "Remove cluster labels:" "TBC1D10C MUTATED"      
clus
  TBC1D10C MUTATED TBC1D10C WILD-TYPE 
                 1                156 
        TCGA-A6-2672         TCGA-A6-2676         TCGA-A6-2677 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-A6-2678         TCGA-A6-2683         TCGA-A6-3807 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-A6-3808         TCGA-A6-3810         TCGA-AA-3514 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-3517         TCGA-AA-3519         TCGA-AA-3520 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-3521         TCGA-AA-3522         TCGA-AA-3525 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-3529         TCGA-AA-3530         TCGA-AA-3531 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-3532         TCGA-AA-3534         TCGA-AA-3548 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-3552         TCGA-AA-3553         TCGA-AA-3554 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-3555         TCGA-AA-3558         TCGA-AA-3560 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-3561         TCGA-AA-3562         TCGA-AA-3664 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-3672         TCGA-AA-3678         TCGA-AA-3681 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-3688         TCGA-AA-3695         TCGA-AA-3696 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-3710         TCGA-AA-3715         TCGA-AA-3811 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-3812         TCGA-AA-3814         TCGA-AA-3818 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-3819         TCGA-AA-3831         TCGA-AA-3833 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-3837         TCGA-AA-3844         TCGA-AA-3845 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-3848         TCGA-AA-3850         TCGA-AA-3852 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-3854         TCGA-AA-3856         TCGA-AA-3864 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-3866         TCGA-AA-3869         TCGA-AA-3872 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-3930         TCGA-AA-3947         TCGA-AA-3955 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-3972         TCGA-AA-3973         TCGA-AA-3975 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-3982         TCGA-AA-3986         TCGA-AA-3989 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-A004         TCGA-AA-A00A         TCGA-AA-A00E 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-A00F         TCGA-AA-A00J         TCGA-AA-A00K 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-A00L         TCGA-AA-A00N         TCGA-AA-A00Q 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-A00R         TCGA-AA-A00U         TCGA-AA-A00W 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-A00Z         TCGA-AA-A010         TCGA-AA-A017 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-A01D         TCGA-AA-A01F         TCGA-AA-A01I 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-A01K         TCGA-AA-A01P         TCGA-AA-A01Q 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-A01R         TCGA-AA-A01S         TCGA-AA-A01T 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-A01V         TCGA-AA-A01X         TCGA-AA-A022 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-A024         TCGA-AA-A029         TCGA-AA-A02F 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-A02H         TCGA-AA-A02J         TCGA-AA-A02O 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-A02W         TCGA-AA-A02Y         TCGA-AA-A03F 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AA-A03J         TCGA-AF-2689         TCGA-AF-3400 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AF-3913         TCGA-AG-3574         TCGA-AG-3578 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AG-3580         TCGA-AG-3581         TCGA-AG-3582 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AG-3583         TCGA-AG-3584         TCGA-AG-3586 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AG-3587         TCGA-AG-3593         TCGA-AG-3594 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AG-3598         TCGA-AG-3599         TCGA-AG-3600 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AG-3601         TCGA-AG-3602         TCGA-AG-3605 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AG-3609         TCGA-AG-3612         TCGA-AG-3727 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AG-3878         TCGA-AG-3881         TCGA-AG-3882 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AG-3893         TCGA-AG-3896         TCGA-AG-3898 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AG-3901         TCGA-AG-3902         TCGA-AG-4001 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AG-4005         TCGA-AG-4007         TCGA-AG-4008 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AG-4015         TCGA-AG-A002         TCGA-AG-A008 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AG-A00C         TCGA-AG-A00H         TCGA-AG-A00Y 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AG-A011         TCGA-AG-A014         TCGA-AG-A015 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AG-A016         TCGA-AG-A01W         TCGA-AG-A01Y 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AG-A020         TCGA-AG-A026         TCGA-AG-A02G 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
        TCGA-AG-A02N         TCGA-AG-A02X         TCGA-AG-A036 
"TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" "TBC1D10C WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TBC1D10C MUTATED        0      0      0      3
  TBC1D10C WILD-TYPE     14      6     29    168
D37V7, multiclass
        clus
vv       TBC1D10C MUTATED TBC1D10C WILD-TYPE
  CLUS_1                0                 14
  CLUS_2                0                  6
  CLUS_3                0                 29
  CLUS_4                3                168
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  TBC1D10C MUTATED        0      0      0      0      1      2      0
  TBC1D10C WILD-TYPE      1      5      1      1    129     33     47
D37V8, multiclass
        clus
vv       TBC1D10C MUTATED TBC1D10C WILD-TYPE
  CLUS_1                0                  1
  CLUS_2                0                  5
  CLUS_3                0                  1
  CLUS_4                0                  1
  CLUS_5                1                129
  CLUS_6                2                 33
  CLUS_7                0                 47
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  TBC1D10C MUTATED        0      0      3
  TBC1D10C WILD-TYPE      3      9    191
D37V9, multiclass
        clus
vv       TBC1D10C MUTATED TBC1D10C WILD-TYPE
  CLUS_1                0                  3
  CLUS_2                0                  9
  CLUS_3                3                191
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  TBC1D10C MUTATED        0      0      3
  TBC1D10C WILD-TYPE      7     62    134
D37V10, multiclass
        clus
vv       TBC1D10C MUTATED TBC1D10C WILD-TYPE
  CLUS_1                0                  7
  CLUS_2                0                 62
  CLUS_3                3                134
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(38) Variable = ERCC6L MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ERCC6L MUTATED        4      0      0      1
  ERCC6L WILD-TYPE     38     57     67     38
D38V1, multiclass
        clus
vv       ERCC6L MUTATED ERCC6L WILD-TYPE
  CLUS_1              4               38
  CLUS_2              0               57
  CLUS_3              0               67
  CLUS_4              1               38
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ERCC6L MUTATED        2      0      1      2
  ERCC6L WILD-TYPE     46     37     72     45
D38V2, multiclass
        clus
vv       ERCC6L MUTATED ERCC6L WILD-TYPE
  CLUS_1              2               46
  CLUS_2              0               37
  CLUS_3              1               72
  CLUS_4              2               45
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ERCC6L MUTATED        4      1      0
  ERCC6L WILD-TYPE     83     78     54
D38V3, multiclass
        clus
vv       ERCC6L MUTATED ERCC6L WILD-TYPE
  CLUS_1              4               83
  CLUS_2              1               78
  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
  ERCC6L MUTATED        0      0      0
  ERCC6L WILD-TYPE      1      5      2
D38V4, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ERCC6L MUTATED        0      1      1      0
  ERCC6L WILD-TYPE     40     66     23     26
D38V5, multiclass
[1] "Remove cluster labels:" "ERCC6L MUTATED"        
clus
  ERCC6L MUTATED ERCC6L WILD-TYPE 
               2              155 
      TCGA-A6-2676       TCGA-A6-2677       TCGA-A6-2678       TCGA-A6-2683 
"ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" 
      TCGA-A6-3807       TCGA-A6-3808       TCGA-A6-3810       TCGA-AA-3514 
"ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3519       TCGA-AA-3520       TCGA-AA-3521 
"ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" 
      TCGA-AA-3522       TCGA-AA-3525       TCGA-AA-3529       TCGA-AA-3530 
"ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3548 
"ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" 
      TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554       TCGA-AA-3555 
"ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" 
      TCGA-AA-3558       TCGA-AA-3560       TCGA-AA-3561       TCGA-AA-3562 
"ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" 
      TCGA-AA-3664       TCGA-AA-3672       TCGA-AA-3678       TCGA-AA-3681 
"ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" 
      TCGA-AA-3688       TCGA-AA-3695       TCGA-AA-3696       TCGA-AA-3710 
"ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" 
      TCGA-AA-3715       TCGA-AA-3811       TCGA-AA-3812       TCGA-AA-3814 
"ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" 
      TCGA-AA-3818       TCGA-AA-3819       TCGA-AA-3831       TCGA-AA-3833 
"ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3848 
"ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" 
      TCGA-AA-3850       TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3856 
"ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" 
      TCGA-AA-3864       TCGA-AA-3866       TCGA-AA-3869       TCGA-AA-3872 
"ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" 
      TCGA-AA-3930       TCGA-AA-3947       TCGA-AA-3955       TCGA-AA-3971 
"ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" 
      TCGA-AA-3972       TCGA-AA-3973       TCGA-AA-3975       TCGA-AA-3982 
"ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" 
      TCGA-AA-3986       TCGA-AA-3989       TCGA-AA-A004       TCGA-AA-A00A 
"ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" 
      TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J       TCGA-AA-A00K 
"ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" 
      TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00Q       TCGA-AA-A00R 
"ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" 
      TCGA-AA-A00U       TCGA-AA-A00W       TCGA-AA-A00Z       TCGA-AA-A010 
"ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" 
      TCGA-AA-A017       TCGA-AA-A01F       TCGA-AA-A01I       TCGA-AA-A01K 
"ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" 
      TCGA-AA-A01P       TCGA-AA-A01Q       TCGA-AA-A01R       TCGA-AA-A01S 
"ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" 
      TCGA-AA-A01T       TCGA-AA-A01V       TCGA-AA-A01X       TCGA-AA-A022 
"ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02O       TCGA-AA-A02W       TCGA-AA-A02Y 
"ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" 
      TCGA-AA-A03F       TCGA-AA-A03J       TCGA-AF-2689       TCGA-AF-3400 
"ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" 
      TCGA-AF-3913       TCGA-AG-3574       TCGA-AG-3578       TCGA-AG-3580 
"ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" 
      TCGA-AG-3581       TCGA-AG-3582       TCGA-AG-3583       TCGA-AG-3584 
"ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" 
      TCGA-AG-3586       TCGA-AG-3587       TCGA-AG-3593       TCGA-AG-3594 
"ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" 
      TCGA-AG-3598       TCGA-AG-3599       TCGA-AG-3600       TCGA-AG-3601 
"ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" 
      TCGA-AG-3602       TCGA-AG-3605       TCGA-AG-3609       TCGA-AG-3612 
"ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" 
      TCGA-AG-3727       TCGA-AG-3878       TCGA-AG-3881       TCGA-AG-3882 
"ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" 
      TCGA-AG-3893       TCGA-AG-3896       TCGA-AG-3898       TCGA-AG-3901 
"ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" 
      TCGA-AG-3902       TCGA-AG-4001       TCGA-AG-4005       TCGA-AG-4007 
"ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" 
      TCGA-AG-4008       TCGA-AG-4015       TCGA-AG-A002       TCGA-AG-A008 
"ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" 
      TCGA-AG-A00C       TCGA-AG-A00H       TCGA-AG-A00Y       TCGA-AG-A011 
"ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" 
      TCGA-AG-A014       TCGA-AG-A015       TCGA-AG-A016       TCGA-AG-A01W 
"ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" 
      TCGA-AG-A01Y       TCGA-AG-A020       TCGA-AG-A026       TCGA-AG-A02G 
"ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" 
      TCGA-AG-A02N       TCGA-AG-A02X       TCGA-AG-A036 
"ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ERCC6L MUTATED        0      2      0
  ERCC6L WILD-TYPE     11    124     20
D38V6, multiclass
[1] "Remove cluster labels:" "ERCC6L MUTATED"        
clus
  ERCC6L MUTATED ERCC6L WILD-TYPE 
               2              155 
      TCGA-A6-2676       TCGA-A6-2677       TCGA-A6-2678       TCGA-A6-2683 
"ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" 
      TCGA-A6-3807       TCGA-A6-3808       TCGA-A6-3810       TCGA-AA-3514 
"ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" 
      TCGA-AA-3517       TCGA-AA-3519       TCGA-AA-3520       TCGA-AA-3521 
"ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" 
      TCGA-AA-3522       TCGA-AA-3525       TCGA-AA-3529       TCGA-AA-3530 
"ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" 
      TCGA-AA-3531       TCGA-AA-3532       TCGA-AA-3534       TCGA-AA-3548 
"ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" 
      TCGA-AA-3552       TCGA-AA-3553       TCGA-AA-3554       TCGA-AA-3555 
"ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" 
      TCGA-AA-3558       TCGA-AA-3560       TCGA-AA-3561       TCGA-AA-3562 
"ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" 
      TCGA-AA-3664       TCGA-AA-3672       TCGA-AA-3678       TCGA-AA-3681 
"ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" 
      TCGA-AA-3688       TCGA-AA-3695       TCGA-AA-3696       TCGA-AA-3710 
"ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" 
      TCGA-AA-3715       TCGA-AA-3811       TCGA-AA-3812       TCGA-AA-3814 
"ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" 
      TCGA-AA-3818       TCGA-AA-3819       TCGA-AA-3831       TCGA-AA-3833 
"ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" 
      TCGA-AA-3837       TCGA-AA-3844       TCGA-AA-3845       TCGA-AA-3848 
"ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" 
      TCGA-AA-3850       TCGA-AA-3852       TCGA-AA-3854       TCGA-AA-3856 
"ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" 
      TCGA-AA-3864       TCGA-AA-3866       TCGA-AA-3869       TCGA-AA-3872 
"ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" 
      TCGA-AA-3930       TCGA-AA-3947       TCGA-AA-3955       TCGA-AA-3971 
"ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" 
      TCGA-AA-3972       TCGA-AA-3973       TCGA-AA-3975       TCGA-AA-3982 
"ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" 
      TCGA-AA-3986       TCGA-AA-3989       TCGA-AA-A004       TCGA-AA-A00A 
"ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" 
      TCGA-AA-A00E       TCGA-AA-A00F       TCGA-AA-A00J       TCGA-AA-A00K 
"ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" 
      TCGA-AA-A00L       TCGA-AA-A00N       TCGA-AA-A00Q       TCGA-AA-A00R 
"ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" 
      TCGA-AA-A00U       TCGA-AA-A00W       TCGA-AA-A00Z       TCGA-AA-A010 
"ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" 
      TCGA-AA-A017       TCGA-AA-A01F       TCGA-AA-A01I       TCGA-AA-A01K 
"ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" 
      TCGA-AA-A01P       TCGA-AA-A01Q       TCGA-AA-A01R       TCGA-AA-A01S 
"ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" 
      TCGA-AA-A01T       TCGA-AA-A01V       TCGA-AA-A01X       TCGA-AA-A022 
"ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" 
      TCGA-AA-A024       TCGA-AA-A029       TCGA-AA-A02F       TCGA-AA-A02H 
"ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" 
      TCGA-AA-A02J       TCGA-AA-A02O       TCGA-AA-A02W       TCGA-AA-A02Y 
"ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" 
      TCGA-AA-A03F       TCGA-AA-A03J       TCGA-AF-2689       TCGA-AF-3400 
"ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" 
      TCGA-AF-3913       TCGA-AG-3574       TCGA-AG-3578       TCGA-AG-3580 
"ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" 
      TCGA-AG-3581       TCGA-AG-3582       TCGA-AG-3583       TCGA-AG-3584 
"ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" 
      TCGA-AG-3586       TCGA-AG-3587       TCGA-AG-3593       TCGA-AG-3594 
"ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" 
      TCGA-AG-3598       TCGA-AG-3599       TCGA-AG-3600       TCGA-AG-3601 
"ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" 
      TCGA-AG-3602       TCGA-AG-3605       TCGA-AG-3609       TCGA-AG-3612 
"ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" 
      TCGA-AG-3727       TCGA-AG-3878       TCGA-AG-3881       TCGA-AG-3882 
"ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" 
      TCGA-AG-3893       TCGA-AG-3896       TCGA-AG-3898       TCGA-AG-3901 
"ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" 
      TCGA-AG-3902       TCGA-AG-4001       TCGA-AG-4005       TCGA-AG-4007 
"ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" 
      TCGA-AG-4008       TCGA-AG-4015       TCGA-AG-A002       TCGA-AG-A008 
"ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" 
      TCGA-AG-A00C       TCGA-AG-A00H       TCGA-AG-A00Y       TCGA-AG-A011 
"ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" 
      TCGA-AG-A014       TCGA-AG-A015       TCGA-AG-A016       TCGA-AG-A01W 
"ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" 
      TCGA-AG-A01Y       TCGA-AG-A020       TCGA-AG-A026       TCGA-AG-A02G 
"ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" 
      TCGA-AG-A02N       TCGA-AG-A02X       TCGA-AG-A036 
"ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" "ERCC6L WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ERCC6L MUTATED        0      0      1      4
  ERCC6L WILD-TYPE     14      6     28    167
D38V7, multiclass
        clus
vv       ERCC6L MUTATED ERCC6L WILD-TYPE
  CLUS_1              0               14
  CLUS_2              0                6
  CLUS_3              1               28
  CLUS_4              4              167
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  ERCC6L MUTATED        0      0      0      0      3      1      1
  ERCC6L WILD-TYPE      1      5      1      1    127     34     46
D38V8, multiclass
        clus
vv       ERCC6L MUTATED ERCC6L WILD-TYPE
  CLUS_1              0                1
  CLUS_2              0                5
  CLUS_3              0                1
  CLUS_4              0                1
  CLUS_5              3              127
  CLUS_6              1               34
  CLUS_7              1               46
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ERCC6L MUTATED        0      0      5
  ERCC6L WILD-TYPE      3      9    189
D38V9, multiclass
        clus
vv       ERCC6L MUTATED ERCC6L WILD-TYPE
  CLUS_1              0                3
  CLUS_2              0                9
  CLUS_3              5              189
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ERCC6L MUTATED        1      1      3
  ERCC6L WILD-TYPE      6     61    134
D38V10, multiclass
        clus
vv       ERCC6L MUTATED ERCC6L WILD-TYPE
  CLUS_1              1                6
  CLUS_2              1               61
  CLUS_3              3              134
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(39) Variable = ERBB3 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ERBB3 MUTATED        5      3      1      2
  ERBB3 WILD-TYPE     37     54     66     37
D39V1, multiclass
        clus
vv       ERBB3 MUTATED ERBB3 WILD-TYPE
  CLUS_1             5              37
  CLUS_2             3              54
  CLUS_3             1              66
  CLUS_4             2              37
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ERBB3 MUTATED        6      1      4      0
  ERBB3 WILD-TYPE     42     36     69     47
D39V2, multiclass
        clus
vv       ERBB3 MUTATED ERBB3 WILD-TYPE
  CLUS_1             6              42
  CLUS_2             1              36
  CLUS_3             4              69
  CLUS_4             0              47
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ERBB3 MUTATED        9      2      3
  ERBB3 WILD-TYPE     78     77     51
D39V3, multiclass
        clus
vv       ERBB3 MUTATED ERBB3 WILD-TYPE
  CLUS_1             9              78
  CLUS_2             2              77
  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
  ERBB3 MUTATED        0      0      1
  ERBB3 WILD-TYPE      1      5      1
D39V4, multiclass
[1] "Remove cluster labels:" "ERBB3 MUTATED"         
clus
  ERBB3 MUTATED ERBB3 WILD-TYPE 
              1               7 
     TCGA-A6-2677      TCGA-A6-3810      TCGA-AG-A01W      TCGA-AG-A01Y 
"ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" 
     TCGA-AG-A020      TCGA-AG-A026      TCGA-AG-A036 
"ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" "ERBB3 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ERBB3 MUTATED        2      6      1      3
  ERBB3 WILD-TYPE     38     61     23     23
D39V5, multiclass
        clus
vv       ERBB3 MUTATED ERBB3 WILD-TYPE
  CLUS_1             2              38
  CLUS_2             6              61
  CLUS_3             1              23
  CLUS_4             3              23
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ERBB3 MUTATED        0     10      2
  ERBB3 WILD-TYPE     11    116     18
D39V6, multiclass
        clus
vv       ERBB3 MUTATED ERBB3 WILD-TYPE
  CLUS_1             0              11
  CLUS_2            10             116
  CLUS_3             2              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
  ERBB3 MUTATED        0      0      2     11
  ERBB3 WILD-TYPE     14      6     27    160
D39V7, multiclass
        clus
vv       ERBB3 MUTATED ERBB3 WILD-TYPE
  CLUS_1             0              14
  CLUS_2             0               6
  CLUS_3             2              27
  CLUS_4            11             160
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  ERBB3 MUTATED        0      0      0      0      4      5      4
  ERBB3 WILD-TYPE      1      5      1      1    126     30     43
D39V8, multiclass
        clus
vv       ERBB3 MUTATED ERBB3 WILD-TYPE
  CLUS_1             0               1
  CLUS_2             0               5
  CLUS_3             0               1
  CLUS_4             0               1
  CLUS_5             4             126
  CLUS_6             5              30
  CLUS_7             4              43
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ERBB3 MUTATED        0      0     12
  ERBB3 WILD-TYPE      3      9    182
D39V9, multiclass
        clus
vv       ERBB3 MUTATED ERBB3 WILD-TYPE
  CLUS_1             0               3
  CLUS_2             0               9
  CLUS_3            12             182
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ERBB3 MUTATED        2      4      6
  ERBB3 WILD-TYPE      5     58    131
D39V10, multiclass
        clus
vv       ERBB3 MUTATED ERBB3 WILD-TYPE
  CLUS_1             2               5
  CLUS_2             4              58
  CLUS_3             6             131
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(40) Variable = KLK2 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KLK2 MUTATED        1      1      0      1
  KLK2 WILD-TYPE     41     56     67     38
D40V1, multiclass
        clus
vv       KLK2 MUTATED KLK2 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            1             56
  CLUS_3            0             67
  CLUS_4            1             38
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KLK2 MUTATED        2      1      0      0
  KLK2 WILD-TYPE     46     36     73     47
D40V2, multiclass
        clus
vv       KLK2 MUTATED KLK2 WILD-TYPE
  CLUS_1            2             46
  CLUS_2            1             36
  CLUS_3            0             73
  CLUS_4            0             47
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  KLK2 MUTATED        2      0      1
  KLK2 WILD-TYPE     85     79     53
D40V3, multiclass
        clus
vv       KLK2 MUTATED KLK2 WILD-TYPE
  CLUS_1            2             85
  CLUS_2            0             79
  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
  KLK2 MUTATED        0      0      0
  KLK2 WILD-TYPE      1      5      2
D40V4, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KLK2 MUTATED        0      1      0      1
  KLK2 WILD-TYPE     40     66     24     25
D40V5, multiclass
[1] "Remove cluster labels:" "KLK2 MUTATED"          
clus
  KLK2 MUTATED KLK2 WILD-TYPE 
             2            155 
    TCGA-A6-2672     TCGA-A6-2676     TCGA-A6-2677     TCGA-A6-2678 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808     TCGA-A6-3810 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AA-3514     TCGA-AA-3517     TCGA-AA-3519     TCGA-AA-3520 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3525     TCGA-AA-3529 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AA-3530     TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AA-3548     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AA-3558     TCGA-AA-3560     TCGA-AA-3561     TCGA-AA-3562 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AA-3664     TCGA-AA-3672     TCGA-AA-3678     TCGA-AA-3681 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AA-3688     TCGA-AA-3695     TCGA-AA-3696     TCGA-AA-3710 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AA-3715     TCGA-AA-3811     TCGA-AA-3812     TCGA-AA-3814 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AA-3818     TCGA-AA-3819     TCGA-AA-3831     TCGA-AA-3833 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3848 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AA-3850     TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3856 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AA-3864     TCGA-AA-3866     TCGA-AA-3869     TCGA-AA-3872 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AA-3930     TCGA-AA-3947     TCGA-AA-3955     TCGA-AA-3971 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AA-3972     TCGA-AA-3973     TCGA-AA-3975     TCGA-AA-3982 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AA-3986     TCGA-AA-3989     TCGA-AA-A004     TCGA-AA-A00E 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AA-A00F     TCGA-AA-A00J     TCGA-AA-A00K     TCGA-AA-A00L 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AA-A00N     TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AA-A00W     TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AA-A01D     TCGA-AA-A01F     TCGA-AA-A01I     TCGA-AA-A01K 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AA-A01P     TCGA-AA-A01Q     TCGA-AA-A01R     TCGA-AA-A01S 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AA-A01T     TCGA-AA-A01V     TCGA-AA-A01X     TCGA-AA-A022 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02O     TCGA-AA-A02W     TCGA-AA-A02Y 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AA-A03F     TCGA-AA-A03J     TCGA-AF-2689     TCGA-AF-3400 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AF-3913     TCGA-AG-3574     TCGA-AG-3578     TCGA-AG-3580 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AG-3581     TCGA-AG-3582     TCGA-AG-3583     TCGA-AG-3584 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AG-3586     TCGA-AG-3587     TCGA-AG-3593     TCGA-AG-3594 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AG-3598     TCGA-AG-3599     TCGA-AG-3600     TCGA-AG-3601 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AG-3602     TCGA-AG-3605     TCGA-AG-3609     TCGA-AG-3612 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AG-3727     TCGA-AG-3878     TCGA-AG-3881     TCGA-AG-3882 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AG-3893     TCGA-AG-3896     TCGA-AG-3898     TCGA-AG-3901 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AG-3902     TCGA-AG-4001     TCGA-AG-4005     TCGA-AG-4007 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AG-4008     TCGA-AG-4015     TCGA-AG-A002     TCGA-AG-A008 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AG-A00C     TCGA-AG-A00H     TCGA-AG-A00Y     TCGA-AG-A011 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AG-A014     TCGA-AG-A015     TCGA-AG-A016     TCGA-AG-A01W 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AG-A01Y     TCGA-AG-A020     TCGA-AG-A026     TCGA-AG-A02G 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AG-A02N     TCGA-AG-A02X     TCGA-AG-A036 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  KLK2 MUTATED        0      1      1
  KLK2 WILD-TYPE     11    125     19
D40V6, multiclass
[1] "Remove cluster labels:" "KLK2 MUTATED"          
clus
  KLK2 MUTATED KLK2 WILD-TYPE 
             2            155 
    TCGA-A6-2672     TCGA-A6-2676     TCGA-A6-2677     TCGA-A6-2678 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808     TCGA-A6-3810 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AA-3514     TCGA-AA-3517     TCGA-AA-3519     TCGA-AA-3520 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3525     TCGA-AA-3529 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AA-3530     TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AA-3548     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AA-3558     TCGA-AA-3560     TCGA-AA-3561     TCGA-AA-3562 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AA-3664     TCGA-AA-3672     TCGA-AA-3678     TCGA-AA-3681 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AA-3688     TCGA-AA-3695     TCGA-AA-3696     TCGA-AA-3710 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AA-3715     TCGA-AA-3811     TCGA-AA-3812     TCGA-AA-3814 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AA-3818     TCGA-AA-3819     TCGA-AA-3831     TCGA-AA-3833 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AA-3837     TCGA-AA-3844     TCGA-AA-3845     TCGA-AA-3848 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AA-3850     TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3856 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AA-3864     TCGA-AA-3866     TCGA-AA-3869     TCGA-AA-3872 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AA-3930     TCGA-AA-3947     TCGA-AA-3955     TCGA-AA-3971 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AA-3972     TCGA-AA-3973     TCGA-AA-3975     TCGA-AA-3982 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AA-3986     TCGA-AA-3989     TCGA-AA-A004     TCGA-AA-A00E 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AA-A00F     TCGA-AA-A00J     TCGA-AA-A00K     TCGA-AA-A00L 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AA-A00N     TCGA-AA-A00Q     TCGA-AA-A00R     TCGA-AA-A00U 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AA-A00W     TCGA-AA-A00Z     TCGA-AA-A010     TCGA-AA-A017 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AA-A01D     TCGA-AA-A01F     TCGA-AA-A01I     TCGA-AA-A01K 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AA-A01P     TCGA-AA-A01Q     TCGA-AA-A01R     TCGA-AA-A01S 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AA-A01T     TCGA-AA-A01V     TCGA-AA-A01X     TCGA-AA-A022 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02O     TCGA-AA-A02W     TCGA-AA-A02Y 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AA-A03F     TCGA-AA-A03J     TCGA-AF-2689     TCGA-AF-3400 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AF-3913     TCGA-AG-3574     TCGA-AG-3578     TCGA-AG-3580 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AG-3581     TCGA-AG-3582     TCGA-AG-3583     TCGA-AG-3584 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AG-3586     TCGA-AG-3587     TCGA-AG-3593     TCGA-AG-3594 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AG-3598     TCGA-AG-3599     TCGA-AG-3600     TCGA-AG-3601 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AG-3602     TCGA-AG-3605     TCGA-AG-3609     TCGA-AG-3612 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AG-3727     TCGA-AG-3878     TCGA-AG-3881     TCGA-AG-3882 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AG-3893     TCGA-AG-3896     TCGA-AG-3898     TCGA-AG-3901 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AG-3902     TCGA-AG-4001     TCGA-AG-4005     TCGA-AG-4007 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AG-4008     TCGA-AG-4015     TCGA-AG-A002     TCGA-AG-A008 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AG-A00C     TCGA-AG-A00H     TCGA-AG-A00Y     TCGA-AG-A011 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AG-A014     TCGA-AG-A015     TCGA-AG-A016     TCGA-AG-A01W 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AG-A01Y     TCGA-AG-A020     TCGA-AG-A026     TCGA-AG-A02G 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AG-A02N     TCGA-AG-A02X     TCGA-AG-A036 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KLK2 MUTATED        0      0      0      3
  KLK2 WILD-TYPE     14      6     29    168
D40V7, multiclass
        clus
vv       KLK2 MUTATED KLK2 WILD-TYPE
  CLUS_1            0             14
  CLUS_2            0              6
  CLUS_3            0             29
  CLUS_4            3            168
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  KLK2 MUTATED        0      0      0      0      1      1      1
  KLK2 WILD-TYPE      1      5      1      1    129     34     46
D40V8, multiclass
        clus
vv       KLK2 MUTATED KLK2 WILD-TYPE
  CLUS_1            0              1
  CLUS_2            0              5
  CLUS_3            0              1
  CLUS_4            0              1
  CLUS_5            1            129
  CLUS_6            1             34
  CLUS_7            1             46
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  KLK2 MUTATED        0      0      2
  KLK2 WILD-TYPE      3      9    192
D40V9, multiclass
[1] "Remove cluster labels:" "KLK2 MUTATED"          
clus
  KLK2 MUTATED KLK2 WILD-TYPE 
             2            204 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516     TCGA-AA-3517 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520     TCGA-AA-3521 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525     TCGA-AA-3526 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530     TCGA-AA-3531 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538     TCGA-AA-3543 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AA-3544     TCGA-AA-3548     TCGA-AA-3549     TCGA-AA-3552 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AA-3553     TCGA-AA-3554     TCGA-AA-3556     TCGA-AA-3558 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AA-3560     TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AA-3666     TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AA-3678     TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AA-3684     TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AA-3693     TCGA-AA-3695     TCGA-AA-3696     TCGA-AA-3710 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AA-3715     TCGA-AA-3811     TCGA-AA-3812     TCGA-AA-3814 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AA-3818     TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AA-3833     TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AA-3845     TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AA-3851     TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AA-3856     TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3864 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973     TCGA-AA-3975 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979     TCGA-AA-3980 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986     TCGA-AA-3989 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AA-3994     TCGA-AA-A00D     TCGA-AA-A00J     TCGA-AA-A00L 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AA-A00O     TCGA-AA-A00Q     TCGA-AA-A00U     TCGA-AA-A00W 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AA-A010     TCGA-AA-A01D     TCGA-AA-A01F     TCGA-AA-A01G 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AA-A01P     TCGA-AA-A01R     TCGA-AA-A01S     TCGA-AA-A01T 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AA-A01V     TCGA-AA-A01X     TCGA-AA-A01Z     TCGA-AA-A022 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02O     TCGA-AA-A02Y     TCGA-AA-A03F 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AA-A03J     TCGA-AF-2689     TCGA-AF-2691     TCGA-AF-2692 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AF-3400     TCGA-AF-3913     TCGA-AG-3574     TCGA-AG-3575 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AG-3578     TCGA-AG-3580     TCGA-AG-3581     TCGA-AG-3582 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AG-3583     TCGA-AG-3584     TCGA-AG-3586     TCGA-AG-3587 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AG-3593     TCGA-AG-3594     TCGA-AG-3598     TCGA-AG-3599 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AG-3600     TCGA-AG-3601     TCGA-AG-3602     TCGA-AG-3605 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AG-3608     TCGA-AG-3609     TCGA-AG-3611     TCGA-AG-3612 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AG-3726     TCGA-AG-3727     TCGA-AG-3878     TCGA-AG-3881 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AG-3882     TCGA-AG-3883     TCGA-AG-3887     TCGA-AG-3890 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AG-3892     TCGA-AG-3893     TCGA-AG-3894     TCGA-AG-3896 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AG-3898     TCGA-AG-3901     TCGA-AG-3902     TCGA-AG-3909 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AG-3999     TCGA-AG-4001     TCGA-AG-4005     TCGA-AG-4007 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AG-4008     TCGA-AG-4015     TCGA-AG-A002     TCGA-AG-A008 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AG-A00C     TCGA-AG-A011     TCGA-AG-A015     TCGA-AG-A016 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AG-A01L     TCGA-AG-A01W     TCGA-AG-A01Y     TCGA-AG-A020 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AG-A025     TCGA-AG-A026     TCGA-AG-A02G     TCGA-AG-A02N 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AG-A02X     TCGA-AG-A036     TCGA-AY-4070     TCGA-AY-4071 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  KLK2 MUTATED        0      1      1
  KLK2 WILD-TYPE      7     61    136
D40V10, multiclass
[1] "Remove cluster labels:" "KLK2 MUTATED"          
clus
  KLK2 MUTATED KLK2 WILD-TYPE 
             2            204 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516     TCGA-AA-3517 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520     TCGA-AA-3521 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525     TCGA-AA-3526 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530     TCGA-AA-3531 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538     TCGA-AA-3543 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AA-3544     TCGA-AA-3548     TCGA-AA-3549     TCGA-AA-3552 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AA-3553     TCGA-AA-3554     TCGA-AA-3556     TCGA-AA-3558 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AA-3560     TCGA-AA-3561     TCGA-AA-3562     TCGA-AA-3664 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AA-3666     TCGA-AA-3667     TCGA-AA-3672     TCGA-AA-3673 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AA-3678     TCGA-AA-3679     TCGA-AA-3680     TCGA-AA-3681 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AA-3684     TCGA-AA-3685     TCGA-AA-3688     TCGA-AA-3692 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AA-3693     TCGA-AA-3695     TCGA-AA-3696     TCGA-AA-3710 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AA-3715     TCGA-AA-3811     TCGA-AA-3812     TCGA-AA-3814 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AA-3818     TCGA-AA-3819     TCGA-AA-3821     TCGA-AA-3831 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AA-3833     TCGA-AA-3837     TCGA-AA-3842     TCGA-AA-3844 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AA-3845     TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AA-3851     TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AA-3856     TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3864 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973     TCGA-AA-3975 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979     TCGA-AA-3980 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AA-3982     TCGA-AA-3984     TCGA-AA-3986     TCGA-AA-3989 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AA-3994     TCGA-AA-A00D     TCGA-AA-A00J     TCGA-AA-A00L 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AA-A00O     TCGA-AA-A00Q     TCGA-AA-A00U     TCGA-AA-A00W 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AA-A010     TCGA-AA-A01D     TCGA-AA-A01F     TCGA-AA-A01G 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AA-A01P     TCGA-AA-A01R     TCGA-AA-A01S     TCGA-AA-A01T 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AA-A01V     TCGA-AA-A01X     TCGA-AA-A01Z     TCGA-AA-A022 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02O     TCGA-AA-A02Y     TCGA-AA-A03F 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AA-A03J     TCGA-AF-2689     TCGA-AF-2691     TCGA-AF-2692 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AF-3400     TCGA-AF-3913     TCGA-AG-3574     TCGA-AG-3575 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AG-3578     TCGA-AG-3580     TCGA-AG-3581     TCGA-AG-3582 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AG-3583     TCGA-AG-3584     TCGA-AG-3586     TCGA-AG-3587 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AG-3593     TCGA-AG-3594     TCGA-AG-3598     TCGA-AG-3599 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AG-3600     TCGA-AG-3601     TCGA-AG-3602     TCGA-AG-3605 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AG-3608     TCGA-AG-3609     TCGA-AG-3611     TCGA-AG-3612 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AG-3726     TCGA-AG-3727     TCGA-AG-3878     TCGA-AG-3881 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AG-3882     TCGA-AG-3883     TCGA-AG-3887     TCGA-AG-3890 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AG-3892     TCGA-AG-3893     TCGA-AG-3894     TCGA-AG-3896 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AG-3898     TCGA-AG-3901     TCGA-AG-3902     TCGA-AG-3909 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AG-3999     TCGA-AG-4001     TCGA-AG-4005     TCGA-AG-4007 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AG-4008     TCGA-AG-4015     TCGA-AG-A002     TCGA-AG-A008 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AG-A00C     TCGA-AG-A011     TCGA-AG-A015     TCGA-AG-A016 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AG-A01L     TCGA-AG-A01W     TCGA-AG-A01Y     TCGA-AG-A020 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AG-A025     TCGA-AG-A026     TCGA-AG-A02G     TCGA-AG-A02N 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 
    TCGA-AG-A02X     TCGA-AG-A036     TCGA-AY-4070     TCGA-AY-4071 
"KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" "KLK2 WILD-TYPE" 

Clustering(41) Variable = TAPBP MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TAPBP MUTATED        1      0      1      3
  TAPBP WILD-TYPE     41     57     66     36
D41V1, multiclass
        clus
vv       TAPBP MUTATED TAPBP WILD-TYPE
  CLUS_1             1              41
  CLUS_2             0              57
  CLUS_3             1              66
  CLUS_4             3              36
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TAPBP MUTATED        2      1      2      0
  TAPBP WILD-TYPE     46     36     71     47
D41V2, multiclass
        clus
vv       TAPBP MUTATED TAPBP WILD-TYPE
  CLUS_1             2              46
  CLUS_2             1              36
  CLUS_3             2              71
  CLUS_4             0              47
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TAPBP MUTATED        4      1      0
  TAPBP WILD-TYPE     83     78     54
D41V3, multiclass
        clus
vv       TAPBP MUTATED TAPBP WILD-TYPE
  CLUS_1             4              83
  CLUS_2             1              78
  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
  TAPBP MUTATED        0      0      0
  TAPBP WILD-TYPE      1      5      2
D41V4, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TAPBP MUTATED        1      2      0      1
  TAPBP WILD-TYPE     39     65     24     25
D41V5, multiclass
        clus
vv       TAPBP MUTATED TAPBP WILD-TYPE
  CLUS_1             1              39
  CLUS_2             2              65
  CLUS_3             0              24
  CLUS_4             1              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
  TAPBP MUTATED        1      2      1
  TAPBP WILD-TYPE     10    124     19
D41V6, multiclass
        clus
vv       TAPBP MUTATED TAPBP WILD-TYPE
  CLUS_1             1              10
  CLUS_2             2             124
  CLUS_3             1              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
  TAPBP MUTATED        0      0      2      3
  TAPBP WILD-TYPE     14      6     27    168
D41V7, multiclass
        clus
vv       TAPBP MUTATED TAPBP WILD-TYPE
  CLUS_1             0              14
  CLUS_2             0               6
  CLUS_3             2              27
  CLUS_4             3             168
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  TAPBP MUTATED        0      0      0      0      1      2      2
  TAPBP WILD-TYPE      1      5      1      1    129     33     45
D41V8, multiclass
        clus
vv       TAPBP MUTATED TAPBP WILD-TYPE
  CLUS_1             0               1
  CLUS_2             0               5
  CLUS_3             0               1
  CLUS_4             0               1
  CLUS_5             1             129
  CLUS_6             2              33
  CLUS_7             2              45
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TAPBP MUTATED        0      0      5
  TAPBP WILD-TYPE      3      9    189
D41V9, multiclass
        clus
vv       TAPBP MUTATED TAPBP WILD-TYPE
  CLUS_1             0               3
  CLUS_2             0               9
  CLUS_3             5             189
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TAPBP MUTATED        2      1      2
  TAPBP WILD-TYPE      5     61    135
D41V10, multiclass
        clus
vv       TAPBP MUTATED TAPBP WILD-TYPE
  CLUS_1             2               5
  CLUS_2             1              61
  CLUS_3             2             135
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(42) Variable = ERBB2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ERBB2 MUTATED        3      1      2      3
  ERBB2 WILD-TYPE     39     56     65     36
D42V1, multiclass
        clus
vv       ERBB2 MUTATED ERBB2 WILD-TYPE
  CLUS_1             3              39
  CLUS_2             1              56
  CLUS_3             2              65
  CLUS_4             3              36
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ERBB2 MUTATED        4      1      4      0
  ERBB2 WILD-TYPE     44     36     69     47
D42V2, multiclass
        clus
vv       ERBB2 MUTATED ERBB2 WILD-TYPE
  CLUS_1             4              44
  CLUS_2             1              36
  CLUS_3             4              69
  CLUS_4             0              47
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ERBB2 MUTATED        5      3      1
  ERBB2 WILD-TYPE     82     76     53
D42V3, multiclass
        clus
vv       ERBB2 MUTATED ERBB2 WILD-TYPE
  CLUS_1             5              82
  CLUS_2             3              76
  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
  ERBB2 MUTATED        0      0      0
  ERBB2 WILD-TYPE      1      5      2
D42V4, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ERBB2 MUTATED        3      1      0      3
  ERBB2 WILD-TYPE     37     66     24     23
D42V5, multiclass
        clus
vv       ERBB2 MUTATED ERBB2 WILD-TYPE
  CLUS_1             3              37
  CLUS_2             1              66
  CLUS_3             0              24
  CLUS_4             3              23
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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      2
  ERBB2 WILD-TYPE     11    121     18
D42V6, multiclass
        clus
vv       ERBB2 MUTATED ERBB2 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             5             121
  CLUS_3             2              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
  ERBB2 MUTATED        0      0      3      6
  ERBB2 WILD-TYPE     14      6     26    165
D42V7, multiclass
        clus
vv       ERBB2 MUTATED ERBB2 WILD-TYPE
  CLUS_1             0              14
  CLUS_2             0               6
  CLUS_3             3              26
  CLUS_4             6             165
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will 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      1      0      0      3      1      4
  ERBB2 WILD-TYPE      1      4      1      1    127     34     43
D42V8, multiclass
        clus
vv       ERBB2 MUTATED ERBB2 WILD-TYPE
  CLUS_1             0               1
  CLUS_2             1               4
  CLUS_3             0               1
  CLUS_4             0               1
  CLUS_5             3             127
  CLUS_6             1              34
  CLUS_7             4              43
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ERBB2 MUTATED        0      1      7
  ERBB2 WILD-TYPE      3      8    187
D42V9, multiclass
        clus
vv       ERBB2 MUTATED ERBB2 WILD-TYPE
  CLUS_1             0               3
  CLUS_2             1               8
  CLUS_3             7             187
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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      0      8
  ERBB2 WILD-TYPE      7     62    129
D42V10, multiclass
        clus
vv       ERBB2 MUTATED ERBB2 WILD-TYPE
  CLUS_1             0               7
  CLUS_2             0              62
  CLUS_3             8             129
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(43) Variable = MORC2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MORC2 MUTATED        2      1      0      2
  MORC2 WILD-TYPE     40     56     67     37
D43V1, multiclass
        clus
vv       MORC2 MUTATED MORC2 WILD-TYPE
  CLUS_1             2              40
  CLUS_2             1              56
  CLUS_3             0              67
  CLUS_4             2              37
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MORC2 MUTATED        2      1      2      0
  MORC2 WILD-TYPE     46     36     71     47
D43V2, multiclass
        clus
vv       MORC2 MUTATED MORC2 WILD-TYPE
  CLUS_1             2              46
  CLUS_2             1              36
  CLUS_3             2              71
  CLUS_4             0              47
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MORC2 MUTATED        4      0      1
  MORC2 WILD-TYPE     83     79     53
D43V3, multiclass
        clus
vv       MORC2 MUTATED MORC2 WILD-TYPE
  CLUS_1             4              83
  CLUS_2             0              79
  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
  MORC2 MUTATED        0      0      0
  MORC2 WILD-TYPE      1      5      2
D43V4, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MORC2 MUTATED        0      1      0      2
  MORC2 WILD-TYPE     40     66     24     24
D43V5, multiclass
        clus
vv       MORC2 MUTATED MORC2 WILD-TYPE
  CLUS_1             0              40
  CLUS_2             1              66
  CLUS_3             0              24
  CLUS_4             2              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
  MORC2 MUTATED        0      2      1
  MORC2 WILD-TYPE     11    124     19
D43V6, multiclass
        clus
vv       MORC2 MUTATED MORC2 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             2             124
  CLUS_3             1              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
  MORC2 MUTATED        0      0      1      4
  MORC2 WILD-TYPE     14      6     28    167
D43V7, multiclass
        clus
vv       MORC2 MUTATED MORC2 WILD-TYPE
  CLUS_1             0              14
  CLUS_2             0               6
  CLUS_3             1              28
  CLUS_4             4             167
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  MORC2 MUTATED        1      0      0      0      1      2      1
  MORC2 WILD-TYPE      0      5      1      1    129     33     46
D43V8, multiclass
        clus
vv       MORC2 MUTATED MORC2 WILD-TYPE
  CLUS_1             1               0
  CLUS_2             0               5
  CLUS_3             0               1
  CLUS_4             0               1
  CLUS_5             1             129
  CLUS_6             2              33
  CLUS_7             1              46
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MORC2 MUTATED        0      0      4
  MORC2 WILD-TYPE      3      9    190
D43V9, multiclass
        clus
vv       MORC2 MUTATED MORC2 WILD-TYPE
  CLUS_1             0               3
  CLUS_2             0               9
  CLUS_3             4             190
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MORC2 MUTATED        1      1      2
  MORC2 WILD-TYPE      6     61    135
D43V10, multiclass
        clus
vv       MORC2 MUTATED MORC2 WILD-TYPE
  CLUS_1             1               6
  CLUS_2             1              61
  CLUS_3             2             135
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(44) Variable = ABCA8 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ABCA8 MUTATED        7      2      0      3
  ABCA8 WILD-TYPE     35     55     67     36
D44V1, multiclass
        clus
vv       ABCA8 MUTATED ABCA8 WILD-TYPE
  CLUS_1             7              35
  CLUS_2             2              55
  CLUS_3             0              67
  CLUS_4             3              36
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ABCA8 MUTATED        7      2      1      2
  ABCA8 WILD-TYPE     41     35     72     45
D44V2, multiclass
        clus
vv       ABCA8 MUTATED ABCA8 WILD-TYPE
  CLUS_1             7              41
  CLUS_2             2              35
  CLUS_3             1              72
  CLUS_4             2              45
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ABCA8 MUTATED       10      2      0
  ABCA8 WILD-TYPE     77     77     54
D44V3, multiclass
        clus
vv       ABCA8 MUTATED ABCA8 WILD-TYPE
  CLUS_1            10              77
  CLUS_2             2              77
  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
  ABCA8 MUTATED        0      0      0
  ABCA8 WILD-TYPE      1      5      2
D44V4, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ABCA8 MUTATED        2      1      0      4
  ABCA8 WILD-TYPE     38     66     24     22
D44V5, multiclass
        clus
vv       ABCA8 MUTATED ABCA8 WILD-TYPE
  CLUS_1             2              38
  CLUS_2             1              66
  CLUS_3             0              24
  CLUS_4             4              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
  ABCA8 MUTATED        0      5      2
  ABCA8 WILD-TYPE     11    121     18
D44V6, multiclass
        clus
vv       ABCA8 MUTATED ABCA8 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             5             121
  CLUS_3             2              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
  ABCA8 MUTATED        0      1      1     10
  ABCA8 WILD-TYPE     14      5     28    161
D44V7, multiclass
        clus
vv       ABCA8 MUTATED ABCA8 WILD-TYPE
  CLUS_1             0              14
  CLUS_2             1               5
  CLUS_3             1              28
  CLUS_4            10             161
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  ABCA8 MUTATED        1      0      0      0      3      5      3
  ABCA8 WILD-TYPE      0      5      1      1    127     30     44
D44V8, multiclass
        clus
vv       ABCA8 MUTATED ABCA8 WILD-TYPE
  CLUS_1             1               0
  CLUS_2             0               5
  CLUS_3             0               1
  CLUS_4             0               1
  CLUS_5             3             127
  CLUS_6             5              30
  CLUS_7             3              44
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ABCA8 MUTATED        0      1     10
  ABCA8 WILD-TYPE      3      8    184
D44V9, multiclass
        clus
vv       ABCA8 MUTATED ABCA8 WILD-TYPE
  CLUS_1             0               3
  CLUS_2             1               8
  CLUS_3            10             184
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ABCA8 MUTATED        1      2      8
  ABCA8 WILD-TYPE      6     60    129
D44V10, multiclass
        clus
vv       ABCA8 MUTATED ABCA8 WILD-TYPE
  CLUS_1             1               6
  CLUS_2             2              60
  CLUS_3             8             129
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(45) Variable = SETD2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SETD2 MUTATED        5      1      2      5
  SETD2 WILD-TYPE     37     56     65     34
D45V1, multiclass
        clus
vv       SETD2 MUTATED SETD2 WILD-TYPE
  CLUS_1             5              37
  CLUS_2             1              56
  CLUS_3             2              65
  CLUS_4             5              34
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SETD2 MUTATED        6      1      5      1
  SETD2 WILD-TYPE     42     36     68     46
D45V2, multiclass
        clus
vv       SETD2 MUTATED SETD2 WILD-TYPE
  CLUS_1             6              42
  CLUS_2             1              36
  CLUS_3             5              68
  CLUS_4             1              46
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SETD2 MUTATED       11      0      2
  SETD2 WILD-TYPE     76     79     52
D45V3, multiclass
        clus
vv       SETD2 MUTATED SETD2 WILD-TYPE
  CLUS_1            11              76
  CLUS_2             0              79
  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
  SETD2 MUTATED        0      0      0
  SETD2 WILD-TYPE      1      5      2
D45V4, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SETD2 MUTATED        0      2      1      3
  SETD2 WILD-TYPE     40     65     23     23
D45V5, multiclass
        clus
vv       SETD2 MUTATED SETD2 WILD-TYPE
  CLUS_1             0              40
  CLUS_2             2              65
  CLUS_3             1              23
  CLUS_4             3              23
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SETD2 MUTATED        0      5      1
  SETD2 WILD-TYPE     11    121     19
D45V6, multiclass
        clus
vv       SETD2 MUTATED SETD2 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             5             121
  CLUS_3             1              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
  SETD2 MUTATED        0      0      5      8
  SETD2 WILD-TYPE     14      6     24    163
D45V7, multiclass
        clus
vv       SETD2 MUTATED SETD2 WILD-TYPE
  CLUS_1             0              14
  CLUS_2             0               6
  CLUS_3             5              24
  CLUS_4             8             163
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  SETD2 MUTATED        1      0      0      0      2      5      5
  SETD2 WILD-TYPE      0      5      1      1    128     30     42
D45V8, multiclass
        clus
vv       SETD2 MUTATED SETD2 WILD-TYPE
  CLUS_1             1               0
  CLUS_2             0               5
  CLUS_3             0               1
  CLUS_4             0               1
  CLUS_5             2             128
  CLUS_6             5              30
  CLUS_7             5              42
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SETD2 MUTATED        0      0     11
  SETD2 WILD-TYPE      3      9    183
D45V9, multiclass
        clus
vv       SETD2 MUTATED SETD2 WILD-TYPE
  CLUS_1             0               3
  CLUS_2             0               9
  CLUS_3            11             183
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SETD2 MUTATED        1      3      7
  SETD2 WILD-TYPE      6     59    130
D45V10, multiclass
        clus
vv       SETD2 MUTATED SETD2 WILD-TYPE
  CLUS_1             1               6
  CLUS_2             3              59
  CLUS_3             7             130
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(46) Variable = ESR1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ESR1 MUTATED        3      1      2      4
  ESR1 WILD-TYPE     39     56     65     35
D46V1, multiclass
        clus
vv       ESR1 MUTATED ESR1 WILD-TYPE
  CLUS_1            3             39
  CLUS_2            1             56
  CLUS_3            2             65
  CLUS_4            4             35
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ESR1 MUTATED        6      2      0      2
  ESR1 WILD-TYPE     42     35     73     45
D46V2, multiclass
        clus
vv       ESR1 MUTATED ESR1 WILD-TYPE
  CLUS_1            6             42
  CLUS_2            2             35
  CLUS_3            0             73
  CLUS_4            2             45
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ESR1 MUTATED        8      0      3
  ESR1 WILD-TYPE     79     79     51
D46V3, multiclass
        clus
vv       ESR1 MUTATED ESR1 WILD-TYPE
  CLUS_1            8             79
  CLUS_2            0             79
  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
  ESR1 MUTATED        0      0      0
  ESR1 WILD-TYPE      1      5      2
D46V4, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ESR1 MUTATED        2      2      1      2
  ESR1 WILD-TYPE     38     65     23     24
D46V5, multiclass
        clus
vv       ESR1 MUTATED ESR1 WILD-TYPE
  CLUS_1            2             38
  CLUS_2            2             65
  CLUS_3            1             23
  CLUS_4            2             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
  ESR1 MUTATED        0      5      2
  ESR1 WILD-TYPE     11    121     18
D46V6, multiclass
        clus
vv       ESR1 MUTATED ESR1 WILD-TYPE
  CLUS_1            0             11
  CLUS_2            5            121
  CLUS_3            2             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
  ESR1 MUTATED        0      0      2      9
  ESR1 WILD-TYPE     14      6     27    162
D46V7, multiclass
        clus
vv       ESR1 MUTATED ESR1 WILD-TYPE
  CLUS_1            0             14
  CLUS_2            0              6
  CLUS_3            2             27
  CLUS_4            9            162
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  ESR1 MUTATED        0      0      0      0      3      4      4
  ESR1 WILD-TYPE      1      5      1      1    127     31     43
D46V8, multiclass
        clus
vv       ESR1 MUTATED ESR1 WILD-TYPE
  CLUS_1            0              1
  CLUS_2            0              5
  CLUS_3            0              1
  CLUS_4            0              1
  CLUS_5            3            127
  CLUS_6            4             31
  CLUS_7            4             43
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ESR1 MUTATED        0      0      9
  ESR1 WILD-TYPE      3      9    185
D46V9, multiclass
        clus
vv       ESR1 MUTATED ESR1 WILD-TYPE
  CLUS_1            0              3
  CLUS_2            0              9
  CLUS_3            9            185
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ESR1 MUTATED        1      1      7
  ESR1 WILD-TYPE      6     61    130
D46V10, multiclass
        clus
vv       ESR1 MUTATED ESR1 WILD-TYPE
  CLUS_1            1              6
  CLUS_2            1             61
  CLUS_3            7            130
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
