[1] "ofn"        "-oTTHCA-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/THCA-TP/20140899/THCA-TP.transferedmergedcluster.txt"
[1] "dfn:"
[1] "/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_Correlate_Genomic_Events_Preprocess/THCA-TP/19898941/transformed.cor.cli.txt"

nPatients in clinical file=503, in cluster file=401, common to both=401
[1] "Reduce the number of clustering variables from 12 to 11."
[1]  11 401
[1] "BRAF MUTATION ANALYSIS"
[1] 3
  BRAF MUTATED BRAF WILD-TYPE 
           240            161 
  BRAF MUTATED BRAF WILD-TYPE 
           240            161 
[1] "NRAS MUTATION ANALYSIS"
[1] 3
  NRAS MUTATED NRAS WILD-TYPE 
            34            367 
  NRAS MUTATED NRAS WILD-TYPE 
            34            367 
[1] "HRAS MUTATION ANALYSIS"
[1] 3
  HRAS MUTATED HRAS WILD-TYPE 
            14            387 
  HRAS MUTATED HRAS WILD-TYPE 
            14            387 
[1] "EIF1AX MUTATION ANALYSIS"
[1] 3
  EIF1AX MUTATED EIF1AX WILD-TYPE 
               6              395 
  EIF1AX MUTATED EIF1AX WILD-TYPE 
               6              395 
[1] "NUP93 MUTATION ANALYSIS"
[1] 3
  NUP93 MUTATED NUP93 WILD-TYPE 
              4             397 
  NUP93 MUTATED NUP93 WILD-TYPE 
              4             397 
[1] "PPM1D MUTATION ANALYSIS"
[1] 3
  PPM1D MUTATED PPM1D WILD-TYPE 
              5             396 
  PPM1D MUTATED PPM1D WILD-TYPE 
              5             396 
[1] "KRAS MUTATION ANALYSIS"
[1] 3
  KRAS MUTATED KRAS WILD-TYPE 
             4            397 
  KRAS MUTATED KRAS WILD-TYPE 
             4            397 
[1] "DLC1 MUTATION ANALYSIS"
[1] 3
  DLC1 MUTATED DLC1 WILD-TYPE 
             4            397 
  DLC1 MUTATED DLC1 WILD-TYPE 
             4            397 
[1] "ITGAL MUTATION ANALYSIS"
[1] 3
  ITGAL MUTATED ITGAL WILD-TYPE 
              4             397 
  ITGAL MUTATED ITGAL WILD-TYPE 
              4             397 
[1] "TG MUTATION ANALYSIS"
[1] 3
  TG MUTATED TG WILD-TYPE 
          11          390 
  TG MUTATED TG WILD-TYPE 
          11          390 
[1] "NLRP6 MUTATION ANALYSIS"
[1] 3
  NLRP6 MUTATED NLRP6 WILD-TYPE 
              3             398 
  NLRP6 MUTATED NLRP6 WILD-TYPE 
              3             398 
[1] "data2feature, selection=ALL"
 [1] "CN_CNMF"                     "METHLYATION_CNMF"           
 [3] "RPPA_CNMF"                   "RPPA_CHIERARCHICAL"         
 [5] "MRNASEQ_CNMF"                "MRNASEQ_CHIERARCHICAL"      
 [7] "MIRSEQ_CNMF"                 "MIRSEQ_CHIERARCHICAL"       
 [9] "MIRSEQ_MATURE_CNMF"          "MIRSEQ_MATURE_CHIERARCHICAL"

Input Data has 10 rows and 401 columns.

Variable 1:'CN_CNMF':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 2:'METHLYATION_CNMF':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 3:'RPPA_CNMF':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 4:'RPPA_CHIERARCHICAL':	nDistinctValues=7,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 5:'MRNASEQ_CNMF':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 6:'MRNASEQ_CHIERARCHICAL':	nDistinctValues=5,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 7:'MIRSEQ_CNMF':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 8:'MIRSEQ_CHIERARCHICAL':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 9:'MIRSEQ_MATURE_CNMF':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 10:'MIRSEQ_MATURE_CHIERARCHICAL':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
[1] "## **** detect survival parameters (defined in index such as ind_OS, ind_MFS, ind_RFS, ind_RFS, ind_BCR and ind_d2ssd) *** ##"
[1] "detected survival parameters using [ind_OS, overall_survival]"
[1] "survival parameters accumulated so far"
NULL
[1] "detected survival parameters using [ind_OS, curated_overall_survival]"
[1] "survival parameters accumulated so far"
NULL
[1] "detected survival parameters using [ind_TCGAOS]"
[1] "survival parameters accumulated so far"
NULL
[1] "detected survivial parameters using [ind_MFS]"
[1] "survival parameters accumulated so far"
NULL
[1] "detected survival parameters using [ind_RFS]"
[1] "survival parameters accumulated so far"
NULL
[1] "detected survival parameters using [ind_BCR]"
[1] "survival parameters accumulated so far"
NULL
[1] "detected survival parameters using [ind_Progression]"
[1] "survival parameters accumulated so far"
NULL
[1] "detected survival parameters using [index_additional_survival_time]"
[1] "survival parameters accumulated so far"
NULL
[1] "detected survival parameters using condition: [is.null(surv.mat)&&(selection=='SURV')]"
[1] "survival parameters accumulated so far"
NULL
[1] "************ conversion from categorical data to rank data ********** "
[1] "****** SUMMARY ***** "
Output Data has 401 columns, 0 survival variables, and 10 non-survival variables.
[1] "* survival variables: "
NULL
[1] "* non-survival variables: "
 [1] "CN_CNMF"                     "METHLYATION_CNMF"           
 [3] "RPPA_CNMF"                   "RPPA_CHIERARCHICAL"         
 [5] "MRNASEQ_CNMF"                "MRNASEQ_CHIERARCHICAL"      
 [7] "MIRSEQ_CNMF"                 "MIRSEQ_CHIERARCHICAL"       
 [9] "MIRSEQ_MATURE_CNMF"          "MIRSEQ_MATURE_CHIERARCHICAL"
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=7, binary=FALSE, numeric=FALSE
MRNASEQ_CNMF, nv=4, binary=FALSE, numeric=FALSE
MRNASEQ_CHIERARCHICAL, nv=5, binary=FALSE, numeric=FALSE
MIRSEQ_CNMF, nv=3, binary=FALSE, numeric=FALSE
MIRSEQ_CHIERARCHICAL, nv=3, binary=FALSE, numeric=FALSE
MIRSEQ_MATURE_CNMF, nv=3, binary=FALSE, numeric=FALSE
MIRSEQ_MATURE_CHIERARCHICAL, nv=3, binary=FALSE, numeric=FALSE

Clustering(1) Variable = BRAF MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  BRAF MUTATED       19    190     31
  BRAF WILD-TYPE     22    102     35
D1V1, multiclass
        clus
vv       BRAF MUTATED BRAF WILD-TYPE
  CLUS_1           19             22
  CLUS_2          190            102
  CLUS_3           31             35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  BRAF MUTATED      185     19     36
  BRAF WILD-TYPE     28    108     25
D1V2, multiclass
        clus
vv       BRAF MUTATED BRAF WILD-TYPE
  CLUS_1          185             28
  CLUS_2           19            108
  CLUS_3           36             25
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  BRAF MUTATED       24     43     10     44
  BRAF WILD-TYPE     39     18     30      5
D1V3, multiclass
        clus
vv       BRAF MUTATED BRAF WILD-TYPE
  CLUS_1           24             39
  CLUS_2           43             18
  CLUS_3           10             30
  CLUS_4           44              5
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  BRAF MUTATED        6     23     29      6     36     12      9
  BRAF WILD-TYPE     40      4      2     20     11     15      0
D1V4, multiclass
        clus
vv       BRAF MUTATED BRAF WILD-TYPE
  CLUS_1            6             40
  CLUS_2           23              4
  CLUS_3           29              2
  CLUS_4            6             20
  CLUS_5           36             11
  CLUS_6           12             15
  CLUS_7            9              0
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger 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      120     12     30     78
  BRAF WILD-TYPE     10    116     18     15
D1V5, multiclass
        clus
vv       BRAF MUTATED BRAF WILD-TYPE
  CLUS_1          120             10
  CLUS_2           12            116
  CLUS_3           30             18
  CLUS_4           78             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 CLUS_4 CLUS_5
  BRAF MUTATED       78      5     40     62     55
  BRAF WILD-TYPE      3    107     26     16      7
D1V6, multiclass
        clus
vv       BRAF MUTATED BRAF WILD-TYPE
  CLUS_1           78              3
  CLUS_2            5            107
  CLUS_3           40             26
  CLUS_4           62             16
  CLUS_5           55              7
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  BRAF MUTATED      109     14    116
  BRAF WILD-TYPE     28    115     18
D1V7, multiclass
        clus
vv       BRAF MUTATED BRAF WILD-TYPE
  CLUS_1          109             28
  CLUS_2           14            115
  CLUS_3          116             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
  BRAF MUTATED      108      4    127
  BRAF WILD-TYPE     28    105     28
D1V8, multiclass
        clus
vv       BRAF MUTATED BRAF WILD-TYPE
  CLUS_1          108             28
  CLUS_2            4            105
  CLUS_3          127             28
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  BRAF MUTATED      102     81     47
  BRAF WILD-TYPE     23     69     54
D1V9, multiclass
        clus
vv       BRAF MUTATED BRAF WILD-TYPE
  CLUS_1          102             23
  CLUS_2           81             69
  CLUS_3           47             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
  BRAF MUTATED       94      9    127
  BRAF WILD-TYPE     30     97     19
D1V10, multiclass
        clus
vv       BRAF MUTATED BRAF WILD-TYPE
  CLUS_1           94             30
  CLUS_2            9             97
  CLUS_3          127             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"

Clustering(2) Variable = NRAS MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NRAS MUTATED        2     19     11
  NRAS WILD-TYPE     39    273     55
D2V1, multiclass
        clus
vv       NRAS MUTATED NRAS WILD-TYPE
  CLUS_1            2             39
  CLUS_2           19            273
  CLUS_3           11             55
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NRAS MUTATED        0     34      0
  NRAS WILD-TYPE    213     93     61
D2V2, multiclass
        clus
vv       NRAS MUTATED NRAS WILD-TYPE
  CLUS_1            0            213
  CLUS_2           34             93
  CLUS_3            0             61
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NRAS MUTATED        5      5      4      0
  NRAS WILD-TYPE     58     56     36     49
D2V3, multiclass
        clus
vv       NRAS MUTATED NRAS WILD-TYPE
  CLUS_1            5             58
  CLUS_2            5             56
  CLUS_3            4             36
  CLUS_4            0             49
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will 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        5      1      0      3      0      5      0
  NRAS WILD-TYPE     41     26     31     23     47     22      9
D2V4, multiclass
        clus
vv       NRAS MUTATED NRAS WILD-TYPE
  CLUS_1            5             41
  CLUS_2            1             26
  CLUS_3            0             31
  CLUS_4            3             23
  CLUS_5            0             47
  CLUS_6            5             22
  CLUS_7            0              9
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NRAS MUTATED        0     34      0      0
  NRAS WILD-TYPE    130     94     48     93
D2V5, multiclass
        clus
vv       NRAS MUTATED NRAS WILD-TYPE
  CLUS_1            0            130
  CLUS_2           34             94
  CLUS_3            0             48
  CLUS_4            0             93
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NRAS MUTATED        0     34      0      0      0
  NRAS WILD-TYPE     81     78     66     78     62
D2V6, multiclass
        clus
vv       NRAS MUTATED NRAS WILD-TYPE
  CLUS_1            0             81
  CLUS_2           34             78
  CLUS_3            0             66
  CLUS_4            0             78
  CLUS_5            0             62
[1] 5 2
[1] TRUE
[1] "dimension of contingency table 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     33      0
  NRAS WILD-TYPE    136     96    134
D2V7, multiclass
        clus
vv       NRAS MUTATED NRAS WILD-TYPE
  CLUS_1            1            136
  CLUS_2           33             96
  CLUS_3            0            134
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NRAS MUTATED        1     33      0
  NRAS WILD-TYPE    135     76    155
D2V8, multiclass
        clus
vv       NRAS MUTATED NRAS WILD-TYPE
  CLUS_1            1            135
  CLUS_2           33             76
  CLUS_3            0            155
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NRAS MUTATED        2     11     18
  NRAS WILD-TYPE    123    139     83
D2V9, multiclass
        clus
vv       NRAS MUTATED NRAS WILD-TYPE
  CLUS_1            2            123
  CLUS_2           11            139
  CLUS_3           18             83
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NRAS MUTATED        1     30      0
  NRAS WILD-TYPE    123     76    146
D2V10, multiclass
        clus
vv       NRAS MUTATED NRAS WILD-TYPE
  CLUS_1            1            123
  CLUS_2           30             76
  CLUS_3            0            146
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(3) Variable = HRAS MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  HRAS MUTATED        0      4     10
  HRAS WILD-TYPE     41    288     56
D3V1, multiclass
        clus
vv       HRAS MUTATED HRAS WILD-TYPE
  CLUS_1            0             41
  CLUS_2            4            288
  CLUS_3           10             56
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  HRAS MUTATED        0     14      0
  HRAS WILD-TYPE    213    113     61
D3V2, multiclass
        clus
vv       HRAS MUTATED HRAS WILD-TYPE
  CLUS_1            0            213
  CLUS_2           14            113
  CLUS_3            0             61
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  HRAS MUTATED        8      1      1      0
  HRAS WILD-TYPE     55     60     39     49
D3V3, multiclass
        clus
vv       HRAS MUTATED HRAS WILD-TYPE
  CLUS_1            8             55
  CLUS_2            1             60
  CLUS_3            1             39
  CLUS_4            0             49
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  HRAS MUTATED        7      0      0      2      0      1      0
  HRAS WILD-TYPE     39     27     31     24     47     26      9
D3V4, multiclass
        clus
vv       HRAS MUTATED HRAS WILD-TYPE
  CLUS_1            7             39
  CLUS_2            0             27
  CLUS_3            0             31
  CLUS_4            2             24
  CLUS_5            0             47
  CLUS_6            1             26
  CLUS_7            0              9
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  HRAS MUTATED        0     14      0      0
  HRAS WILD-TYPE    130    114     48     93
D3V5, multiclass
        clus
vv       HRAS MUTATED HRAS WILD-TYPE
  CLUS_1            0            130
  CLUS_2           14            114
  CLUS_3            0             48
  CLUS_4            0             93
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  HRAS MUTATED        0     14      0      0      0
  HRAS WILD-TYPE     81     98     66     78     62
D3V6, multiclass
        clus
vv       HRAS MUTATED HRAS WILD-TYPE
  CLUS_1            0             81
  CLUS_2           14             98
  CLUS_3            0             66
  CLUS_4            0             78
  CLUS_5            0             62
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  HRAS MUTATED        0     14      0
  HRAS WILD-TYPE    137    115    134
D3V7, multiclass
        clus
vv       HRAS MUTATED HRAS WILD-TYPE
  CLUS_1            0            137
  CLUS_2           14            115
  CLUS_3            0            134
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  HRAS MUTATED        0     14      0
  HRAS WILD-TYPE    136     95    155
D3V8, multiclass
        clus
vv       HRAS MUTATED HRAS WILD-TYPE
  CLUS_1            0            136
  CLUS_2           14             95
  CLUS_3            0            155
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  HRAS MUTATED        0      3      9
  HRAS WILD-TYPE    125    147     92
D3V9, multiclass
        clus
vv       HRAS MUTATED HRAS WILD-TYPE
  CLUS_1            0            125
  CLUS_2            3            147
  CLUS_3            9             92
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  HRAS MUTATED        0     12      0
  HRAS WILD-TYPE    124     94    146
D3V10, multiclass
        clus
vv       HRAS MUTATED HRAS WILD-TYPE
  CLUS_1            0            124
  CLUS_2           12             94
  CLUS_3            0            146
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(4) Variable = EIF1AX MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  EIF1AX MUTATED        0      6      0
  EIF1AX WILD-TYPE     41    286     66
D4V1, multiclass
        clus
vv       EIF1AX MUTATED EIF1AX WILD-TYPE
  CLUS_1              0               41
  CLUS_2              6              286
  CLUS_3              0               66
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  EIF1AX MUTATED        1      4      1
  EIF1AX WILD-TYPE    212    123     60
D4V2, multiclass
        clus
vv       EIF1AX MUTATED EIF1AX WILD-TYPE
  CLUS_1              1              212
  CLUS_2              4              123
  CLUS_3              1               60
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  EIF1AX MUTATED        2      1      2      0
  EIF1AX WILD-TYPE     61     60     38     49
D4V3, multiclass
        clus
vv       EIF1AX MUTATED EIF1AX WILD-TYPE
  CLUS_1              2               61
  CLUS_2              1               60
  CLUS_3              2               38
  CLUS_4              0               49
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  EIF1AX MUTATED        3      0      0      1      0      1      0
  EIF1AX WILD-TYPE     43     27     31     25     47     26      9
D4V4, multiclass
        clus
vv       EIF1AX MUTATED EIF1AX WILD-TYPE
  CLUS_1              3               43
  CLUS_2              0               27
  CLUS_3              0               31
  CLUS_4              1               25
  CLUS_5              0               47
  CLUS_6              1               26
  CLUS_7              0                9
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  EIF1AX MUTATED        0      4      1      1
  EIF1AX WILD-TYPE    130    124     47     92
D4V5, multiclass
        clus
vv       EIF1AX MUTATED EIF1AX WILD-TYPE
  CLUS_1              0              130
  CLUS_2              4              124
  CLUS_3              1               47
  CLUS_4              1               92
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EIF1AX MUTATED        0      5      1      0      0
  EIF1AX WILD-TYPE     81    107     65     78     62
D4V6, multiclass
        clus
vv       EIF1AX MUTATED EIF1AX WILD-TYPE
  CLUS_1              0               81
  CLUS_2              5              107
  CLUS_3              1               65
  CLUS_4              0               78
  CLUS_5              0               62
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  EIF1AX MUTATED        1      4      1
  EIF1AX WILD-TYPE    136    125    133
D4V7, multiclass
        clus
vv       EIF1AX MUTATED EIF1AX WILD-TYPE
  CLUS_1              1              136
  CLUS_2              4              125
  CLUS_3              1              133
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  EIF1AX MUTATED        2      3      1
  EIF1AX WILD-TYPE    134    106    154
D4V8, multiclass
        clus
vv       EIF1AX MUTATED EIF1AX WILD-TYPE
  CLUS_1              2              134
  CLUS_2              3              106
  CLUS_3              1              154
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  EIF1AX MUTATED        1      3      2
  EIF1AX WILD-TYPE    124    147     99
D4V9, multiclass
        clus
vv       EIF1AX MUTATED EIF1AX WILD-TYPE
  CLUS_1              1              124
  CLUS_2              3              147
  CLUS_3              2               99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  EIF1AX MUTATED        1      4      1
  EIF1AX WILD-TYPE    123    102    145
D4V10, multiclass
        clus
vv       EIF1AX MUTATED EIF1AX WILD-TYPE
  CLUS_1              1              123
  CLUS_2              4              102
  CLUS_3              1              145
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(5) Variable = NUP93 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NUP93 MUTATED        1      3      0
  NUP93 WILD-TYPE     40    289     66
D5V1, multiclass
        clus
vv       NUP93 MUTATED NUP93 WILD-TYPE
  CLUS_1             1              40
  CLUS_2             3             289
  CLUS_3             0              66
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NUP93 MUTATED        3      1      0
  NUP93 WILD-TYPE    210    126     61
D5V2, multiclass
        clus
vv       NUP93 MUTATED NUP93 WILD-TYPE
  CLUS_1             3             210
  CLUS_2             1             126
  CLUS_3             0              61
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NUP93 MUTATED        0      0      1      1
  NUP93 WILD-TYPE     63     61     39     48
D5V3, multiclass
[1] "Remove cluster labels:" "NUP93 MUTATED"         
clus
  NUP93 MUTATED NUP93 WILD-TYPE 
              2             211 
     TCGA-BJ-A0YZ      TCGA-BJ-A0Z0      TCGA-BJ-A0Z2      TCGA-BJ-A0Z3 
"NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" 
     TCGA-BJ-A0Z9      TCGA-BJ-A0ZA      TCGA-BJ-A0ZB      TCGA-BJ-A0ZC 
"NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" 
     TCGA-BJ-A0ZE      TCGA-BJ-A0ZG      TCGA-BJ-A0ZJ      TCGA-BJ-A18Y 
"NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" 
     TCGA-BJ-A18Z      TCGA-BJ-A192      TCGA-BJ-A28R      TCGA-BJ-A28S 
"NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" 
     TCGA-BJ-A28T      TCGA-BJ-A28V      TCGA-BJ-A28Z      TCGA-BJ-A290 
"NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" 
     TCGA-BJ-A2N7      TCGA-BJ-A2N9      TCGA-BJ-A2NA      TCGA-BJ-A2P4 
"NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" 
     TCGA-BJ-A3EZ      TCGA-BJ-A3F0      TCGA-CE-A13K      TCGA-CE-A27D 
"NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" 
     TCGA-CE-A3MD      TCGA-CE-A3ME      TCGA-DE-A0Y2      TCGA-DE-A2OL 
"NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" 
     TCGA-DE-A3KN      TCGA-DJ-A13M      TCGA-DJ-A13O      TCGA-DJ-A13R 
"NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" 
     TCGA-DJ-A13S      TCGA-DJ-A13V      TCGA-DJ-A13W      TCGA-DJ-A13X 
"NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" 
     TCGA-DJ-A1QD      TCGA-DJ-A1QE      TCGA-DJ-A1QF      TCGA-DJ-A1QG 
"NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" 
     TCGA-DJ-A1QI      TCGA-DJ-A1QL      TCGA-DJ-A1QM      TCGA-DJ-A1QN 
"NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" 
     TCGA-DJ-A1QO      TCGA-DJ-A2PN      TCGA-DJ-A2PO      TCGA-DJ-A2PP 
"NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" 
     TCGA-DJ-A2PQ      TCGA-DJ-A2PR      TCGA-DJ-A2PS      TCGA-DJ-A2PU 
"NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" 
     TCGA-DJ-A2PV      TCGA-DJ-A2PW      TCGA-DJ-A2PY      TCGA-DJ-A2PZ 
"NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" 
     TCGA-DJ-A2Q0      TCGA-DJ-A2Q1      TCGA-DJ-A2Q2      TCGA-DJ-A2Q5 
"NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" 
     TCGA-DJ-A2Q6      TCGA-DJ-A2Q7      TCGA-DJ-A2Q8      TCGA-DJ-A2Q9 
"NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" 
     TCGA-DJ-A2QA      TCGA-DJ-A2QB      TCGA-DJ-A2QC      TCGA-DO-A1JZ 
"NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" 
     TCGA-DO-A1K0      TCGA-E3-A3DY      TCGA-E3-A3DZ      TCGA-E3-A3E0 
"NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" 
     TCGA-E3-A3E1      TCGA-E3-A3E3      TCGA-E3-A3E5      TCGA-E8-A2EA 
"NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" 
     TCGA-EL-A3CL      TCGA-EL-A3CM      TCGA-EL-A3CN      TCGA-EL-A3CO 
"NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" 
     TCGA-EL-A3CP      TCGA-EL-A3CR      TCGA-EL-A3CS      TCGA-EL-A3CT 
"NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" 
     TCGA-EL-A3CU      TCGA-EL-A3CV      TCGA-EL-A3CW      TCGA-EL-A3CX 
"NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" 
     TCGA-EL-A3CY      TCGA-EL-A3CZ      TCGA-EL-A3D0      TCGA-EL-A3D1 
"NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" 
     TCGA-EL-A3D4      TCGA-EL-A3D5      TCGA-EL-A3D6      TCGA-EL-A3GO 
"NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" 
     TCGA-EL-A3GP      TCGA-EL-A3GQ      TCGA-EL-A3GR      TCGA-EL-A3GS 
"NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" 
     TCGA-EL-A3GU      TCGA-EL-A3GV      TCGA-EL-A3GW      TCGA-EL-A3GX 
"NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" 
     TCGA-EL-A3GY      TCGA-EL-A3GZ      TCGA-EL-A3H1      TCGA-EL-A3H2 
"NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" 
     TCGA-EL-A3H3      TCGA-EL-A3H4      TCGA-EL-A3H5      TCGA-EL-A3H7 
"NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" 
     TCGA-EL-A3H8      TCGA-EL-A3MW      TCGA-EL-A3MX      TCGA-EL-A3MY 
"NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" 
     TCGA-EL-A3MZ      TCGA-EL-A3N2      TCGA-EL-A3N3      TCGA-EM-A1CT 
"NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" 
     TCGA-EM-A1CU      TCGA-EM-A1CV      TCGA-EM-A1CW      TCGA-EM-A1YA 
"NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" 
     TCGA-EM-A1YB      TCGA-EM-A1YC      TCGA-EM-A1YD      TCGA-EM-A1YE 
"NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" 
     TCGA-EM-A22I      TCGA-EM-A22J      TCGA-EM-A22L      TCGA-EM-A22M 
"NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" 
     TCGA-EM-A22O      TCGA-EM-A22Q      TCGA-EM-A2CJ      TCGA-EM-A2CK 
"NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" 
     TCGA-EM-A2CL      TCGA-EM-A2CN      TCGA-EM-A2CO      TCGA-EM-A2CP 
"NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" 
     TCGA-EM-A2CQ      TCGA-EM-A2CR      TCGA-EM-A2CU      TCGA-EM-A2OV 
"NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" 
     TCGA-EM-A2OY      TCGA-EM-A2P1      TCGA-EM-A3AI      TCGA-EM-A3AJ 
"NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" 
     TCGA-EM-A3AL      TCGA-EM-A3AN      TCGA-EM-A3AO      TCGA-EM-A3AP 
"NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" 
     TCGA-EM-A3FJ      TCGA-EM-A3FL      TCGA-EM-A3FN      TCGA-EM-A3FO 
"NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" 
     TCGA-EM-A3FP      TCGA-ET-A25G      TCGA-ET-A25O      TCGA-ET-A2MY 
"NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" 
     TCGA-ET-A2MZ      TCGA-ET-A2N0      TCGA-ET-A2N1      TCGA-ET-A2N4 
"NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" 
     TCGA-ET-A2N5      TCGA-ET-A39I      TCGA-ET-A39J      TCGA-ET-A39L 
"NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" 
     TCGA-ET-A39M      TCGA-ET-A39N      TCGA-ET-A39P      TCGA-ET-A39R 
"NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" 
     TCGA-ET-A39T      TCGA-ET-A3BN      TCGA-ET-A3BP      TCGA-ET-A3BS 
"NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" 
     TCGA-ET-A3BT      TCGA-ET-A3BU      TCGA-ET-A3BV      TCGA-ET-A3BW 
"NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" 
     TCGA-ET-A3BX      TCGA-ET-A3DO      TCGA-ET-A3DP      TCGA-ET-A3DS 
"NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" 
     TCGA-ET-A3DT      TCGA-ET-A3DV      TCGA-ET-A3DW      TCGA-FE-A22Z 
"NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" 
     TCGA-FE-A230      TCGA-FE-A231      TCGA-FE-A232      TCGA-FE-A233 
"NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" 
     TCGA-FE-A234      TCGA-FE-A235      TCGA-FE-A236      TCGA-FE-A237 
"NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" 
     TCGA-FE-A23A      TCGA-FY-A2QD      TCGA-FY-A3BL      TCGA-FY-A3ON 
"NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" 
     TCGA-GE-A2C6      TCGA-H2-A2K9      TCGA-IM-A3EB      TCGA-IM-A3ED 
"NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" 
     TCGA-J8-A3NZ      TCGA-J8-A3O0      TCGA-J8-A3O1 
"NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  NUP93 MUTATED        0      0      0      0      2      0      0
  NUP93 WILD-TYPE     46     27     31     26     45     27      9
D5V4, multiclass
[1] "Remove cluster labels:" "NUP93 MUTATED"         
clus
  NUP93 MUTATED NUP93 WILD-TYPE 
              2             211 
     TCGA-BJ-A0YZ      TCGA-BJ-A0Z0      TCGA-BJ-A0Z2      TCGA-BJ-A0Z3 
"NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" 
     TCGA-BJ-A0Z9      TCGA-BJ-A0ZA      TCGA-BJ-A0ZB      TCGA-BJ-A0ZC 
"NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" 
     TCGA-BJ-A0ZE      TCGA-BJ-A0ZG      TCGA-BJ-A0ZJ      TCGA-BJ-A18Y 
"NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" 
     TCGA-BJ-A18Z      TCGA-BJ-A192      TCGA-BJ-A28R      TCGA-BJ-A28S 
"NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" 
     TCGA-BJ-A28T      TCGA-BJ-A28V      TCGA-BJ-A28Z      TCGA-BJ-A290 
"NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" 
     TCGA-BJ-A2N7      TCGA-BJ-A2N9      TCGA-BJ-A2NA      TCGA-BJ-A2P4 
"NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" 
     TCGA-BJ-A3EZ      TCGA-BJ-A3F0      TCGA-CE-A13K      TCGA-CE-A27D 
"NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" 
     TCGA-CE-A3MD      TCGA-CE-A3ME      TCGA-DE-A0Y2      TCGA-DE-A2OL 
"NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" 
     TCGA-DE-A3KN      TCGA-DJ-A13M      TCGA-DJ-A13O      TCGA-DJ-A13R 
"NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" 
     TCGA-DJ-A13S      TCGA-DJ-A13V      TCGA-DJ-A13W      TCGA-DJ-A13X 
"NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" 
     TCGA-DJ-A1QD      TCGA-DJ-A1QE      TCGA-DJ-A1QF      TCGA-DJ-A1QG 
"NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" 
     TCGA-DJ-A1QI      TCGA-DJ-A1QL      TCGA-DJ-A1QM      TCGA-DJ-A1QN 
"NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" 
     TCGA-DJ-A1QO      TCGA-DJ-A2PN      TCGA-DJ-A2PO      TCGA-DJ-A2PP 
"NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" 
     TCGA-DJ-A2PQ      TCGA-DJ-A2PR      TCGA-DJ-A2PS      TCGA-DJ-A2PU 
"NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" 
     TCGA-DJ-A2PV      TCGA-DJ-A2PW      TCGA-DJ-A2PY      TCGA-DJ-A2PZ 
"NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" 
     TCGA-DJ-A2Q0      TCGA-DJ-A2Q1      TCGA-DJ-A2Q2      TCGA-DJ-A2Q5 
"NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" 
     TCGA-DJ-A2Q6      TCGA-DJ-A2Q7      TCGA-DJ-A2Q8      TCGA-DJ-A2Q9 
"NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" 
     TCGA-DJ-A2QA      TCGA-DJ-A2QB      TCGA-DJ-A2QC      TCGA-DO-A1JZ 
"NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" 
     TCGA-DO-A1K0      TCGA-E3-A3DY      TCGA-E3-A3DZ      TCGA-E3-A3E0 
"NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" 
     TCGA-E3-A3E1      TCGA-E3-A3E3      TCGA-E3-A3E5      TCGA-E8-A2EA 
"NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" 
     TCGA-EL-A3CL      TCGA-EL-A3CM      TCGA-EL-A3CN      TCGA-EL-A3CO 
"NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" 
     TCGA-EL-A3CP      TCGA-EL-A3CR      TCGA-EL-A3CS      TCGA-EL-A3CT 
"NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" 
     TCGA-EL-A3CU      TCGA-EL-A3CV      TCGA-EL-A3CW      TCGA-EL-A3CX 
"NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" 
     TCGA-EL-A3CY      TCGA-EL-A3CZ      TCGA-EL-A3D0      TCGA-EL-A3D1 
"NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" 
     TCGA-EL-A3D4      TCGA-EL-A3D5      TCGA-EL-A3D6      TCGA-EL-A3GO 
"NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" 
     TCGA-EL-A3GP      TCGA-EL-A3GQ      TCGA-EL-A3GR      TCGA-EL-A3GS 
"NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" 
     TCGA-EL-A3GU      TCGA-EL-A3GV      TCGA-EL-A3GW      TCGA-EL-A3GX 
"NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" 
     TCGA-EL-A3GY      TCGA-EL-A3GZ      TCGA-EL-A3H1      TCGA-EL-A3H2 
"NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" 
     TCGA-EL-A3H3      TCGA-EL-A3H4      TCGA-EL-A3H5      TCGA-EL-A3H7 
"NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" 
     TCGA-EL-A3H8      TCGA-EL-A3MW      TCGA-EL-A3MX      TCGA-EL-A3MY 
"NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" 
     TCGA-EL-A3MZ      TCGA-EL-A3N2      TCGA-EL-A3N3      TCGA-EM-A1CT 
"NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" 
     TCGA-EM-A1CU      TCGA-EM-A1CV      TCGA-EM-A1CW      TCGA-EM-A1YA 
"NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" 
     TCGA-EM-A1YB      TCGA-EM-A1YC      TCGA-EM-A1YD      TCGA-EM-A1YE 
"NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" 
     TCGA-EM-A22I      TCGA-EM-A22J      TCGA-EM-A22L      TCGA-EM-A22M 
"NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" 
     TCGA-EM-A22O      TCGA-EM-A22Q      TCGA-EM-A2CJ      TCGA-EM-A2CK 
"NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" 
     TCGA-EM-A2CL      TCGA-EM-A2CN      TCGA-EM-A2CO      TCGA-EM-A2CP 
"NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" 
     TCGA-EM-A2CQ      TCGA-EM-A2CR      TCGA-EM-A2CU      TCGA-EM-A2OV 
"NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" 
     TCGA-EM-A2OY      TCGA-EM-A2P1      TCGA-EM-A3AI      TCGA-EM-A3AJ 
"NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" 
     TCGA-EM-A3AL      TCGA-EM-A3AN      TCGA-EM-A3AO      TCGA-EM-A3AP 
"NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" 
     TCGA-EM-A3FJ      TCGA-EM-A3FL      TCGA-EM-A3FN      TCGA-EM-A3FO 
"NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" 
     TCGA-EM-A3FP      TCGA-ET-A25G      TCGA-ET-A25O      TCGA-ET-A2MY 
"NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" 
     TCGA-ET-A2MZ      TCGA-ET-A2N0      TCGA-ET-A2N1      TCGA-ET-A2N4 
"NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" 
     TCGA-ET-A2N5      TCGA-ET-A39I      TCGA-ET-A39J      TCGA-ET-A39L 
"NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" 
     TCGA-ET-A39M      TCGA-ET-A39N      TCGA-ET-A39P      TCGA-ET-A39R 
"NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" 
     TCGA-ET-A39T      TCGA-ET-A3BN      TCGA-ET-A3BP      TCGA-ET-A3BS 
"NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" 
     TCGA-ET-A3BT      TCGA-ET-A3BU      TCGA-ET-A3BV      TCGA-ET-A3BW 
"NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" 
     TCGA-ET-A3BX      TCGA-ET-A3DO      TCGA-ET-A3DP      TCGA-ET-A3DS 
"NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" 
     TCGA-ET-A3DT      TCGA-ET-A3DV      TCGA-ET-A3DW      TCGA-FE-A22Z 
"NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" 
     TCGA-FE-A230      TCGA-FE-A231      TCGA-FE-A232      TCGA-FE-A233 
"NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" 
     TCGA-FE-A234      TCGA-FE-A235      TCGA-FE-A236      TCGA-FE-A237 
"NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" 
     TCGA-FE-A23A      TCGA-FY-A2QD      TCGA-FY-A3BL      TCGA-FY-A3ON 
"NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" 
     TCGA-GE-A2C6      TCGA-H2-A2K9      TCGA-IM-A3EB      TCGA-IM-A3ED 
"NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" 
     TCGA-J8-A3NZ      TCGA-J8-A3O0      TCGA-J8-A3O1 
"NUP93 WILD-TYPE" "NUP93 WILD-TYPE" "NUP93 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NUP93 MUTATED        3      1      0      0
  NUP93 WILD-TYPE    127    127     48     93
D5V5, multiclass
        clus
vv       NUP93 MUTATED NUP93 WILD-TYPE
  CLUS_1             3             127
  CLUS_2             1             127
  CLUS_3             0              48
  CLUS_4             0              93
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NUP93 MUTATED        2      1      0      0      1
  NUP93 WILD-TYPE     79    111     66     78     61
D5V6, multiclass
        clus
vv       NUP93 MUTATED NUP93 WILD-TYPE
  CLUS_1             2              79
  CLUS_2             1             111
  CLUS_3             0              66
  CLUS_4             0              78
  CLUS_5             1              61
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NUP93 MUTATED        1      1      2
  NUP93 WILD-TYPE    136    128    132
D5V7, multiclass
        clus
vv       NUP93 MUTATED NUP93 WILD-TYPE
  CLUS_1             1             136
  CLUS_2             1             128
  CLUS_3             2             132
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NUP93 MUTATED        1      1      2
  NUP93 WILD-TYPE    135    108    153
D5V8, multiclass
        clus
vv       NUP93 MUTATED NUP93 WILD-TYPE
  CLUS_1             1             135
  CLUS_2             1             108
  CLUS_3             2             153
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NUP93 MUTATED        1      1      2
  NUP93 WILD-TYPE    124    149     99
D5V9, multiclass
        clus
vv       NUP93 MUTATED NUP93 WILD-TYPE
  CLUS_1             1             124
  CLUS_2             1             149
  CLUS_3             2              99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NUP93 MUTATED        1      2      1
  NUP93 WILD-TYPE    123    104    145
D5V10, multiclass
        clus
vv       NUP93 MUTATED NUP93 WILD-TYPE
  CLUS_1             1             123
  CLUS_2             2             104
  CLUS_3             1             145
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(6) Variable = PPM1D MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PPM1D MUTATED        0      5      0
  PPM1D WILD-TYPE     41    287     66
D6V1, multiclass
        clus
vv       PPM1D MUTATED PPM1D WILD-TYPE
  CLUS_1             0              41
  CLUS_2             5             287
  CLUS_3             0              66
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PPM1D MUTATED        3      2      0
  PPM1D WILD-TYPE    210    125     61
D6V2, multiclass
        clus
vv       PPM1D MUTATED PPM1D WILD-TYPE
  CLUS_1             3             210
  CLUS_2             2             125
  CLUS_3             0              61
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PPM1D MUTATED        0      0      1      2
  PPM1D WILD-TYPE     63     61     39     47
D6V3, multiclass
        clus
vv       PPM1D MUTATED PPM1D WILD-TYPE
  CLUS_1             0              63
  CLUS_2             0              61
  CLUS_3             1              39
  CLUS_4             2              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 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  PPM1D MUTATED        1      0      0      0      2      0      0
  PPM1D WILD-TYPE     45     27     31     26     45     27      9
D6V4, multiclass
        clus
vv       PPM1D MUTATED PPM1D WILD-TYPE
  CLUS_1             1              45
  CLUS_2             0              27
  CLUS_3             0              31
  CLUS_4             0              26
  CLUS_5             2              45
  CLUS_6             0              27
  CLUS_7             0               9
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PPM1D MUTATED        2      1      0      2
  PPM1D WILD-TYPE    128    127     48     91
D6V5, multiclass
        clus
vv       PPM1D MUTATED PPM1D WILD-TYPE
  CLUS_1             2             128
  CLUS_2             1             127
  CLUS_3             0              48
  CLUS_4             2              91
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PPM1D MUTATED        0      1      0      3      1
  PPM1D WILD-TYPE     81    111     66     75     61
D6V6, multiclass
        clus
vv       PPM1D MUTATED PPM1D WILD-TYPE
  CLUS_1             0              81
  CLUS_2             1             111
  CLUS_3             0              66
  CLUS_4             3              75
  CLUS_5             1              61
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PPM1D MUTATED        0      2      3
  PPM1D WILD-TYPE    137    127    131
D6V7, multiclass
        clus
vv       PPM1D MUTATED PPM1D WILD-TYPE
  CLUS_1             0             137
  CLUS_2             2             127
  CLUS_3             3             131
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PPM1D MUTATED        0      1      4
  PPM1D WILD-TYPE    136    108    151
D6V8, multiclass
        clus
vv       PPM1D MUTATED PPM1D WILD-TYPE
  CLUS_1             0             136
  CLUS_2             1             108
  CLUS_3             4             151
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PPM1D MUTATED        1      3      1
  PPM1D WILD-TYPE    124    147    100
D6V9, multiclass
        clus
vv       PPM1D MUTATED PPM1D WILD-TYPE
  CLUS_1             1             124
  CLUS_2             3             147
  CLUS_3             1             100
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PPM1D MUTATED        0      1      4
  PPM1D WILD-TYPE    124    105    142
D6V10, multiclass
        clus
vv       PPM1D MUTATED PPM1D WILD-TYPE
  CLUS_1             0             124
  CLUS_2             1             105
  CLUS_3             4             142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(7) Variable = KRAS MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  KRAS MUTATED        0      4      0
  KRAS WILD-TYPE     41    288     66
D7V1, multiclass
        clus
vv       KRAS MUTATED KRAS WILD-TYPE
  CLUS_1            0             41
  CLUS_2            4            288
  CLUS_3            0             66
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  KRAS MUTATED        1      3      0
  KRAS WILD-TYPE    212    124     61
D7V2, multiclass
        clus
vv       KRAS MUTATED KRAS WILD-TYPE
  CLUS_1            1            212
  CLUS_2            3            124
  CLUS_3            0             61
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KRAS MUTATED        1      1      0      0
  KRAS WILD-TYPE     62     60     40     49
D7V3, multiclass
[1] "Remove cluster labels:" "KRAS MUTATED"          
clus
  KRAS MUTATED KRAS WILD-TYPE 
             2            211 
    TCGA-BJ-A0YZ     TCGA-BJ-A0Z0     TCGA-BJ-A0Z2     TCGA-BJ-A0Z3 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-BJ-A0Z9     TCGA-BJ-A0ZA     TCGA-BJ-A0ZB     TCGA-BJ-A0ZC 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-BJ-A0ZG     TCGA-BJ-A0ZJ     TCGA-BJ-A18Y     TCGA-BJ-A18Z 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-BJ-A191     TCGA-BJ-A192     TCGA-BJ-A28R     TCGA-BJ-A28S 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-BJ-A28T     TCGA-BJ-A28V     TCGA-BJ-A28Z     TCGA-BJ-A290 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-BJ-A2N7     TCGA-BJ-A2N9     TCGA-BJ-A2NA     TCGA-BJ-A2P4 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-BJ-A3EZ     TCGA-BJ-A3F0     TCGA-CE-A13K     TCGA-CE-A27D 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-CE-A3MD     TCGA-CE-A3ME     TCGA-DE-A0Y2     TCGA-DE-A2OL 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-DE-A3KN     TCGA-DJ-A13M     TCGA-DJ-A13O     TCGA-DJ-A13R 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-DJ-A13S     TCGA-DJ-A13V     TCGA-DJ-A13W     TCGA-DJ-A13X 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-DJ-A1QD     TCGA-DJ-A1QE     TCGA-DJ-A1QF     TCGA-DJ-A1QG 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-DJ-A1QI     TCGA-DJ-A1QL     TCGA-DJ-A1QM     TCGA-DJ-A1QN 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-DJ-A1QO     TCGA-DJ-A2PN     TCGA-DJ-A2PO     TCGA-DJ-A2PP 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-DJ-A2PQ     TCGA-DJ-A2PR     TCGA-DJ-A2PS     TCGA-DJ-A2PU 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-DJ-A2PV     TCGA-DJ-A2PW     TCGA-DJ-A2PY     TCGA-DJ-A2PZ 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-DJ-A2Q0     TCGA-DJ-A2Q1     TCGA-DJ-A2Q2     TCGA-DJ-A2Q4 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-DJ-A2Q5     TCGA-DJ-A2Q6     TCGA-DJ-A2Q7     TCGA-DJ-A2Q8 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-DJ-A2Q9     TCGA-DJ-A2QA     TCGA-DJ-A2QB     TCGA-DJ-A2QC 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-DO-A1JZ     TCGA-DO-A1K0     TCGA-E3-A3DY     TCGA-E3-A3DZ 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-E3-A3E0     TCGA-E3-A3E1     TCGA-E3-A3E3     TCGA-E3-A3E5 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-E8-A2EA     TCGA-EL-A3CL     TCGA-EL-A3CM     TCGA-EL-A3CN 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-EL-A3CO     TCGA-EL-A3CP     TCGA-EL-A3CR     TCGA-EL-A3CS 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-EL-A3CT     TCGA-EL-A3CU     TCGA-EL-A3CV     TCGA-EL-A3CW 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-EL-A3CX     TCGA-EL-A3CY     TCGA-EL-A3CZ     TCGA-EL-A3D0 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-EL-A3D1     TCGA-EL-A3D4     TCGA-EL-A3D5     TCGA-EL-A3D6 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-EL-A3GO     TCGA-EL-A3GP     TCGA-EL-A3GQ     TCGA-EL-A3GR 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-EL-A3GS     TCGA-EL-A3GU     TCGA-EL-A3GV     TCGA-EL-A3GW 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-EL-A3GX     TCGA-EL-A3GY     TCGA-EL-A3GZ     TCGA-EL-A3H1 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-EL-A3H2     TCGA-EL-A3H3     TCGA-EL-A3H4     TCGA-EL-A3H5 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-EL-A3H7     TCGA-EL-A3H8     TCGA-EL-A3MW     TCGA-EL-A3MX 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-EL-A3MY     TCGA-EL-A3MZ     TCGA-EL-A3N2     TCGA-EL-A3N3 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-EM-A1CT     TCGA-EM-A1CU     TCGA-EM-A1CV     TCGA-EM-A1CW 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-EM-A1YA     TCGA-EM-A1YB     TCGA-EM-A1YC     TCGA-EM-A1YD 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-EM-A1YE     TCGA-EM-A22I     TCGA-EM-A22J     TCGA-EM-A22L 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-EM-A22M     TCGA-EM-A22O     TCGA-EM-A22Q     TCGA-EM-A2CJ 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-EM-A2CK     TCGA-EM-A2CL     TCGA-EM-A2CN     TCGA-EM-A2CO 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-EM-A2CP     TCGA-EM-A2CR     TCGA-EM-A2CU     TCGA-EM-A2OV 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-EM-A2OY     TCGA-EM-A2P1     TCGA-EM-A3AI     TCGA-EM-A3AJ 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-EM-A3AL     TCGA-EM-A3AN     TCGA-EM-A3AO     TCGA-EM-A3AP 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-EM-A3FJ     TCGA-EM-A3FL     TCGA-EM-A3FN     TCGA-EM-A3FO 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-EM-A3FP     TCGA-ET-A25G     TCGA-ET-A25O     TCGA-ET-A2MY 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-ET-A2MZ     TCGA-ET-A2N0     TCGA-ET-A2N1     TCGA-ET-A2N4 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-ET-A2N5     TCGA-ET-A39I     TCGA-ET-A39J     TCGA-ET-A39L 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-ET-A39M     TCGA-ET-A39N     TCGA-ET-A39P     TCGA-ET-A39R 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-ET-A39T     TCGA-ET-A3BN     TCGA-ET-A3BP     TCGA-ET-A3BS 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-ET-A3BT     TCGA-ET-A3BU     TCGA-ET-A3BV     TCGA-ET-A3BW 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-ET-A3BX     TCGA-ET-A3DO     TCGA-ET-A3DP     TCGA-ET-A3DS 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-ET-A3DT     TCGA-ET-A3DV     TCGA-ET-A3DW     TCGA-FE-A22Z 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-FE-A230     TCGA-FE-A231     TCGA-FE-A232     TCGA-FE-A233 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-FE-A234     TCGA-FE-A235     TCGA-FE-A236     TCGA-FE-A237 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-FE-A23A     TCGA-FY-A2QD     TCGA-FY-A3BL     TCGA-FY-A3ON 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-GE-A2C6     TCGA-H2-A2K9     TCGA-IM-A3EB     TCGA-IM-A3ED 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-J8-A3NZ     TCGA-J8-A3O0     TCGA-J8-A3O1 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  KRAS MUTATED        1      0      0      1      0      0      0
  KRAS WILD-TYPE     45     27     31     25     47     27      9
D7V4, multiclass
[1] "Remove cluster labels:" "KRAS MUTATED"          
clus
  KRAS MUTATED KRAS WILD-TYPE 
             2            211 
    TCGA-BJ-A0YZ     TCGA-BJ-A0Z0     TCGA-BJ-A0Z2     TCGA-BJ-A0Z3 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-BJ-A0Z9     TCGA-BJ-A0ZA     TCGA-BJ-A0ZB     TCGA-BJ-A0ZC 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-BJ-A0ZG     TCGA-BJ-A0ZJ     TCGA-BJ-A18Y     TCGA-BJ-A18Z 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-BJ-A191     TCGA-BJ-A192     TCGA-BJ-A28R     TCGA-BJ-A28S 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-BJ-A28T     TCGA-BJ-A28V     TCGA-BJ-A28Z     TCGA-BJ-A290 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-BJ-A2N7     TCGA-BJ-A2N9     TCGA-BJ-A2NA     TCGA-BJ-A2P4 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-BJ-A3EZ     TCGA-BJ-A3F0     TCGA-CE-A13K     TCGA-CE-A27D 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-CE-A3MD     TCGA-CE-A3ME     TCGA-DE-A0Y2     TCGA-DE-A2OL 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-DE-A3KN     TCGA-DJ-A13M     TCGA-DJ-A13O     TCGA-DJ-A13R 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-DJ-A13S     TCGA-DJ-A13V     TCGA-DJ-A13W     TCGA-DJ-A13X 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-DJ-A1QD     TCGA-DJ-A1QE     TCGA-DJ-A1QF     TCGA-DJ-A1QG 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-DJ-A1QI     TCGA-DJ-A1QL     TCGA-DJ-A1QM     TCGA-DJ-A1QN 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-DJ-A1QO     TCGA-DJ-A2PN     TCGA-DJ-A2PO     TCGA-DJ-A2PP 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-DJ-A2PQ     TCGA-DJ-A2PR     TCGA-DJ-A2PS     TCGA-DJ-A2PU 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-DJ-A2PV     TCGA-DJ-A2PW     TCGA-DJ-A2PY     TCGA-DJ-A2PZ 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-DJ-A2Q0     TCGA-DJ-A2Q1     TCGA-DJ-A2Q2     TCGA-DJ-A2Q4 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-DJ-A2Q5     TCGA-DJ-A2Q6     TCGA-DJ-A2Q7     TCGA-DJ-A2Q8 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-DJ-A2Q9     TCGA-DJ-A2QA     TCGA-DJ-A2QB     TCGA-DJ-A2QC 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-DO-A1JZ     TCGA-DO-A1K0     TCGA-E3-A3DY     TCGA-E3-A3DZ 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-E3-A3E0     TCGA-E3-A3E1     TCGA-E3-A3E3     TCGA-E3-A3E5 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-E8-A2EA     TCGA-EL-A3CL     TCGA-EL-A3CM     TCGA-EL-A3CN 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-EL-A3CO     TCGA-EL-A3CP     TCGA-EL-A3CR     TCGA-EL-A3CS 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-EL-A3CT     TCGA-EL-A3CU     TCGA-EL-A3CV     TCGA-EL-A3CW 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-EL-A3CX     TCGA-EL-A3CY     TCGA-EL-A3CZ     TCGA-EL-A3D0 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-EL-A3D1     TCGA-EL-A3D4     TCGA-EL-A3D5     TCGA-EL-A3D6 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-EL-A3GO     TCGA-EL-A3GP     TCGA-EL-A3GQ     TCGA-EL-A3GR 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-EL-A3GS     TCGA-EL-A3GU     TCGA-EL-A3GV     TCGA-EL-A3GW 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-EL-A3GX     TCGA-EL-A3GY     TCGA-EL-A3GZ     TCGA-EL-A3H1 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-EL-A3H2     TCGA-EL-A3H3     TCGA-EL-A3H4     TCGA-EL-A3H5 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-EL-A3H7     TCGA-EL-A3H8     TCGA-EL-A3MW     TCGA-EL-A3MX 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-EL-A3MY     TCGA-EL-A3MZ     TCGA-EL-A3N2     TCGA-EL-A3N3 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-EM-A1CT     TCGA-EM-A1CU     TCGA-EM-A1CV     TCGA-EM-A1CW 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-EM-A1YA     TCGA-EM-A1YB     TCGA-EM-A1YC     TCGA-EM-A1YD 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-EM-A1YE     TCGA-EM-A22I     TCGA-EM-A22J     TCGA-EM-A22L 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-EM-A22M     TCGA-EM-A22O     TCGA-EM-A22Q     TCGA-EM-A2CJ 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-EM-A2CK     TCGA-EM-A2CL     TCGA-EM-A2CN     TCGA-EM-A2CO 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-EM-A2CP     TCGA-EM-A2CR     TCGA-EM-A2CU     TCGA-EM-A2OV 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-EM-A2OY     TCGA-EM-A2P1     TCGA-EM-A3AI     TCGA-EM-A3AJ 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-EM-A3AL     TCGA-EM-A3AN     TCGA-EM-A3AO     TCGA-EM-A3AP 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-EM-A3FJ     TCGA-EM-A3FL     TCGA-EM-A3FN     TCGA-EM-A3FO 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-EM-A3FP     TCGA-ET-A25G     TCGA-ET-A25O     TCGA-ET-A2MY 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-ET-A2MZ     TCGA-ET-A2N0     TCGA-ET-A2N1     TCGA-ET-A2N4 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-ET-A2N5     TCGA-ET-A39I     TCGA-ET-A39J     TCGA-ET-A39L 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-ET-A39M     TCGA-ET-A39N     TCGA-ET-A39P     TCGA-ET-A39R 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-ET-A39T     TCGA-ET-A3BN     TCGA-ET-A3BP     TCGA-ET-A3BS 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-ET-A3BT     TCGA-ET-A3BU     TCGA-ET-A3BV     TCGA-ET-A3BW 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-ET-A3BX     TCGA-ET-A3DO     TCGA-ET-A3DP     TCGA-ET-A3DS 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-ET-A3DT     TCGA-ET-A3DV     TCGA-ET-A3DW     TCGA-FE-A22Z 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-FE-A230     TCGA-FE-A231     TCGA-FE-A232     TCGA-FE-A233 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-FE-A234     TCGA-FE-A235     TCGA-FE-A236     TCGA-FE-A237 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-FE-A23A     TCGA-FY-A2QD     TCGA-FY-A3BL     TCGA-FY-A3ON 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-GE-A2C6     TCGA-H2-A2K9     TCGA-IM-A3EB     TCGA-IM-A3ED 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
    TCGA-J8-A3NZ     TCGA-J8-A3O0     TCGA-J8-A3O1 
"KRAS WILD-TYPE" "KRAS WILD-TYPE" "KRAS WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KRAS MUTATED        0      3      0      1
  KRAS WILD-TYPE    130    125     48     92
D7V5, multiclass
        clus
vv       KRAS MUTATED KRAS WILD-TYPE
  CLUS_1            0            130
  CLUS_2            3            125
  CLUS_3            0             48
  CLUS_4            1             92
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KRAS MUTATED        0      3      1      0      0
  KRAS WILD-TYPE     81    109     65     78     62
D7V6, multiclass
        clus
vv       KRAS MUTATED KRAS WILD-TYPE
  CLUS_1            0             81
  CLUS_2            3            109
  CLUS_3            1             65
  CLUS_4            0             78
  CLUS_5            0             62
[1] 5 2
[1] TRUE
[1] "dimension of contingency table 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      3      1
  KRAS WILD-TYPE    137    126    133
D7V7, multiclass
        clus
vv       KRAS MUTATED KRAS WILD-TYPE
  CLUS_1            0            137
  CLUS_2            3            126
  CLUS_3            1            133
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  KRAS MUTATED        0      3      1
  KRAS WILD-TYPE    136    106    154
D7V8, multiclass
        clus
vv       KRAS MUTATED KRAS WILD-TYPE
  CLUS_1            0            136
  CLUS_2            3            106
  CLUS_3            1            154
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  KRAS MUTATED        0      2      2
  KRAS WILD-TYPE    125    148     99
D7V9, multiclass
        clus
vv       KRAS MUTATED KRAS WILD-TYPE
  CLUS_1            0            125
  CLUS_2            2            148
  CLUS_3            2             99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  KRAS MUTATED        0      3      1
  KRAS WILD-TYPE    124    103    145
D7V10, multiclass
        clus
vv       KRAS MUTATED KRAS WILD-TYPE
  CLUS_1            0            124
  CLUS_2            3            103
  CLUS_3            1            145
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(8) Variable = DLC1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  DLC1 MUTATED        0      4      0
  DLC1 WILD-TYPE     41    288     66
D8V1, multiclass
        clus
vv       DLC1 MUTATED DLC1 WILD-TYPE
  CLUS_1            0             41
  CLUS_2            4            288
  CLUS_3            0             66
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  DLC1 MUTATED        3      1      0
  DLC1 WILD-TYPE    210    126     61
D8V2, multiclass
        clus
vv       DLC1 MUTATED DLC1 WILD-TYPE
  CLUS_1            3            210
  CLUS_2            1            126
  CLUS_3            0             61
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DLC1 MUTATED        0      0      0      2
  DLC1 WILD-TYPE     63     61     40     47
D8V3, multiclass
[1] "Remove cluster labels:" "DLC1 MUTATED"          
clus
  DLC1 MUTATED DLC1 WILD-TYPE 
             2            211 
    TCGA-BJ-A0YZ     TCGA-BJ-A0Z0     TCGA-BJ-A0Z2     TCGA-BJ-A0Z3 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-BJ-A0Z9     TCGA-BJ-A0ZA     TCGA-BJ-A0ZB     TCGA-BJ-A0ZC 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-BJ-A0ZE     TCGA-BJ-A0ZG     TCGA-BJ-A0ZJ     TCGA-BJ-A18Y 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-BJ-A18Z     TCGA-BJ-A191     TCGA-BJ-A192     TCGA-BJ-A28R 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-BJ-A28S     TCGA-BJ-A28T     TCGA-BJ-A28V     TCGA-BJ-A28Z 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-BJ-A290     TCGA-BJ-A2N7     TCGA-BJ-A2N9     TCGA-BJ-A2NA 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-BJ-A2P4     TCGA-BJ-A3EZ     TCGA-BJ-A3F0     TCGA-CE-A13K 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-CE-A27D     TCGA-CE-A3MD     TCGA-CE-A3ME     TCGA-DE-A0Y2 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-DE-A2OL     TCGA-DE-A3KN     TCGA-DJ-A13M     TCGA-DJ-A13O 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-DJ-A13R     TCGA-DJ-A13S     TCGA-DJ-A13V     TCGA-DJ-A13W 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-DJ-A13X     TCGA-DJ-A1QD     TCGA-DJ-A1QE     TCGA-DJ-A1QF 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-DJ-A1QG     TCGA-DJ-A1QI     TCGA-DJ-A1QL     TCGA-DJ-A1QM 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-DJ-A1QN     TCGA-DJ-A1QO     TCGA-DJ-A2PN     TCGA-DJ-A2PO 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-DJ-A2PP     TCGA-DJ-A2PQ     TCGA-DJ-A2PR     TCGA-DJ-A2PS 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-DJ-A2PU     TCGA-DJ-A2PV     TCGA-DJ-A2PW     TCGA-DJ-A2PY 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-DJ-A2PZ     TCGA-DJ-A2Q0     TCGA-DJ-A2Q1     TCGA-DJ-A2Q2 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-DJ-A2Q4     TCGA-DJ-A2Q5     TCGA-DJ-A2Q6     TCGA-DJ-A2Q7 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-DJ-A2Q8     TCGA-DJ-A2Q9     TCGA-DJ-A2QA     TCGA-DJ-A2QB 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-DJ-A2QC     TCGA-DO-A1JZ     TCGA-DO-A1K0     TCGA-E3-A3DY 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-E3-A3DZ     TCGA-E3-A3E0     TCGA-E3-A3E1     TCGA-E3-A3E3 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-E3-A3E5     TCGA-E8-A2EA     TCGA-EL-A3CL     TCGA-EL-A3CM 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-EL-A3CN     TCGA-EL-A3CO     TCGA-EL-A3CP     TCGA-EL-A3CS 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-EL-A3CT     TCGA-EL-A3CU     TCGA-EL-A3CV     TCGA-EL-A3CW 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-EL-A3CX     TCGA-EL-A3CY     TCGA-EL-A3CZ     TCGA-EL-A3D0 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-EL-A3D1     TCGA-EL-A3D4     TCGA-EL-A3D5     TCGA-EL-A3D6 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-EL-A3GO     TCGA-EL-A3GP     TCGA-EL-A3GQ     TCGA-EL-A3GR 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-EL-A3GS     TCGA-EL-A3GU     TCGA-EL-A3GV     TCGA-EL-A3GW 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-EL-A3GX     TCGA-EL-A3GY     TCGA-EL-A3GZ     TCGA-EL-A3H1 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-EL-A3H2     TCGA-EL-A3H3     TCGA-EL-A3H4     TCGA-EL-A3H5 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-EL-A3H7     TCGA-EL-A3H8     TCGA-EL-A3MW     TCGA-EL-A3MX 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-EL-A3MY     TCGA-EL-A3MZ     TCGA-EL-A3N3     TCGA-EM-A1CT 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-EM-A1CU     TCGA-EM-A1CV     TCGA-EM-A1CW     TCGA-EM-A1YA 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-EM-A1YB     TCGA-EM-A1YC     TCGA-EM-A1YD     TCGA-EM-A1YE 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-EM-A22I     TCGA-EM-A22J     TCGA-EM-A22L     TCGA-EM-A22M 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-EM-A22O     TCGA-EM-A22Q     TCGA-EM-A2CJ     TCGA-EM-A2CK 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-EM-A2CL     TCGA-EM-A2CN     TCGA-EM-A2CO     TCGA-EM-A2CP 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-EM-A2CQ     TCGA-EM-A2CR     TCGA-EM-A2CU     TCGA-EM-A2OV 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-EM-A2OY     TCGA-EM-A2P1     TCGA-EM-A3AI     TCGA-EM-A3AJ 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-EM-A3AL     TCGA-EM-A3AN     TCGA-EM-A3AO     TCGA-EM-A3AP 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-EM-A3FJ     TCGA-EM-A3FL     TCGA-EM-A3FN     TCGA-EM-A3FO 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-EM-A3FP     TCGA-ET-A25G     TCGA-ET-A25O     TCGA-ET-A2MY 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-ET-A2MZ     TCGA-ET-A2N0     TCGA-ET-A2N1     TCGA-ET-A2N4 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-ET-A2N5     TCGA-ET-A39I     TCGA-ET-A39J     TCGA-ET-A39L 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-ET-A39M     TCGA-ET-A39N     TCGA-ET-A39P     TCGA-ET-A39R 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-ET-A39T     TCGA-ET-A3BN     TCGA-ET-A3BP     TCGA-ET-A3BS 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-ET-A3BT     TCGA-ET-A3BU     TCGA-ET-A3BV     TCGA-ET-A3BW 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-ET-A3BX     TCGA-ET-A3DO     TCGA-ET-A3DP     TCGA-ET-A3DS 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-ET-A3DT     TCGA-ET-A3DV     TCGA-ET-A3DW     TCGA-FE-A22Z 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-FE-A230     TCGA-FE-A231     TCGA-FE-A232     TCGA-FE-A233 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-FE-A234     TCGA-FE-A235     TCGA-FE-A236     TCGA-FE-A237 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-FE-A23A     TCGA-FY-A2QD     TCGA-FY-A3BL     TCGA-FY-A3ON 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-GE-A2C6     TCGA-H2-A2K9     TCGA-IM-A3EB     TCGA-IM-A3ED 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-J8-A3NZ     TCGA-J8-A3O0     TCGA-J8-A3O1 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  DLC1 MUTATED        0      0      1      1      0      0      0
  DLC1 WILD-TYPE     46     27     30     25     47     27      9
D8V4, multiclass
[1] "Remove cluster labels:" "DLC1 MUTATED"          
clus
  DLC1 MUTATED DLC1 WILD-TYPE 
             2            211 
    TCGA-BJ-A0YZ     TCGA-BJ-A0Z0     TCGA-BJ-A0Z2     TCGA-BJ-A0Z3 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-BJ-A0Z9     TCGA-BJ-A0ZA     TCGA-BJ-A0ZB     TCGA-BJ-A0ZC 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-BJ-A0ZE     TCGA-BJ-A0ZG     TCGA-BJ-A0ZJ     TCGA-BJ-A18Y 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-BJ-A18Z     TCGA-BJ-A191     TCGA-BJ-A192     TCGA-BJ-A28R 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-BJ-A28S     TCGA-BJ-A28T     TCGA-BJ-A28V     TCGA-BJ-A28Z 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-BJ-A290     TCGA-BJ-A2N7     TCGA-BJ-A2N9     TCGA-BJ-A2NA 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-BJ-A2P4     TCGA-BJ-A3EZ     TCGA-BJ-A3F0     TCGA-CE-A13K 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-CE-A27D     TCGA-CE-A3MD     TCGA-CE-A3ME     TCGA-DE-A0Y2 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-DE-A2OL     TCGA-DE-A3KN     TCGA-DJ-A13M     TCGA-DJ-A13O 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-DJ-A13R     TCGA-DJ-A13S     TCGA-DJ-A13V     TCGA-DJ-A13W 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-DJ-A13X     TCGA-DJ-A1QD     TCGA-DJ-A1QE     TCGA-DJ-A1QF 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-DJ-A1QG     TCGA-DJ-A1QI     TCGA-DJ-A1QL     TCGA-DJ-A1QM 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-DJ-A1QN     TCGA-DJ-A1QO     TCGA-DJ-A2PN     TCGA-DJ-A2PO 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-DJ-A2PP     TCGA-DJ-A2PQ     TCGA-DJ-A2PR     TCGA-DJ-A2PS 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-DJ-A2PU     TCGA-DJ-A2PV     TCGA-DJ-A2PW     TCGA-DJ-A2PY 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-DJ-A2PZ     TCGA-DJ-A2Q0     TCGA-DJ-A2Q1     TCGA-DJ-A2Q2 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-DJ-A2Q4     TCGA-DJ-A2Q5     TCGA-DJ-A2Q6     TCGA-DJ-A2Q7 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-DJ-A2Q8     TCGA-DJ-A2Q9     TCGA-DJ-A2QA     TCGA-DJ-A2QB 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-DJ-A2QC     TCGA-DO-A1JZ     TCGA-DO-A1K0     TCGA-E3-A3DY 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-E3-A3DZ     TCGA-E3-A3E0     TCGA-E3-A3E1     TCGA-E3-A3E3 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-E3-A3E5     TCGA-E8-A2EA     TCGA-EL-A3CL     TCGA-EL-A3CM 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-EL-A3CN     TCGA-EL-A3CO     TCGA-EL-A3CP     TCGA-EL-A3CS 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-EL-A3CT     TCGA-EL-A3CU     TCGA-EL-A3CV     TCGA-EL-A3CW 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-EL-A3CX     TCGA-EL-A3CY     TCGA-EL-A3CZ     TCGA-EL-A3D0 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-EL-A3D1     TCGA-EL-A3D4     TCGA-EL-A3D5     TCGA-EL-A3D6 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-EL-A3GO     TCGA-EL-A3GP     TCGA-EL-A3GQ     TCGA-EL-A3GR 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-EL-A3GS     TCGA-EL-A3GU     TCGA-EL-A3GV     TCGA-EL-A3GW 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-EL-A3GX     TCGA-EL-A3GY     TCGA-EL-A3GZ     TCGA-EL-A3H1 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-EL-A3H2     TCGA-EL-A3H3     TCGA-EL-A3H4     TCGA-EL-A3H5 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-EL-A3H7     TCGA-EL-A3H8     TCGA-EL-A3MW     TCGA-EL-A3MX 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-EL-A3MY     TCGA-EL-A3MZ     TCGA-EL-A3N3     TCGA-EM-A1CT 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-EM-A1CU     TCGA-EM-A1CV     TCGA-EM-A1CW     TCGA-EM-A1YA 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-EM-A1YB     TCGA-EM-A1YC     TCGA-EM-A1YD     TCGA-EM-A1YE 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-EM-A22I     TCGA-EM-A22J     TCGA-EM-A22L     TCGA-EM-A22M 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-EM-A22O     TCGA-EM-A22Q     TCGA-EM-A2CJ     TCGA-EM-A2CK 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-EM-A2CL     TCGA-EM-A2CN     TCGA-EM-A2CO     TCGA-EM-A2CP 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-EM-A2CQ     TCGA-EM-A2CR     TCGA-EM-A2CU     TCGA-EM-A2OV 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-EM-A2OY     TCGA-EM-A2P1     TCGA-EM-A3AI     TCGA-EM-A3AJ 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-EM-A3AL     TCGA-EM-A3AN     TCGA-EM-A3AO     TCGA-EM-A3AP 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-EM-A3FJ     TCGA-EM-A3FL     TCGA-EM-A3FN     TCGA-EM-A3FO 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-EM-A3FP     TCGA-ET-A25G     TCGA-ET-A25O     TCGA-ET-A2MY 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-ET-A2MZ     TCGA-ET-A2N0     TCGA-ET-A2N1     TCGA-ET-A2N4 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-ET-A2N5     TCGA-ET-A39I     TCGA-ET-A39J     TCGA-ET-A39L 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-ET-A39M     TCGA-ET-A39N     TCGA-ET-A39P     TCGA-ET-A39R 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-ET-A39T     TCGA-ET-A3BN     TCGA-ET-A3BP     TCGA-ET-A3BS 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-ET-A3BT     TCGA-ET-A3BU     TCGA-ET-A3BV     TCGA-ET-A3BW 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-ET-A3BX     TCGA-ET-A3DO     TCGA-ET-A3DP     TCGA-ET-A3DS 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-ET-A3DT     TCGA-ET-A3DV     TCGA-ET-A3DW     TCGA-FE-A22Z 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-FE-A230     TCGA-FE-A231     TCGA-FE-A232     TCGA-FE-A233 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-FE-A234     TCGA-FE-A235     TCGA-FE-A236     TCGA-FE-A237 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-FE-A23A     TCGA-FY-A2QD     TCGA-FY-A3BL     TCGA-FY-A3ON 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-GE-A2C6     TCGA-H2-A2K9     TCGA-IM-A3EB     TCGA-IM-A3ED 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
    TCGA-J8-A3NZ     TCGA-J8-A3O0     TCGA-J8-A3O1 
"DLC1 WILD-TYPE" "DLC1 WILD-TYPE" "DLC1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DLC1 MUTATED        3      1      0      0
  DLC1 WILD-TYPE    127    127     48     93
D8V5, multiclass
        clus
vv       DLC1 MUTATED DLC1 WILD-TYPE
  CLUS_1            3            127
  CLUS_2            1            127
  CLUS_3            0             48
  CLUS_4            0             93
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DLC1 MUTATED        2      1      0      0      1
  DLC1 WILD-TYPE     79    111     66     78     61
D8V6, multiclass
        clus
vv       DLC1 MUTATED DLC1 WILD-TYPE
  CLUS_1            2             79
  CLUS_2            1            111
  CLUS_3            0             66
  CLUS_4            0             78
  CLUS_5            1             61
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  DLC1 MUTATED        1      1      2
  DLC1 WILD-TYPE    136    128    132
D8V7, multiclass
        clus
vv       DLC1 MUTATED DLC1 WILD-TYPE
  CLUS_1            1            136
  CLUS_2            1            128
  CLUS_3            2            132
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  DLC1 MUTATED        1      1      2
  DLC1 WILD-TYPE    135    108    153
D8V8, multiclass
        clus
vv       DLC1 MUTATED DLC1 WILD-TYPE
  CLUS_1            1            135
  CLUS_2            1            108
  CLUS_3            2            153
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  DLC1 MUTATED        1      2      1
  DLC1 WILD-TYPE    124    148    100
D8V9, multiclass
        clus
vv       DLC1 MUTATED DLC1 WILD-TYPE
  CLUS_1            1            124
  CLUS_2            2            148
  CLUS_3            1            100
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  DLC1 MUTATED        1      1      2
  DLC1 WILD-TYPE    123    105    144
D8V10, multiclass
        clus
vv       DLC1 MUTATED DLC1 WILD-TYPE
  CLUS_1            1            123
  CLUS_2            1            105
  CLUS_3            2            144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(9) Variable = ITGAL MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ITGAL MUTATED        2      2      0
  ITGAL WILD-TYPE     39    290     66
D9V1, multiclass
        clus
vv       ITGAL MUTATED ITGAL WILD-TYPE
  CLUS_1             2              39
  CLUS_2             2             290
  CLUS_3             0              66
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ITGAL MUTATED        3      0      1
  ITGAL WILD-TYPE    210    127     60
D9V2, multiclass
        clus
vv       ITGAL MUTATED ITGAL WILD-TYPE
  CLUS_1             3             210
  CLUS_2             0             127
  CLUS_3             1              60
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ITGAL MUTATED        0      1      1      0
  ITGAL WILD-TYPE     63     60     39     49
D9V3, multiclass
[1] "Remove cluster labels:" "ITGAL MUTATED"         
clus
  ITGAL MUTATED ITGAL WILD-TYPE 
              2             211 
     TCGA-BJ-A0YZ      TCGA-BJ-A0Z0      TCGA-BJ-A0Z2      TCGA-BJ-A0Z3 
"ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" 
     TCGA-BJ-A0Z9      TCGA-BJ-A0ZA      TCGA-BJ-A0ZC      TCGA-BJ-A0ZE 
"ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" 
     TCGA-BJ-A0ZG      TCGA-BJ-A0ZJ      TCGA-BJ-A18Y      TCGA-BJ-A18Z 
"ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" 
     TCGA-BJ-A191      TCGA-BJ-A192      TCGA-BJ-A28R      TCGA-BJ-A28S 
"ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" 
     TCGA-BJ-A28T      TCGA-BJ-A28V      TCGA-BJ-A28Z      TCGA-BJ-A290 
"ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" 
     TCGA-BJ-A2N7      TCGA-BJ-A2N9      TCGA-BJ-A2NA      TCGA-BJ-A2P4 
"ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" 
     TCGA-BJ-A3EZ      TCGA-BJ-A3F0      TCGA-CE-A13K      TCGA-CE-A27D 
"ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" 
     TCGA-CE-A3MD      TCGA-CE-A3ME      TCGA-DE-A0Y2      TCGA-DE-A2OL 
"ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" 
     TCGA-DE-A3KN      TCGA-DJ-A13M      TCGA-DJ-A13O      TCGA-DJ-A13R 
"ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" 
     TCGA-DJ-A13S      TCGA-DJ-A13V      TCGA-DJ-A13W      TCGA-DJ-A13X 
"ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" 
     TCGA-DJ-A1QD      TCGA-DJ-A1QE      TCGA-DJ-A1QF      TCGA-DJ-A1QG 
"ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" 
     TCGA-DJ-A1QI      TCGA-DJ-A1QL      TCGA-DJ-A1QM      TCGA-DJ-A1QN 
"ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" 
     TCGA-DJ-A1QO      TCGA-DJ-A2PN      TCGA-DJ-A2PO      TCGA-DJ-A2PP 
"ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" 
     TCGA-DJ-A2PQ      TCGA-DJ-A2PR      TCGA-DJ-A2PS      TCGA-DJ-A2PU 
"ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" 
     TCGA-DJ-A2PV      TCGA-DJ-A2PW      TCGA-DJ-A2PY      TCGA-DJ-A2PZ 
"ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" 
     TCGA-DJ-A2Q0      TCGA-DJ-A2Q1      TCGA-DJ-A2Q2      TCGA-DJ-A2Q4 
"ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" 
     TCGA-DJ-A2Q5      TCGA-DJ-A2Q6      TCGA-DJ-A2Q7      TCGA-DJ-A2Q8 
"ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" 
     TCGA-DJ-A2Q9      TCGA-DJ-A2QA      TCGA-DJ-A2QB      TCGA-DJ-A2QC 
"ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" 
     TCGA-DO-A1JZ      TCGA-DO-A1K0      TCGA-E3-A3DY      TCGA-E3-A3DZ 
"ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" 
     TCGA-E3-A3E0      TCGA-E3-A3E1      TCGA-E3-A3E3      TCGA-E3-A3E5 
"ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" 
     TCGA-E8-A2EA      TCGA-EL-A3CL      TCGA-EL-A3CM      TCGA-EL-A3CN 
"ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" 
     TCGA-EL-A3CO      TCGA-EL-A3CP      TCGA-EL-A3CR      TCGA-EL-A3CS 
"ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" 
     TCGA-EL-A3CT      TCGA-EL-A3CU      TCGA-EL-A3CV      TCGA-EL-A3CW 
"ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" 
     TCGA-EL-A3CX      TCGA-EL-A3CY      TCGA-EL-A3CZ      TCGA-EL-A3D0 
"ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" 
     TCGA-EL-A3D1      TCGA-EL-A3D4      TCGA-EL-A3D5      TCGA-EL-A3D6 
"ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" 
     TCGA-EL-A3GO      TCGA-EL-A3GP      TCGA-EL-A3GQ      TCGA-EL-A3GR 
"ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" 
     TCGA-EL-A3GS      TCGA-EL-A3GU      TCGA-EL-A3GV      TCGA-EL-A3GW 
"ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" 
     TCGA-EL-A3GX      TCGA-EL-A3GY      TCGA-EL-A3GZ      TCGA-EL-A3H1 
"ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" 
     TCGA-EL-A3H2      TCGA-EL-A3H3      TCGA-EL-A3H4      TCGA-EL-A3H5 
"ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" 
     TCGA-EL-A3H7      TCGA-EL-A3H8      TCGA-EL-A3MW      TCGA-EL-A3MX 
"ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" 
     TCGA-EL-A3MY      TCGA-EL-A3MZ      TCGA-EL-A3N2      TCGA-EL-A3N3 
"ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" 
     TCGA-EM-A1CT      TCGA-EM-A1CU      TCGA-EM-A1CV      TCGA-EM-A1CW 
"ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" 
     TCGA-EM-A1YA      TCGA-EM-A1YB      TCGA-EM-A1YC      TCGA-EM-A1YD 
"ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" 
     TCGA-EM-A1YE      TCGA-EM-A22I      TCGA-EM-A22J      TCGA-EM-A22L 
"ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" 
     TCGA-EM-A22M      TCGA-EM-A22O      TCGA-EM-A22Q      TCGA-EM-A2CJ 
"ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" 
     TCGA-EM-A2CK      TCGA-EM-A2CL      TCGA-EM-A2CN      TCGA-EM-A2CO 
"ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" 
     TCGA-EM-A2CP      TCGA-EM-A2CQ      TCGA-EM-A2CR      TCGA-EM-A2CU 
"ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" 
     TCGA-EM-A2OV      TCGA-EM-A2OY      TCGA-EM-A2P1      TCGA-EM-A3AI 
"ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" 
     TCGA-EM-A3AJ      TCGA-EM-A3AL      TCGA-EM-A3AN      TCGA-EM-A3AP 
"ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" 
     TCGA-EM-A3FJ      TCGA-EM-A3FL      TCGA-EM-A3FN      TCGA-EM-A3FO 
"ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" 
     TCGA-EM-A3FP      TCGA-ET-A25G      TCGA-ET-A25O      TCGA-ET-A2MY 
"ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" 
     TCGA-ET-A2MZ      TCGA-ET-A2N0      TCGA-ET-A2N1      TCGA-ET-A2N4 
"ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" 
     TCGA-ET-A2N5      TCGA-ET-A39I      TCGA-ET-A39J      TCGA-ET-A39L 
"ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" 
     TCGA-ET-A39M      TCGA-ET-A39N      TCGA-ET-A39P      TCGA-ET-A39R 
"ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" 
     TCGA-ET-A39T      TCGA-ET-A3BN      TCGA-ET-A3BP      TCGA-ET-A3BS 
"ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" 
     TCGA-ET-A3BT      TCGA-ET-A3BU      TCGA-ET-A3BV      TCGA-ET-A3BW 
"ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" 
     TCGA-ET-A3BX      TCGA-ET-A3DO      TCGA-ET-A3DP      TCGA-ET-A3DS 
"ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" 
     TCGA-ET-A3DT      TCGA-ET-A3DV      TCGA-ET-A3DW      TCGA-FE-A22Z 
"ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" 
     TCGA-FE-A230      TCGA-FE-A231      TCGA-FE-A232      TCGA-FE-A233 
"ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" 
     TCGA-FE-A234      TCGA-FE-A235      TCGA-FE-A236      TCGA-FE-A237 
"ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" 
     TCGA-FE-A23A      TCGA-FY-A2QD      TCGA-FY-A3BL      TCGA-FY-A3ON 
"ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" 
     TCGA-GE-A2C6      TCGA-H2-A2K9      TCGA-IM-A3EB      TCGA-IM-A3ED 
"ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" 
     TCGA-J8-A3NZ      TCGA-J8-A3O0      TCGA-J8-A3O1 
"ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  ITGAL MUTATED        0      0      1      0      1      0      0
  ITGAL WILD-TYPE     46     27     30     26     46     27      9
D9V4, multiclass
[1] "Remove cluster labels:" "ITGAL MUTATED"         
clus
  ITGAL MUTATED ITGAL WILD-TYPE 
              2             211 
     TCGA-BJ-A0YZ      TCGA-BJ-A0Z0      TCGA-BJ-A0Z2      TCGA-BJ-A0Z3 
"ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" 
     TCGA-BJ-A0Z9      TCGA-BJ-A0ZA      TCGA-BJ-A0ZC      TCGA-BJ-A0ZE 
"ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" 
     TCGA-BJ-A0ZG      TCGA-BJ-A0ZJ      TCGA-BJ-A18Y      TCGA-BJ-A18Z 
"ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" 
     TCGA-BJ-A191      TCGA-BJ-A192      TCGA-BJ-A28R      TCGA-BJ-A28S 
"ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" 
     TCGA-BJ-A28T      TCGA-BJ-A28V      TCGA-BJ-A28Z      TCGA-BJ-A290 
"ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" 
     TCGA-BJ-A2N7      TCGA-BJ-A2N9      TCGA-BJ-A2NA      TCGA-BJ-A2P4 
"ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" 
     TCGA-BJ-A3EZ      TCGA-BJ-A3F0      TCGA-CE-A13K      TCGA-CE-A27D 
"ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" 
     TCGA-CE-A3MD      TCGA-CE-A3ME      TCGA-DE-A0Y2      TCGA-DE-A2OL 
"ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" 
     TCGA-DE-A3KN      TCGA-DJ-A13M      TCGA-DJ-A13O      TCGA-DJ-A13R 
"ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" 
     TCGA-DJ-A13S      TCGA-DJ-A13V      TCGA-DJ-A13W      TCGA-DJ-A13X 
"ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" 
     TCGA-DJ-A1QD      TCGA-DJ-A1QE      TCGA-DJ-A1QF      TCGA-DJ-A1QG 
"ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" 
     TCGA-DJ-A1QI      TCGA-DJ-A1QL      TCGA-DJ-A1QM      TCGA-DJ-A1QN 
"ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" 
     TCGA-DJ-A1QO      TCGA-DJ-A2PN      TCGA-DJ-A2PO      TCGA-DJ-A2PP 
"ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" 
     TCGA-DJ-A2PQ      TCGA-DJ-A2PR      TCGA-DJ-A2PS      TCGA-DJ-A2PU 
"ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" 
     TCGA-DJ-A2PV      TCGA-DJ-A2PW      TCGA-DJ-A2PY      TCGA-DJ-A2PZ 
"ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" 
     TCGA-DJ-A2Q0      TCGA-DJ-A2Q1      TCGA-DJ-A2Q2      TCGA-DJ-A2Q4 
"ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" 
     TCGA-DJ-A2Q5      TCGA-DJ-A2Q6      TCGA-DJ-A2Q7      TCGA-DJ-A2Q8 
"ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" 
     TCGA-DJ-A2Q9      TCGA-DJ-A2QA      TCGA-DJ-A2QB      TCGA-DJ-A2QC 
"ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" 
     TCGA-DO-A1JZ      TCGA-DO-A1K0      TCGA-E3-A3DY      TCGA-E3-A3DZ 
"ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" 
     TCGA-E3-A3E0      TCGA-E3-A3E1      TCGA-E3-A3E3      TCGA-E3-A3E5 
"ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" 
     TCGA-E8-A2EA      TCGA-EL-A3CL      TCGA-EL-A3CM      TCGA-EL-A3CN 
"ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" 
     TCGA-EL-A3CO      TCGA-EL-A3CP      TCGA-EL-A3CR      TCGA-EL-A3CS 
"ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" 
     TCGA-EL-A3CT      TCGA-EL-A3CU      TCGA-EL-A3CV      TCGA-EL-A3CW 
"ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" 
     TCGA-EL-A3CX      TCGA-EL-A3CY      TCGA-EL-A3CZ      TCGA-EL-A3D0 
"ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" 
     TCGA-EL-A3D1      TCGA-EL-A3D4      TCGA-EL-A3D5      TCGA-EL-A3D6 
"ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" 
     TCGA-EL-A3GO      TCGA-EL-A3GP      TCGA-EL-A3GQ      TCGA-EL-A3GR 
"ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" 
     TCGA-EL-A3GS      TCGA-EL-A3GU      TCGA-EL-A3GV      TCGA-EL-A3GW 
"ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" 
     TCGA-EL-A3GX      TCGA-EL-A3GY      TCGA-EL-A3GZ      TCGA-EL-A3H1 
"ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" 
     TCGA-EL-A3H2      TCGA-EL-A3H3      TCGA-EL-A3H4      TCGA-EL-A3H5 
"ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" 
     TCGA-EL-A3H7      TCGA-EL-A3H8      TCGA-EL-A3MW      TCGA-EL-A3MX 
"ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" 
     TCGA-EL-A3MY      TCGA-EL-A3MZ      TCGA-EL-A3N2      TCGA-EL-A3N3 
"ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" 
     TCGA-EM-A1CT      TCGA-EM-A1CU      TCGA-EM-A1CV      TCGA-EM-A1CW 
"ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" 
     TCGA-EM-A1YA      TCGA-EM-A1YB      TCGA-EM-A1YC      TCGA-EM-A1YD 
"ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" 
     TCGA-EM-A1YE      TCGA-EM-A22I      TCGA-EM-A22J      TCGA-EM-A22L 
"ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" 
     TCGA-EM-A22M      TCGA-EM-A22O      TCGA-EM-A22Q      TCGA-EM-A2CJ 
"ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" 
     TCGA-EM-A2CK      TCGA-EM-A2CL      TCGA-EM-A2CN      TCGA-EM-A2CO 
"ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" 
     TCGA-EM-A2CP      TCGA-EM-A2CQ      TCGA-EM-A2CR      TCGA-EM-A2CU 
"ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" 
     TCGA-EM-A2OV      TCGA-EM-A2OY      TCGA-EM-A2P1      TCGA-EM-A3AI 
"ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" 
     TCGA-EM-A3AJ      TCGA-EM-A3AL      TCGA-EM-A3AN      TCGA-EM-A3AP 
"ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" 
     TCGA-EM-A3FJ      TCGA-EM-A3FL      TCGA-EM-A3FN      TCGA-EM-A3FO 
"ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" 
     TCGA-EM-A3FP      TCGA-ET-A25G      TCGA-ET-A25O      TCGA-ET-A2MY 
"ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" 
     TCGA-ET-A2MZ      TCGA-ET-A2N0      TCGA-ET-A2N1      TCGA-ET-A2N4 
"ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" 
     TCGA-ET-A2N5      TCGA-ET-A39I      TCGA-ET-A39J      TCGA-ET-A39L 
"ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" 
     TCGA-ET-A39M      TCGA-ET-A39N      TCGA-ET-A39P      TCGA-ET-A39R 
"ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" 
     TCGA-ET-A39T      TCGA-ET-A3BN      TCGA-ET-A3BP      TCGA-ET-A3BS 
"ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" 
     TCGA-ET-A3BT      TCGA-ET-A3BU      TCGA-ET-A3BV      TCGA-ET-A3BW 
"ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" 
     TCGA-ET-A3BX      TCGA-ET-A3DO      TCGA-ET-A3DP      TCGA-ET-A3DS 
"ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" 
     TCGA-ET-A3DT      TCGA-ET-A3DV      TCGA-ET-A3DW      TCGA-FE-A22Z 
"ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" 
     TCGA-FE-A230      TCGA-FE-A231      TCGA-FE-A232      TCGA-FE-A233 
"ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" 
     TCGA-FE-A234      TCGA-FE-A235      TCGA-FE-A236      TCGA-FE-A237 
"ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" 
     TCGA-FE-A23A      TCGA-FY-A2QD      TCGA-FY-A3BL      TCGA-FY-A3ON 
"ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" 
     TCGA-GE-A2C6      TCGA-H2-A2K9      TCGA-IM-A3EB      TCGA-IM-A3ED 
"ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" 
     TCGA-J8-A3NZ      TCGA-J8-A3O0      TCGA-J8-A3O1 
"ITGAL WILD-TYPE" "ITGAL WILD-TYPE" "ITGAL WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ITGAL MUTATED        3      0      0      1
  ITGAL WILD-TYPE    127    128     48     92
D9V5, multiclass
        clus
vv       ITGAL MUTATED ITGAL WILD-TYPE
  CLUS_1             3             127
  CLUS_2             0             128
  CLUS_3             0              48
  CLUS_4             1              92
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ITGAL MUTATED        2      0      0      1      1
  ITGAL WILD-TYPE     79    112     66     77     61
D9V6, multiclass
        clus
vv       ITGAL MUTATED ITGAL WILD-TYPE
  CLUS_1             2              79
  CLUS_2             0             112
  CLUS_3             0              66
  CLUS_4             1              77
  CLUS_5             1              61
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ITGAL MUTATED        2      0      2
  ITGAL WILD-TYPE    135    129    132
D9V7, multiclass
        clus
vv       ITGAL MUTATED ITGAL WILD-TYPE
  CLUS_1             2             135
  CLUS_2             0             129
  CLUS_3             2             132
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ITGAL MUTATED        2      0      2
  ITGAL WILD-TYPE    134    109    153
D9V8, multiclass
        clus
vv       ITGAL MUTATED ITGAL WILD-TYPE
  CLUS_1             2             134
  CLUS_2             0             109
  CLUS_3             2             153
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ITGAL MUTATED        2      1      1
  ITGAL WILD-TYPE    123    149    100
D9V9, multiclass
        clus
vv       ITGAL MUTATED ITGAL WILD-TYPE
  CLUS_1             2             123
  CLUS_2             1             149
  CLUS_3             1             100
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ITGAL MUTATED        2      0      2
  ITGAL WILD-TYPE    122    106    144
D9V10, multiclass
        clus
vv       ITGAL MUTATED ITGAL WILD-TYPE
  CLUS_1             2             122
  CLUS_2             0             106
  CLUS_3             2             144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(10) Variable = TG MUTATION ANALYSIS
              vv
clus           CLUS_1 CLUS_2 CLUS_3
  TG MUTATED        1      9      1
  TG WILD-TYPE     40    283     65
D10V1, multiclass
        clus
vv       TG MUTATED TG WILD-TYPE
  CLUS_1          1           40
  CLUS_2          9          283
  CLUS_3          1           65
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
              vv
clus           CLUS_1 CLUS_2 CLUS_3
  TG MUTATED        4      7      0
  TG WILD-TYPE    209    120     61
D10V2, multiclass
        clus
vv       TG MUTATED TG WILD-TYPE
  CLUS_1          4          209
  CLUS_2          7          120
  CLUS_3          0           61
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
              vv
clus           CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TG MUTATED        1      1      4      0
  TG WILD-TYPE     62     60     36     49
D10V3, multiclass
        clus
vv       TG MUTATED TG WILD-TYPE
  CLUS_1          1           62
  CLUS_2          1           60
  CLUS_3          4           36
  CLUS_4          0           49
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
              vv
clus           CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  TG MUTATED        2      0      0      1      2      1      0
  TG WILD-TYPE     44     27     31     25     45     26      9
D10V4, multiclass
        clus
vv       TG MUTATED TG WILD-TYPE
  CLUS_1          2           44
  CLUS_2          0           27
  CLUS_3          0           31
  CLUS_4          1           25
  CLUS_5          2           45
  CLUS_6          1           26
  CLUS_7          0            9
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
              vv
clus           CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TG MUTATED        0      7      1      3
  TG WILD-TYPE    130    121     47     90
D10V5, multiclass
        clus
vv       TG MUTATED TG WILD-TYPE
  CLUS_1          0          130
  CLUS_2          7          121
  CLUS_3          1           47
  CLUS_4          3           90
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
              vv
clus           CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TG MUTATED        1      7      1      2      0
  TG WILD-TYPE     80    105     65     76     62
D10V6, multiclass
        clus
vv       TG MUTATED TG WILD-TYPE
  CLUS_1          1           80
  CLUS_2          7          105
  CLUS_3          1           65
  CLUS_4          2           76
  CLUS_5          0           62
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
              vv
clus           CLUS_1 CLUS_2 CLUS_3
  TG MUTATED        1      7      3
  TG WILD-TYPE    136    122    131
D10V7, multiclass
        clus
vv       TG MUTATED TG WILD-TYPE
  CLUS_1          1          136
  CLUS_2          7          122
  CLUS_3          3          131
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
              vv
clus           CLUS_1 CLUS_2 CLUS_3
  TG MUTATED        0      7      4
  TG WILD-TYPE    136    102    151
D10V8, multiclass
        clus
vv       TG MUTATED TG WILD-TYPE
  CLUS_1          0          136
  CLUS_2          7          102
  CLUS_3          4          151
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
              vv
clus           CLUS_1 CLUS_2 CLUS_3
  TG MUTATED        0      6      4
  TG WILD-TYPE    125    144     97
D10V9, multiclass
        clus
vv       TG MUTATED TG WILD-TYPE
  CLUS_1          0          125
  CLUS_2          6          144
  CLUS_3          4           97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
              vv
clus           CLUS_1 CLUS_2 CLUS_3
  TG MUTATED        0      6      4
  TG WILD-TYPE    124    100    142
D10V10, multiclass
        clus
vv       TG MUTATED TG WILD-TYPE
  CLUS_1          0          124
  CLUS_2          6          100
  CLUS_3          4          142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(11) Variable = NLRP6 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NLRP6 MUTATED        0      2      1
  NLRP6 WILD-TYPE     41    290     65
D11V1, multiclass
        clus
vv       NLRP6 MUTATED NLRP6 WILD-TYPE
  CLUS_1             0              41
  CLUS_2             2             290
  CLUS_3             1              65
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NLRP6 MUTATED        3      0      0
  NLRP6 WILD-TYPE    210    127     61
D11V2, multiclass
        clus
vv       NLRP6 MUTATED NLRP6 WILD-TYPE
  CLUS_1             3             210
  CLUS_2             0             127
  CLUS_3             0              61
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NLRP6 MUTATED        0      0      0      1
  NLRP6 WILD-TYPE     63     61     40     48
D11V3, multiclass
[1] "Remove cluster labels:" "NLRP6 MUTATED"         
clus
  NLRP6 MUTATED NLRP6 WILD-TYPE 
              1             212 
     TCGA-BJ-A0YZ      TCGA-BJ-A0Z0      TCGA-BJ-A0Z2      TCGA-BJ-A0Z3 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-BJ-A0Z9      TCGA-BJ-A0ZA      TCGA-BJ-A0ZB      TCGA-BJ-A0ZC 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-BJ-A0ZE      TCGA-BJ-A0ZG      TCGA-BJ-A0ZJ      TCGA-BJ-A18Y 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-BJ-A18Z      TCGA-BJ-A191      TCGA-BJ-A192      TCGA-BJ-A28R 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-BJ-A28S      TCGA-BJ-A28T      TCGA-BJ-A28V      TCGA-BJ-A28Z 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-BJ-A290      TCGA-BJ-A2N7      TCGA-BJ-A2N9      TCGA-BJ-A2NA 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-BJ-A2P4      TCGA-BJ-A3EZ      TCGA-BJ-A3F0      TCGA-CE-A13K 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-CE-A27D      TCGA-CE-A3MD      TCGA-CE-A3ME      TCGA-DE-A0Y2 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-DE-A2OL      TCGA-DE-A3KN      TCGA-DJ-A13M      TCGA-DJ-A13O 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-DJ-A13R      TCGA-DJ-A13S      TCGA-DJ-A13V      TCGA-DJ-A13W 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-DJ-A13X      TCGA-DJ-A1QD      TCGA-DJ-A1QE      TCGA-DJ-A1QF 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-DJ-A1QG      TCGA-DJ-A1QI      TCGA-DJ-A1QL      TCGA-DJ-A1QM 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-DJ-A1QN      TCGA-DJ-A1QO      TCGA-DJ-A2PN      TCGA-DJ-A2PO 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-DJ-A2PP      TCGA-DJ-A2PQ      TCGA-DJ-A2PR      TCGA-DJ-A2PS 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-DJ-A2PU      TCGA-DJ-A2PV      TCGA-DJ-A2PW      TCGA-DJ-A2PY 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-DJ-A2PZ      TCGA-DJ-A2Q0      TCGA-DJ-A2Q1      TCGA-DJ-A2Q2 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-DJ-A2Q4      TCGA-DJ-A2Q5      TCGA-DJ-A2Q6      TCGA-DJ-A2Q7 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-DJ-A2Q8      TCGA-DJ-A2Q9      TCGA-DJ-A2QA      TCGA-DJ-A2QB 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-DJ-A2QC      TCGA-DO-A1JZ      TCGA-DO-A1K0      TCGA-E3-A3DY 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-E3-A3DZ      TCGA-E3-A3E0      TCGA-E3-A3E1      TCGA-E3-A3E3 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-E3-A3E5      TCGA-E8-A2EA      TCGA-EL-A3CL      TCGA-EL-A3CM 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-EL-A3CN      TCGA-EL-A3CO      TCGA-EL-A3CP      TCGA-EL-A3CR 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-EL-A3CS      TCGA-EL-A3CT      TCGA-EL-A3CU      TCGA-EL-A3CV 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-EL-A3CW      TCGA-EL-A3CX      TCGA-EL-A3CY      TCGA-EL-A3CZ 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-EL-A3D0      TCGA-EL-A3D1      TCGA-EL-A3D4      TCGA-EL-A3D5 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-EL-A3D6      TCGA-EL-A3GO      TCGA-EL-A3GP      TCGA-EL-A3GQ 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-EL-A3GR      TCGA-EL-A3GS      TCGA-EL-A3GU      TCGA-EL-A3GV 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-EL-A3GW      TCGA-EL-A3GX      TCGA-EL-A3GY      TCGA-EL-A3GZ 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-EL-A3H1      TCGA-EL-A3H2      TCGA-EL-A3H3      TCGA-EL-A3H4 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-EL-A3H5      TCGA-EL-A3H7      TCGA-EL-A3H8      TCGA-EL-A3MW 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-EL-A3MX      TCGA-EL-A3MY      TCGA-EL-A3MZ      TCGA-EL-A3N2 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-EL-A3N3      TCGA-EM-A1CT      TCGA-EM-A1CU      TCGA-EM-A1CV 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-EM-A1CW      TCGA-EM-A1YA      TCGA-EM-A1YB      TCGA-EM-A1YC 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-EM-A1YD      TCGA-EM-A1YE      TCGA-EM-A22I      TCGA-EM-A22J 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-EM-A22L      TCGA-EM-A22M      TCGA-EM-A22O      TCGA-EM-A22Q 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-EM-A2CJ      TCGA-EM-A2CK      TCGA-EM-A2CL      TCGA-EM-A2CN 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-EM-A2CO      TCGA-EM-A2CP      TCGA-EM-A2CQ      TCGA-EM-A2CR 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-EM-A2CU      TCGA-EM-A2OV      TCGA-EM-A2OY      TCGA-EM-A2P1 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-EM-A3AI      TCGA-EM-A3AJ      TCGA-EM-A3AL      TCGA-EM-A3AN 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-EM-A3AO      TCGA-EM-A3AP      TCGA-EM-A3FJ      TCGA-EM-A3FL 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-EM-A3FN      TCGA-EM-A3FP      TCGA-ET-A25G      TCGA-ET-A25O 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-ET-A2MY      TCGA-ET-A2MZ      TCGA-ET-A2N0      TCGA-ET-A2N1 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-ET-A2N4      TCGA-ET-A2N5      TCGA-ET-A39I      TCGA-ET-A39J 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-ET-A39L      TCGA-ET-A39M      TCGA-ET-A39N      TCGA-ET-A39P 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-ET-A39R      TCGA-ET-A39T      TCGA-ET-A3BN      TCGA-ET-A3BP 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-ET-A3BS      TCGA-ET-A3BT      TCGA-ET-A3BU      TCGA-ET-A3BV 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-ET-A3BW      TCGA-ET-A3BX      TCGA-ET-A3DO      TCGA-ET-A3DP 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-ET-A3DS      TCGA-ET-A3DT      TCGA-ET-A3DV      TCGA-ET-A3DW 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-FE-A22Z      TCGA-FE-A230      TCGA-FE-A231      TCGA-FE-A232 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-FE-A233      TCGA-FE-A234      TCGA-FE-A235      TCGA-FE-A236 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-FE-A237      TCGA-FE-A23A      TCGA-FY-A2QD      TCGA-FY-A3BL 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-FY-A3ON      TCGA-GE-A2C6      TCGA-H2-A2K9      TCGA-IM-A3EB 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-IM-A3ED      TCGA-J8-A3NZ      TCGA-J8-A3O0      TCGA-J8-A3O1 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  NLRP6 MUTATED        0      0      0      0      1      0      0
  NLRP6 WILD-TYPE     46     27     31     26     46     27      9
D11V4, multiclass
[1] "Remove cluster labels:" "NLRP6 MUTATED"         
clus
  NLRP6 MUTATED NLRP6 WILD-TYPE 
              1             212 
     TCGA-BJ-A0YZ      TCGA-BJ-A0Z0      TCGA-BJ-A0Z2      TCGA-BJ-A0Z3 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-BJ-A0Z9      TCGA-BJ-A0ZA      TCGA-BJ-A0ZB      TCGA-BJ-A0ZC 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-BJ-A0ZE      TCGA-BJ-A0ZG      TCGA-BJ-A0ZJ      TCGA-BJ-A18Y 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-BJ-A18Z      TCGA-BJ-A191      TCGA-BJ-A192      TCGA-BJ-A28R 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-BJ-A28S      TCGA-BJ-A28T      TCGA-BJ-A28V      TCGA-BJ-A28Z 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-BJ-A290      TCGA-BJ-A2N7      TCGA-BJ-A2N9      TCGA-BJ-A2NA 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-BJ-A2P4      TCGA-BJ-A3EZ      TCGA-BJ-A3F0      TCGA-CE-A13K 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-CE-A27D      TCGA-CE-A3MD      TCGA-CE-A3ME      TCGA-DE-A0Y2 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-DE-A2OL      TCGA-DE-A3KN      TCGA-DJ-A13M      TCGA-DJ-A13O 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-DJ-A13R      TCGA-DJ-A13S      TCGA-DJ-A13V      TCGA-DJ-A13W 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-DJ-A13X      TCGA-DJ-A1QD      TCGA-DJ-A1QE      TCGA-DJ-A1QF 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-DJ-A1QG      TCGA-DJ-A1QI      TCGA-DJ-A1QL      TCGA-DJ-A1QM 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-DJ-A1QN      TCGA-DJ-A1QO      TCGA-DJ-A2PN      TCGA-DJ-A2PO 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-DJ-A2PP      TCGA-DJ-A2PQ      TCGA-DJ-A2PR      TCGA-DJ-A2PS 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-DJ-A2PU      TCGA-DJ-A2PV      TCGA-DJ-A2PW      TCGA-DJ-A2PY 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-DJ-A2PZ      TCGA-DJ-A2Q0      TCGA-DJ-A2Q1      TCGA-DJ-A2Q2 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-DJ-A2Q4      TCGA-DJ-A2Q5      TCGA-DJ-A2Q6      TCGA-DJ-A2Q7 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-DJ-A2Q8      TCGA-DJ-A2Q9      TCGA-DJ-A2QA      TCGA-DJ-A2QB 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-DJ-A2QC      TCGA-DO-A1JZ      TCGA-DO-A1K0      TCGA-E3-A3DY 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-E3-A3DZ      TCGA-E3-A3E0      TCGA-E3-A3E1      TCGA-E3-A3E3 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-E3-A3E5      TCGA-E8-A2EA      TCGA-EL-A3CL      TCGA-EL-A3CM 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-EL-A3CN      TCGA-EL-A3CO      TCGA-EL-A3CP      TCGA-EL-A3CR 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-EL-A3CS      TCGA-EL-A3CT      TCGA-EL-A3CU      TCGA-EL-A3CV 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-EL-A3CW      TCGA-EL-A3CX      TCGA-EL-A3CY      TCGA-EL-A3CZ 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-EL-A3D0      TCGA-EL-A3D1      TCGA-EL-A3D4      TCGA-EL-A3D5 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-EL-A3D6      TCGA-EL-A3GO      TCGA-EL-A3GP      TCGA-EL-A3GQ 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-EL-A3GR      TCGA-EL-A3GS      TCGA-EL-A3GU      TCGA-EL-A3GV 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-EL-A3GW      TCGA-EL-A3GX      TCGA-EL-A3GY      TCGA-EL-A3GZ 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-EL-A3H1      TCGA-EL-A3H2      TCGA-EL-A3H3      TCGA-EL-A3H4 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-EL-A3H5      TCGA-EL-A3H7      TCGA-EL-A3H8      TCGA-EL-A3MW 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-EL-A3MX      TCGA-EL-A3MY      TCGA-EL-A3MZ      TCGA-EL-A3N2 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-EL-A3N3      TCGA-EM-A1CT      TCGA-EM-A1CU      TCGA-EM-A1CV 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-EM-A1CW      TCGA-EM-A1YA      TCGA-EM-A1YB      TCGA-EM-A1YC 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-EM-A1YD      TCGA-EM-A1YE      TCGA-EM-A22I      TCGA-EM-A22J 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-EM-A22L      TCGA-EM-A22M      TCGA-EM-A22O      TCGA-EM-A22Q 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-EM-A2CJ      TCGA-EM-A2CK      TCGA-EM-A2CL      TCGA-EM-A2CN 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-EM-A2CO      TCGA-EM-A2CP      TCGA-EM-A2CQ      TCGA-EM-A2CR 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-EM-A2CU      TCGA-EM-A2OV      TCGA-EM-A2OY      TCGA-EM-A2P1 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-EM-A3AI      TCGA-EM-A3AJ      TCGA-EM-A3AL      TCGA-EM-A3AN 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-EM-A3AO      TCGA-EM-A3AP      TCGA-EM-A3FJ      TCGA-EM-A3FL 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-EM-A3FN      TCGA-EM-A3FP      TCGA-ET-A25G      TCGA-ET-A25O 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-ET-A2MY      TCGA-ET-A2MZ      TCGA-ET-A2N0      TCGA-ET-A2N1 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-ET-A2N4      TCGA-ET-A2N5      TCGA-ET-A39I      TCGA-ET-A39J 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-ET-A39L      TCGA-ET-A39M      TCGA-ET-A39N      TCGA-ET-A39P 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-ET-A39R      TCGA-ET-A39T      TCGA-ET-A3BN      TCGA-ET-A3BP 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-ET-A3BS      TCGA-ET-A3BT      TCGA-ET-A3BU      TCGA-ET-A3BV 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-ET-A3BW      TCGA-ET-A3BX      TCGA-ET-A3DO      TCGA-ET-A3DP 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-ET-A3DS      TCGA-ET-A3DT      TCGA-ET-A3DV      TCGA-ET-A3DW 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-FE-A22Z      TCGA-FE-A230      TCGA-FE-A231      TCGA-FE-A232 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-FE-A233      TCGA-FE-A234      TCGA-FE-A235      TCGA-FE-A236 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-FE-A237      TCGA-FE-A23A      TCGA-FY-A2QD      TCGA-FY-A3BL 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-FY-A3ON      TCGA-GE-A2C6      TCGA-H2-A2K9      TCGA-IM-A3EB 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
     TCGA-IM-A3ED      TCGA-J8-A3NZ      TCGA-J8-A3O0      TCGA-J8-A3O1 
"NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" "NLRP6 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NLRP6 MUTATED        1      0      0      2
  NLRP6 WILD-TYPE    129    128     48     91
D11V5, multiclass
        clus
vv       NLRP6 MUTATED NLRP6 WILD-TYPE
  CLUS_1             1             129
  CLUS_2             0             128
  CLUS_3             0              48
  CLUS_4             2              91
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NLRP6 MUTATED        0      0      0      2      1
  NLRP6 WILD-TYPE     81    112     66     76     61
D11V6, multiclass
        clus
vv       NLRP6 MUTATED NLRP6 WILD-TYPE
  CLUS_1             0              81
  CLUS_2             0             112
  CLUS_3             0              66
  CLUS_4             2              76
  CLUS_5             1              61
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NLRP6 MUTATED        0      1      2
  NLRP6 WILD-TYPE    137    128    132
D11V7, multiclass
        clus
vv       NLRP6 MUTATED NLRP6 WILD-TYPE
  CLUS_1             0             137
  CLUS_2             1             128
  CLUS_3             2             132
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NLRP6 MUTATED        0      0      3
  NLRP6 WILD-TYPE    136    109    152
D11V8, multiclass
        clus
vv       NLRP6 MUTATED NLRP6 WILD-TYPE
  CLUS_1             0             136
  CLUS_2             0             109
  CLUS_3             3             152
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NLRP6 MUTATED        0      2      1
  NLRP6 WILD-TYPE    125    148    100
D11V9, multiclass
        clus
vv       NLRP6 MUTATED NLRP6 WILD-TYPE
  CLUS_1             0             125
  CLUS_2             2             148
  CLUS_3             1             100
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NLRP6 MUTATED        0      0      3
  NLRP6 WILD-TYPE    124    106    143
D11V10, multiclass
        clus
vv       NLRP6 MUTATED NLRP6 WILD-TYPE
  CLUS_1             0             124
  CLUS_2             0             106
  CLUS_3             3             143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
