[1] "ofn"        "-oTKIRC-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/KIRC-TP/15107132/KIRC-TP.transferedmergedcluster.txt"
[1] "dfn:"
[1] "/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_Correlate_Genomic_Events_Preprocess/KIRC-TP/15182431/transformed.cor.cli.txt"

nPatients in clinical file=537, in cluster file=515, common to both=441
[1]  30 441
[1] "SETD2 MUTATION ANALYSIS"
[1] 3
  SETD2 MUTATED SETD2 WILD-TYPE 
             46             395 
  SETD2 MUTATED SETD2 WILD-TYPE 
             46             395 
[1] "BAP1 MUTATION ANALYSIS"
[1] 3
  BAP1 MUTATED BAP1 WILD-TYPE 
            44            397 
  BAP1 MUTATED BAP1 WILD-TYPE 
            44            397 
[1] "PBRM1 MUTATION ANALYSIS"
[1] 3
  PBRM1 MUTATED PBRM1 WILD-TYPE 
            139             302 
  PBRM1 MUTATED PBRM1 WILD-TYPE 
            139             302 
[1] "KDM5C MUTATION ANALYSIS"
[1] 3
  KDM5C MUTATED KDM5C WILD-TYPE 
             27             414 
  KDM5C MUTATED KDM5C WILD-TYPE 
             27             414 
[1] "VHL MUTATION ANALYSIS"
[1] 3
  VHL MUTATED VHL WILD-TYPE 
          171           270 
  VHL MUTATED VHL WILD-TYPE 
          171           270 
[1] "PTEN MUTATION ANALYSIS"
[1] 3
  PTEN MUTATED PTEN WILD-TYPE 
            17            424 
  PTEN MUTATED PTEN WILD-TYPE 
            17            424 
[1] "MTOR MUTATION ANALYSIS"
[1] 3
  MTOR MUTATED MTOR WILD-TYPE 
            28            413 
  MTOR MUTATED MTOR WILD-TYPE 
            28            413 
[1] "TP53 MUTATION ANALYSIS"
[1] 3
  TP53 MUTATED TP53 WILD-TYPE 
            12            429 
  TP53 MUTATED TP53 WILD-TYPE 
            12            429 
[1] "FAM200A MUTATION ANALYSIS"
[1] 3
  FAM200A MUTATED FAM200A WILD-TYPE 
                5               436 
  FAM200A MUTATED FAM200A WILD-TYPE 
                5               436 
[1] "NEFH MUTATION ANALYSIS"
[1] 3
  NEFH MUTATED NEFH WILD-TYPE 
             5            436 
  NEFH MUTATED NEFH WILD-TYPE 
             5            436 
[1] "PTCH1 MUTATION ANALYSIS"
[1] 3
  PTCH1 MUTATED PTCH1 WILD-TYPE 
              7             434 
  PTCH1 MUTATED PTCH1 WILD-TYPE 
              7             434 
[1] "NF2 MUTATION ANALYSIS"
[1] 3
  NF2 MUTATED NF2 WILD-TYPE 
            6           435 
  NF2 MUTATED NF2 WILD-TYPE 
            6           435 
[1] "CCDC120 MUTATION ANALYSIS"
[1] 3
  CCDC120 MUTATED CCDC120 WILD-TYPE 
                4               437 
  CCDC120 MUTATED CCDC120 WILD-TYPE 
                4               437 
[1] "PIK3CA MUTATION ANALYSIS"
[1] 3
  PIK3CA MUTATED PIK3CA WILD-TYPE 
              12              429 
  PIK3CA MUTATED PIK3CA WILD-TYPE 
              12              429 
[1] "ATM MUTATION ANALYSIS"
[1] 3
  ATM MUTATED ATM WILD-TYPE 
           12           429 
  ATM MUTATED ATM WILD-TYPE 
           12           429 
[1] "KIAA1751 MUTATION ANALYSIS"
[1] 3
  KIAA1751 MUTATED KIAA1751 WILD-TYPE 
                 6                435 
  KIAA1751 MUTATED KIAA1751 WILD-TYPE 
                 6                435 
[1] "GUSB MUTATION ANALYSIS"
[1] 3
  GUSB MUTATED GUSB WILD-TYPE 
             4            437 
  GUSB MUTATED GUSB WILD-TYPE 
             4            437 
[1] "ARID1A MUTATION ANALYSIS"
[1] 3
  ARID1A MUTATED ARID1A WILD-TYPE 
              11              430 
  ARID1A MUTATED ARID1A WILD-TYPE 
              11              430 
[1] "GPR50 MUTATION ANALYSIS"
[1] 3
  GPR50 MUTATED GPR50 WILD-TYPE 
              3             438 
  GPR50 MUTATED GPR50 WILD-TYPE 
              3             438 
[1] "PCK1 MUTATION ANALYSIS"
[1] 3
  PCK1 MUTATED PCK1 WILD-TYPE 
             5            436 
  PCK1 MUTATED PCK1 WILD-TYPE 
             5            436 
[1] "DPCR1 MUTATION ANALYSIS"
[1] 3
  DPCR1 MUTATED DPCR1 WILD-TYPE 
              6             435 
  DPCR1 MUTATED DPCR1 WILD-TYPE 
              6             435 
[1] "NFAT5 MUTATION ANALYSIS"
[1] 3
  NFAT5 MUTATED NFAT5 WILD-TYPE 
              6             435 
  NFAT5 MUTATED NFAT5 WILD-TYPE 
              6             435 
[1] "EGFR MUTATION ANALYSIS"
[1] 3
  EGFR MUTATED EGFR WILD-TYPE 
             7            434 
  EGFR MUTATED EGFR WILD-TYPE 
             7            434 
[1] "TRIM6 MUTATION ANALYSIS"
[1] 3
  TRIM6 MUTATED TRIM6 WILD-TYPE 
              5             436 
  TRIM6 MUTATED TRIM6 WILD-TYPE 
              5             436 
[1] "RBMX MUTATION ANALYSIS"
[1] 3
  RBMX MUTATED RBMX WILD-TYPE 
             4            437 
  RBMX MUTATED RBMX WILD-TYPE 
             4            437 
[1] "GPR172B MUTATION ANALYSIS"
[1] 3
  GPR172B MUTATED GPR172B WILD-TYPE 
                4               437 
  GPR172B MUTATED GPR172B WILD-TYPE 
                4               437 
[1] "FGFR3 MUTATION ANALYSIS"
[1] 3
  FGFR3 MUTATED FGFR3 WILD-TYPE 
              4             437 
  FGFR3 MUTATED FGFR3 WILD-TYPE 
              4             437 
[1] "ARAP3 MUTATION ANALYSIS"
[1] 3
  ARAP3 MUTATED ARAP3 WILD-TYPE 
              3             438 
  ARAP3 MUTATED ARAP3 WILD-TYPE 
              3             438 
[1] "OPTC MUTATION ANALYSIS"
[1] 3
  OPTC MUTATED OPTC WILD-TYPE 
             4            437 
  OPTC MUTATED OPTC WILD-TYPE 
             4            437 
[1] "GOLGA5 MUTATION ANALYSIS"
[1] 3
  GOLGA5 MUTATED GOLGA5 WILD-TYPE 
               5              436 
  GOLGA5 MUTATED GOLGA5 WILD-TYPE 
               5              436 
[1] "data2feature, selection=ALL"
 [1] "MRNA_CNMF"                   "MRNA_CHIERARCHICAL"         
 [3] "CN_CNMF"                     "METHLYATION_CNMF"           
 [5] "RPPA_CNMF"                   "RPPA_CHIERARCHICAL"         
 [7] "MRNASEQ_CNMF"                "MRNASEQ_CHIERARCHICAL"      
 [9] "MIRSEQ_CNMF"                 "MIRSEQ_CHIERARCHICAL"       
[11] "MIRSEQ_MATURE_CNMF"          "MIRSEQ_MATURE_CHIERARCHICAL"

Input Data has 12 rows and 441 columns.

Variable 1:'MRNA_CNMF':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 2:'MRNA_CHIERARCHICAL':	nDistinctValues=7,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 3:'CN_CNMF':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 4:'METHLYATION_CNMF':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 5:'RPPA_CNMF':	nDistinctValues=6,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 6:'RPPA_CHIERARCHICAL':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 7:'MRNASEQ_CNMF':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 8:'MRNASEQ_CHIERARCHICAL':	nDistinctValues=6,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 9:'MIRSEQ_CNMF':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 10:'MIRSEQ_CHIERARCHICAL':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 11:'MIRSEQ_MATURE_CNMF':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 12:'MIRSEQ_MATURE_CHIERARCHICAL':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
[1] "## **** detect survival parameters (defined in index such as ind_OS, ind_MFS, ind_RFS, ind_RFS, ind_BCR and ind_d2ssd) *** ##"
[1] "detected survival parameters using [ind_OS, overall_survival]"
[1] "survival parameters accumulated so far"
NULL
[1] "detected survival parameters using [ind_OS, curated_overall_survival]"
[1] "survival parameters accumulated so far"
NULL
[1] "detected survival parameters using [ind_TCGAOS]"
[1] "survival parameters accumulated so far"
NULL
[1] "detected survivial parameters using [ind_MFS]"
[1] "survival parameters accumulated so far"
NULL
[1] "detected survival parameters using [ind_RFS]"
[1] "survival parameters accumulated so far"
NULL
[1] "detected survival parameters using [ind_BCR]"
[1] "survival parameters accumulated so far"
NULL
[1] "detected survival parameters using [ind_Progression]"
[1] "survival parameters accumulated so far"
NULL
[1] "detected survival parameters using [index_additional_survival_time]"
[1] "survival parameters accumulated so far"
NULL
[1] "detected survival parameters using condition: [is.null(surv.mat)&&(selection=='SURV')]"
[1] "survival parameters accumulated so far"
NULL
[1] "************ conversion from categorical data to rank data ********** "
[1] "****** SUMMARY ***** "
Output Data has 441 columns, 0 survival variables, and 12 non-survival variables.
[1] "* survival variables: "
NULL
[1] "* non-survival variables: "
 [1] "MRNA_CNMF"                   "MRNA_CHIERARCHICAL"         
 [3] "CN_CNMF"                     "METHLYATION_CNMF"           
 [5] "RPPA_CNMF"                   "RPPA_CHIERARCHICAL"         
 [7] "MRNASEQ_CNMF"                "MRNASEQ_CHIERARCHICAL"      
 [9] "MIRSEQ_CNMF"                 "MIRSEQ_CHIERARCHICAL"       
[11] "MIRSEQ_MATURE_CNMF"          "MIRSEQ_MATURE_CHIERARCHICAL"
MRNA_CNMF, nv=3, binary=FALSE, numeric=FALSE
MRNA_CHIERARCHICAL, nv=7, binary=FALSE, numeric=FALSE
CN_CNMF, nv=3, binary=FALSE, numeric=FALSE
METHLYATION_CNMF, nv=3, binary=FALSE, numeric=FALSE
RPPA_CNMF, nv=6, binary=FALSE, numeric=FALSE
RPPA_CHIERARCHICAL, nv=3, binary=FALSE, numeric=FALSE
MRNASEQ_CNMF, nv=3, binary=FALSE, numeric=FALSE
MRNASEQ_CHIERARCHICAL, nv=6, binary=FALSE, numeric=FALSE
MIRSEQ_CNMF, nv=3, binary=FALSE, numeric=FALSE
MIRSEQ_CHIERARCHICAL, nv=4, binary=FALSE, numeric=FALSE
MIRSEQ_MATURE_CNMF, nv=4, binary=FALSE, numeric=FALSE
MIRSEQ_MATURE_CHIERARCHICAL, nv=3, binary=FALSE, numeric=FALSE

Clustering(1) Variable = SETD2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SETD2 MUTATED        2      2      0
  SETD2 WILD-TYPE     19     15     10
D1V1, multiclass
        clus
vv       SETD2 MUTATED SETD2 WILD-TYPE
  CLUS_1             2              19
  CLUS_2             2              15
  CLUS_3             0              10
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  SETD2 MUTATED        1      2      0      0      1      0      0
  SETD2 WILD-TYPE      3      4      3     10      9      7      8
D1V2, multiclass
        clus
vv       SETD2 MUTATED SETD2 WILD-TYPE
  CLUS_1             1               3
  CLUS_2             2               4
  CLUS_3             0               3
  CLUS_4             0              10
  CLUS_5             1               9
  CLUS_6             0               7
  CLUS_7             0               8
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SETD2 MUTATED       17     13     16
  SETD2 WILD-TYPE    177     99    116
D1V3, multiclass
        clus
vv       SETD2 MUTATED SETD2 WILD-TYPE
  CLUS_1            17             177
  CLUS_2            13              99
  CLUS_3            16             116
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SETD2 MUTATED        6      2     22
  SETD2 WILD-TYPE     98     60     75
D1V4, multiclass
        clus
vv       SETD2 MUTATED SETD2 WILD-TYPE
  CLUS_1             6              98
  CLUS_2             2              60
  CLUS_3            22              75
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SETD2 MUTATED       14      6      8      6      7      2
  SETD2 WILD-TYPE     83     51     59     61     65     39
D1V5, multiclass
        clus
vv       SETD2 MUTATED SETD2 WILD-TYPE
  CLUS_1            14              83
  CLUS_2             6              51
  CLUS_3             8              59
  CLUS_4             6              61
  CLUS_5             7              65
  CLUS_6             2              39
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SETD2 MUTATED       15     14     14
  SETD2 WILD-TYPE     92    164    102
D1V6, multiclass
        clus
vv       SETD2 MUTATED SETD2 WILD-TYPE
  CLUS_1            15              92
  CLUS_2            14             164
  CLUS_3            14             102
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SETD2 MUTATED        9     15     22
  SETD2 WILD-TYPE     78    166    149
D1V7, multiclass
        clus
vv       SETD2 MUTATED SETD2 WILD-TYPE
  CLUS_1             9              78
  CLUS_2            15             166
  CLUS_3            22             149
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SETD2 MUTATED       17      3     11     15      0      0
  SETD2 WILD-TYPE     85     22    140    101     30     15
D1V8, multiclass
        clus
vv       SETD2 MUTATED SETD2 WILD-TYPE
  CLUS_1            17              85
  CLUS_2             3              22
  CLUS_3            11             140
  CLUS_4            15             101
  CLUS_5             0              30
  CLUS_6             0              15
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SETD2 MUTATED        7     17     20
  SETD2 WILD-TYPE     94    158    135
D1V9, multiclass
        clus
vv       SETD2 MUTATED SETD2 WILD-TYPE
  CLUS_1             7              94
  CLUS_2            17             158
  CLUS_3            20             135
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SETD2 MUTATED        8     12     18      6
  SETD2 WILD-TYPE    110    103    145     29
D1V10, multiclass
        clus
vv       SETD2 MUTATED SETD2 WILD-TYPE
  CLUS_1             8             110
  CLUS_2            12             103
  CLUS_3            18             145
  CLUS_4             6              29
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SETD2 MUTATED        0      3      7      3
  SETD2 WILD-TYPE     16     17     36     25
D1V11, multiclass
        clus
vv       SETD2 MUTATED SETD2 WILD-TYPE
  CLUS_1             0              16
  CLUS_2             3              17
  CLUS_3             7              36
  CLUS_4             3              25
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SETD2 MUTATED        0      7      6
  SETD2 WILD-TYPE     18     38     38
D1V12, multiclass
        clus
vv       SETD2 MUTATED SETD2 WILD-TYPE
  CLUS_1             0              18
  CLUS_2             7              38
  CLUS_3             6              38
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(2) Variable = BAP1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  BAP1 MUTATED        1      7      0
  BAP1 WILD-TYPE     20     10     10
D2V1, multiclass
        clus
vv       BAP1 MUTATED BAP1 WILD-TYPE
  CLUS_1            1             20
  CLUS_2            7             10
  CLUS_3            0             10
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  BAP1 MUTATED        0      0      0      7      1      0      0
  BAP1 WILD-TYPE      4      6      3      3      9      7      8
D2V2, multiclass
        clus
vv       BAP1 MUTATED BAP1 WILD-TYPE
  CLUS_1            0              4
  CLUS_2            0              6
  CLUS_3            0              3
  CLUS_4            7              3
  CLUS_5            1              9
  CLUS_6            0              7
  CLUS_7            0              8
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  BAP1 MUTATED       12     12     20
  BAP1 WILD-TYPE    182    100    112
D2V3, multiclass
        clus
vv       BAP1 MUTATED BAP1 WILD-TYPE
  CLUS_1           12            182
  CLUS_2           12            100
  CLUS_3           20            112
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  BAP1 MUTATED        1      8     17
  BAP1 WILD-TYPE    103     54     80
D2V4, multiclass
        clus
vv       BAP1 MUTATED BAP1 WILD-TYPE
  CLUS_1            1            103
  CLUS_2            8             54
  CLUS_3           17             80
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  BAP1 MUTATED        4     12      8      2     10      2
  BAP1 WILD-TYPE     93     45     59     65     62     39
D2V5, multiclass
        clus
vv       BAP1 MUTATED BAP1 WILD-TYPE
  CLUS_1            4             93
  CLUS_2           12             45
  CLUS_3            8             59
  CLUS_4            2             65
  CLUS_5           10             62
  CLUS_6            2             39
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  BAP1 MUTATED       11     10     17
  BAP1 WILD-TYPE     96    168     99
D2V6, multiclass
        clus
vv       BAP1 MUTATED BAP1 WILD-TYPE
  CLUS_1           11             96
  CLUS_2           10            168
  CLUS_3           17             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
  BAP1 MUTATED        9      5     30
  BAP1 WILD-TYPE     78    176    141
D2V7, multiclass
        clus
vv       BAP1 MUTATED BAP1 WILD-TYPE
  CLUS_1            9             78
  CLUS_2            5            176
  CLUS_3           30            141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  BAP1 MUTATED        4      0      4     17     19      0
  BAP1 WILD-TYPE     98     25    147     99     11     15
D2V8, multiclass
        clus
vv       BAP1 MUTATED BAP1 WILD-TYPE
  CLUS_1            4             98
  CLUS_2            0             25
  CLUS_3            4            147
  CLUS_4           17             99
  CLUS_5           19             11
  CLUS_6            0             15
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  BAP1 MUTATED       10      5     29
  BAP1 WILD-TYPE     91    170    126
D2V9, multiclass
        clus
vv       BAP1 MUTATED BAP1 WILD-TYPE
  CLUS_1           10             91
  CLUS_2            5            170
  CLUS_3           29            126
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  BAP1 MUTATED       12     22      4      6
  BAP1 WILD-TYPE    106     93    159     29
D2V10, multiclass
        clus
vv       BAP1 MUTATED BAP1 WILD-TYPE
  CLUS_1           12            106
  CLUS_2           22             93
  CLUS_3            4            159
  CLUS_4            6             29
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  BAP1 MUTATED        2      1      1      4
  BAP1 WILD-TYPE     14     19     42     24
D2V11, multiclass
        clus
vv       BAP1 MUTATED BAP1 WILD-TYPE
  CLUS_1            2             14
  CLUS_2            1             19
  CLUS_3            1             42
  CLUS_4            4             24
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  BAP1 MUTATED        2      4      2
  BAP1 WILD-TYPE     16     41     42
D2V12, multiclass
        clus
vv       BAP1 MUTATED BAP1 WILD-TYPE
  CLUS_1            2             16
  CLUS_2            4             41
  CLUS_3            2             42
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(3) Variable = PBRM1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PBRM1 MUTATED        9      3      1
  PBRM1 WILD-TYPE     12     14      9
D3V1, multiclass
        clus
vv       PBRM1 MUTATED PBRM1 WILD-TYPE
  CLUS_1             9              12
  CLUS_2             3              14
  CLUS_3             1               9
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  PBRM1 MUTATED        2      3      0      0      4      3      1
  PBRM1 WILD-TYPE      2      3      3     10      6      4      7
D3V2, multiclass
        clus
vv       PBRM1 MUTATED PBRM1 WILD-TYPE
  CLUS_1             2               2
  CLUS_2             3               3
  CLUS_3             0               3
  CLUS_4             0              10
  CLUS_5             4               6
  CLUS_6             3               4
  CLUS_7             1               7
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PBRM1 MUTATED       75     23     41
  PBRM1 WILD-TYPE    119     89     91
D3V3, multiclass
        clus
vv       PBRM1 MUTATED PBRM1 WILD-TYPE
  CLUS_1            75             119
  CLUS_2            23              89
  CLUS_3            41              91
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PBRM1 MUTATED       45      6     44
  PBRM1 WILD-TYPE     59     56     53
D3V4, multiclass
        clus
vv       PBRM1 MUTATED PBRM1 WILD-TYPE
  CLUS_1            45              59
  CLUS_2             6              56
  CLUS_3            44              53
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PBRM1 MUTATED       50     16     21     18     13     11
  PBRM1 WILD-TYPE     47     41     46     49     59     30
D3V5, multiclass
        clus
vv       PBRM1 MUTATED PBRM1 WILD-TYPE
  CLUS_1            50              47
  CLUS_2            16              41
  CLUS_3            21              46
  CLUS_4            18              49
  CLUS_5            13              59
  CLUS_6            11              30
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PBRM1 MUTATED       34     58     37
  PBRM1 WILD-TYPE     73    120     79
D3V6, multiclass
        clus
vv       PBRM1 MUTATED PBRM1 WILD-TYPE
  CLUS_1            34              73
  CLUS_2            58             120
  CLUS_3            37              79
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PBRM1 MUTATED       15     74     49
  PBRM1 WILD-TYPE     72    107    122
D3V7, multiclass
        clus
vv       PBRM1 MUTATED PBRM1 WILD-TYPE
  CLUS_1            15              72
  CLUS_2            74             107
  CLUS_3            49             122
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PBRM1 MUTATED       40      5     59     30      3      1
  PBRM1 WILD-TYPE     62     20     92     86     27     14
D3V8, multiclass
        clus
vv       PBRM1 MUTATED PBRM1 WILD-TYPE
  CLUS_1            40              62
  CLUS_2             5              20
  CLUS_3            59              92
  CLUS_4            30              86
  CLUS_5             3              27
  CLUS_6             1              14
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PBRM1 MUTATED       23     73     39
  PBRM1 WILD-TYPE     78    102    116
D3V9, multiclass
        clus
vv       PBRM1 MUTATED PBRM1 WILD-TYPE
  CLUS_1            23              78
  CLUS_2            73             102
  CLUS_3            39             116
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PBRM1 MUTATED       27     32     67      9
  PBRM1 WILD-TYPE     91     83     96     26
D3V10, multiclass
        clus
vv       PBRM1 MUTATED PBRM1 WILD-TYPE
  CLUS_1            27              91
  CLUS_2            32              83
  CLUS_3            67              96
  CLUS_4             9              26
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PBRM1 MUTATED        4      1     23      4
  PBRM1 WILD-TYPE     12     19     20     24
D3V11, multiclass
        clus
vv       PBRM1 MUTATED PBRM1 WILD-TYPE
  CLUS_1             4              12
  CLUS_2             1              19
  CLUS_3            23              20
  CLUS_4             4              24
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PBRM1 MUTATED        4      9     19
  PBRM1 WILD-TYPE     14     36     25
D3V12, multiclass
        clus
vv       PBRM1 MUTATED PBRM1 WILD-TYPE
  CLUS_1             4              14
  CLUS_2             9              36
  CLUS_3            19              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"

Clustering(4) Variable = KDM5C MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KDM5C MUTATED        1      0      0
  KDM5C WILD-TYPE     20     17     10
D4V1, multiclass
[1] "Remove cluster labels:" "KDM5C MUTATED"         
clus
  KDM5C MUTATED KDM5C WILD-TYPE 
              1              47 
     TCGA-A3-3311      TCGA-A3-3316      TCGA-A3-3317      TCGA-A3-3322 
"KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" 
     TCGA-A3-3323      TCGA-A3-3326      TCGA-A3-3347      TCGA-A3-3349 
"KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" 
     TCGA-A3-3362      TCGA-A3-3363      TCGA-A3-3365      TCGA-A3-3374 
"KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" 
     TCGA-A3-3380      TCGA-A3-3383      TCGA-AK-3427      TCGA-AK-3440 
"KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" 
     TCGA-AK-3443      TCGA-AK-3453      TCGA-AK-3455      TCGA-AK-3456 
"KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" 
     TCGA-AK-3465      TCGA-AS-3777      TCGA-AS-3778      TCGA-B2-3923 
"KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" 
     TCGA-B2-3924      TCGA-B2-4098      TCGA-B2-4099      TCGA-B8-4143 
"KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" 
     TCGA-B8-4148      TCGA-B8-4151      TCGA-B8-4154      TCGA-B8-4619 
"KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" 
     TCGA-B8-4620      TCGA-BP-4161      TCGA-BP-4162      TCGA-BP-4163 
"KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" 
     TCGA-BP-4164      TCGA-BP-4167      TCGA-CJ-4634      TCGA-CJ-4636 
"KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" 
     TCGA-CJ-4637      TCGA-CJ-4638      TCGA-CJ-4639      TCGA-CJ-4640 
"KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" 
     TCGA-CJ-4641      TCGA-CJ-4643      TCGA-CJ-4644 
"KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  KDM5C MUTATED        0      0      0      0      1      0      0
  KDM5C WILD-TYPE      4      6      3     10      9      7      8
D4V2, multiclass
[1] "Remove cluster labels:" "KDM5C MUTATED"         
clus
  KDM5C MUTATED KDM5C WILD-TYPE 
              1              47 
     TCGA-A3-3311      TCGA-A3-3316      TCGA-A3-3317      TCGA-A3-3322 
"KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" 
     TCGA-A3-3323      TCGA-A3-3326      TCGA-A3-3347      TCGA-A3-3349 
"KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" 
     TCGA-A3-3362      TCGA-A3-3363      TCGA-A3-3365      TCGA-A3-3374 
"KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" 
     TCGA-A3-3380      TCGA-A3-3383      TCGA-AK-3427      TCGA-AK-3440 
"KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" 
     TCGA-AK-3443      TCGA-AK-3453      TCGA-AK-3455      TCGA-AK-3456 
"KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" 
     TCGA-AK-3465      TCGA-AS-3777      TCGA-AS-3778      TCGA-B2-3923 
"KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" 
     TCGA-B2-3924      TCGA-B2-4098      TCGA-B2-4099      TCGA-B8-4143 
"KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" 
     TCGA-B8-4148      TCGA-B8-4151      TCGA-B8-4154      TCGA-B8-4619 
"KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" 
     TCGA-B8-4620      TCGA-BP-4161      TCGA-BP-4162      TCGA-BP-4163 
"KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" 
     TCGA-BP-4164      TCGA-BP-4167      TCGA-CJ-4634      TCGA-CJ-4636 
"KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" 
     TCGA-CJ-4637      TCGA-CJ-4638      TCGA-CJ-4639      TCGA-CJ-4640 
"KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" 
     TCGA-CJ-4641      TCGA-CJ-4643      TCGA-CJ-4644 
"KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KDM5C MUTATED       13      3     11
  KDM5C WILD-TYPE    181    109    121
D4V3, multiclass
        clus
vv       KDM5C MUTATED KDM5C WILD-TYPE
  CLUS_1            13             181
  CLUS_2             3             109
  CLUS_3            11             121
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KDM5C MUTATED        4      2     11
  KDM5C WILD-TYPE    100     60     86
D4V4, multiclass
        clus
vv       KDM5C MUTATED KDM5C WILD-TYPE
  CLUS_1             4             100
  CLUS_2             2              60
  CLUS_3            11              86
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  KDM5C MUTATED        5      7      5      2      3      2
  KDM5C WILD-TYPE     92     50     62     65     69     39
D4V5, multiclass
        clus
vv       KDM5C MUTATED KDM5C WILD-TYPE
  CLUS_1             5              92
  CLUS_2             7              50
  CLUS_3             5              62
  CLUS_4             2              65
  CLUS_5             3              69
  CLUS_6             2              39
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KDM5C MUTATED       10      7      7
  KDM5C WILD-TYPE     97    171    109
D4V6, multiclass
        clus
vv       KDM5C MUTATED KDM5C WILD-TYPE
  CLUS_1            10              97
  CLUS_2             7             171
  CLUS_3             7             109
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KDM5C MUTATED        2      8     16
  KDM5C WILD-TYPE     85    173    155
D4V7, multiclass
        clus
vv       KDM5C MUTATED KDM5C WILD-TYPE
  CLUS_1             2              85
  CLUS_2             8             173
  CLUS_3            16             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 CLUS_4 CLUS_5 CLUS_6
  KDM5C MUTATED       14      1      2      9      0      0
  KDM5C WILD-TYPE     88     24    149    107     30     15
D4V8, multiclass
        clus
vv       KDM5C MUTATED KDM5C WILD-TYPE
  CLUS_1            14              88
  CLUS_2             1              24
  CLUS_3             2             149
  CLUS_4             9             107
  CLUS_5             0              30
  CLUS_6             0              15
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KDM5C MUTATED        2      9     16
  KDM5C WILD-TYPE     99    166    139
D4V9, multiclass
        clus
vv       KDM5C MUTATED KDM5C WILD-TYPE
  CLUS_1             2              99
  CLUS_2             9             166
  CLUS_3            16             139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KDM5C MUTATED        4     11      7      5
  KDM5C WILD-TYPE    114    104    156     30
D4V10, multiclass
        clus
vv       KDM5C MUTATED KDM5C WILD-TYPE
  CLUS_1             4             114
  CLUS_2            11             104
  CLUS_3             7             156
  CLUS_4             5              30
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KDM5C MUTATED        0      0      2      1
  KDM5C WILD-TYPE     16     20     41     27
D4V11, multiclass
        clus
vv       KDM5C MUTATED KDM5C WILD-TYPE
  CLUS_1             0              16
  CLUS_2             0              20
  CLUS_3             2              41
  CLUS_4             1              27
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KDM5C MUTATED        0      2      1
  KDM5C WILD-TYPE     18     43     43
D4V12, multiclass
        clus
vv       KDM5C MUTATED KDM5C WILD-TYPE
  CLUS_1             0              18
  CLUS_2             2              43
  CLUS_3             1              43
[1] 3 2
[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 = VHL MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  VHL MUTATED       13      4      1
  VHL WILD-TYPE      8     13      9
D5V1, multiclass
        clus
vv       VHL MUTATED VHL WILD-TYPE
  CLUS_1          13             8
  CLUS_2           4            13
  CLUS_3           1             9
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  VHL MUTATED        2      0      0      4      6      5      1
  VHL WILD-TYPE      2      6      3      6      4      2      7
D5V2, multiclass
        clus
vv       VHL MUTATED VHL WILD-TYPE
  CLUS_1           2             2
  CLUS_2           0             6
  CLUS_3           0             3
  CLUS_4           4             6
  CLUS_5           6             4
  CLUS_6           5             2
  CLUS_7           1             7
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  VHL MUTATED       83     40     48
  VHL WILD-TYPE    111     72     84
D5V3, multiclass
        clus
vv       VHL MUTATED VHL WILD-TYPE
  CLUS_1          83           111
  CLUS_2          40            72
  CLUS_3          48            84
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  VHL MUTATED       49     24     41
  VHL WILD-TYPE     55     38     56
D5V4, multiclass
        clus
vv       VHL MUTATED VHL WILD-TYPE
  CLUS_1          49            55
  CLUS_2          24            38
  CLUS_3          41            56
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  VHL MUTATED       50     20     22     20     28     20
  VHL WILD-TYPE     47     37     45     47     44     21
D5V5, multiclass
        clus
vv       VHL MUTATED VHL WILD-TYPE
  CLUS_1          50            47
  CLUS_2          20            37
  CLUS_3          22            45
  CLUS_4          20            47
  CLUS_5          28            44
  CLUS_6          20            21
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  VHL MUTATED       41     78     41
  VHL WILD-TYPE     66    100     75
D5V6, multiclass
        clus
vv       VHL MUTATED VHL WILD-TYPE
  CLUS_1          41            66
  CLUS_2          78           100
  CLUS_3          41            75
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  VHL MUTATED       22     89     60
  VHL WILD-TYPE     65     92    111
D5V7, multiclass
        clus
vv       VHL MUTATED VHL WILD-TYPE
  CLUS_1          22            65
  CLUS_2          89            92
  CLUS_3          60           111
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  VHL MUTATED       43      6     70     41     10      1
  VHL WILD-TYPE     59     19     81     75     20     14
D5V8, multiclass
        clus
vv       VHL MUTATED VHL WILD-TYPE
  CLUS_1          43            59
  CLUS_2           6            19
  CLUS_3          70            81
  CLUS_4          41            75
  CLUS_5          10            20
  CLUS_6           1            14
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  VHL MUTATED       41     78     48
  VHL WILD-TYPE     60     97    107
D5V9, multiclass
        clus
vv       VHL MUTATED VHL WILD-TYPE
  CLUS_1          41            60
  CLUS_2          78            97
  CLUS_3          48           107
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  VHL MUTATED       45     36     75     11
  VHL WILD-TYPE     73     79     88     24
D5V10, multiclass
        clus
vv       VHL MUTATED VHL WILD-TYPE
  CLUS_1          45            73
  CLUS_2          36            79
  CLUS_3          75            88
  CLUS_4          11            24
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  VHL MUTATED        6      6     18     15
  VHL WILD-TYPE     10     14     25     13
D5V11, multiclass
        clus
vv       VHL MUTATED VHL WILD-TYPE
  CLUS_1           6            10
  CLUS_2           6            14
  CLUS_3          18            25
  CLUS_4          15            13
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  VHL MUTATED        6     21     18
  VHL WILD-TYPE     12     24     26
D5V12, multiclass
        clus
vv       VHL MUTATED VHL WILD-TYPE
  CLUS_1           6            12
  CLUS_2          21            24
  CLUS_3          18            26
[1] 3 2
[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 = PTEN MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PTEN MUTATED        0      2      1
  PTEN WILD-TYPE     21     15      9
D6V1, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1            0             21
  CLUS_2            2             15
  CLUS_3            1              9
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  PTEN MUTATED        0      2      0      0      0      0      1
  PTEN WILD-TYPE      4      4      3     10     10      7      7
D6V2, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1            0              4
  CLUS_2            2              4
  CLUS_3            0              3
  CLUS_4            0             10
  CLUS_5            0             10
  CLUS_6            0              7
  CLUS_7            1              7
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PTEN MUTATED        4      4      8
  PTEN WILD-TYPE    190    108    124
D6V3, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1            4            190
  CLUS_2            4            108
  CLUS_3            8            124
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PTEN MUTATED        1      3      5
  PTEN WILD-TYPE    103     59     92
D6V4, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1            1            103
  CLUS_2            3             59
  CLUS_3            5             92
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PTEN MUTATED        2      6      2      2      4      1
  PTEN WILD-TYPE     95     51     65     65     68     40
D6V5, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1            2             95
  CLUS_2            6             51
  CLUS_3            2             65
  CLUS_4            2             65
  CLUS_5            4             68
  CLUS_6            1             40
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PTEN MUTATED        3      6      8
  PTEN WILD-TYPE    104    172    108
D6V6, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1            3            104
  CLUS_2            6            172
  CLUS_3            8            108
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PTEN MUTATED        3      0     14
  PTEN WILD-TYPE     84    181    157
D6V7, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1            3             84
  CLUS_2            0            181
  CLUS_3           14            157
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PTEN MUTATED        5      1      0     10      0      1
  PTEN WILD-TYPE     97     24    151    106     30     14
D6V8, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1            5             97
  CLUS_2            1             24
  CLUS_3            0            151
  CLUS_4           10            106
  CLUS_5            0             30
  CLUS_6            1             14
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PTEN MUTATED        6      1     10
  PTEN WILD-TYPE     95    174    145
D6V9, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1            6             95
  CLUS_2            1            174
  CLUS_3           10            145
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PTEN MUTATED        6      5      3      3
  PTEN WILD-TYPE    112    110    160     32
D6V10, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1            6            112
  CLUS_2            5            110
  CLUS_3            3            160
  CLUS_4            3             32
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PTEN MUTATED        0      0      0      3
  PTEN WILD-TYPE     16     20     43     25
D6V11, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1            0             16
  CLUS_2            0             20
  CLUS_3            0             43
  CLUS_4            3             25
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PTEN MUTATED        0      2      1
  PTEN WILD-TYPE     18     43     43
D6V12, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1            0             18
  CLUS_2            2             43
  CLUS_3            1             43
[1] 3 2
[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 = MTOR MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MTOR MUTATED        1      1      0
  MTOR WILD-TYPE     20     16     10
D7V1, multiclass
[1] "Remove cluster labels:" "MTOR MUTATED"          
clus
  MTOR MUTATED MTOR WILD-TYPE 
             2             46 
    TCGA-A3-3311     TCGA-A3-3316     TCGA-A3-3317     TCGA-A3-3322 
"MTOR WILD-TYPE" "MTOR WILD-TYPE" "MTOR WILD-TYPE" "MTOR WILD-TYPE" 
    TCGA-A3-3323     TCGA-A3-3326     TCGA-A3-3331     TCGA-A3-3349 
"MTOR WILD-TYPE" "MTOR WILD-TYPE" "MTOR WILD-TYPE" "MTOR WILD-TYPE" 
    TCGA-A3-3362     TCGA-A3-3363     TCGA-A3-3365     TCGA-A3-3374 
"MTOR WILD-TYPE" "MTOR WILD-TYPE" "MTOR WILD-TYPE" "MTOR WILD-TYPE" 
    TCGA-A3-3380     TCGA-A3-3383     TCGA-AK-3427     TCGA-AK-3440 
"MTOR WILD-TYPE" "MTOR WILD-TYPE" "MTOR WILD-TYPE" "MTOR WILD-TYPE" 
    TCGA-AK-3443     TCGA-AK-3453     TCGA-AK-3455     TCGA-AK-3456 
"MTOR WILD-TYPE" "MTOR WILD-TYPE" "MTOR WILD-TYPE" "MTOR WILD-TYPE" 
    TCGA-AK-3465     TCGA-AS-3777     TCGA-AS-3778     TCGA-B2-3923 
"MTOR WILD-TYPE" "MTOR WILD-TYPE" "MTOR WILD-TYPE" "MTOR WILD-TYPE" 
    TCGA-B2-3924     TCGA-B2-4098     TCGA-B2-4099     TCGA-B8-4143 
"MTOR WILD-TYPE" "MTOR WILD-TYPE" "MTOR WILD-TYPE" "MTOR WILD-TYPE" 
    TCGA-B8-4148     TCGA-B8-4151     TCGA-B8-4154     TCGA-B8-4619 
"MTOR WILD-TYPE" "MTOR WILD-TYPE" "MTOR WILD-TYPE" "MTOR WILD-TYPE" 
    TCGA-B8-4620     TCGA-BP-4161     TCGA-BP-4162     TCGA-BP-4163 
"MTOR WILD-TYPE" "MTOR WILD-TYPE" "MTOR WILD-TYPE" "MTOR WILD-TYPE" 
    TCGA-BP-4164     TCGA-BP-4167     TCGA-CJ-4634     TCGA-CJ-4636 
"MTOR WILD-TYPE" "MTOR WILD-TYPE" "MTOR WILD-TYPE" "MTOR WILD-TYPE" 
    TCGA-CJ-4637     TCGA-CJ-4638     TCGA-CJ-4639     TCGA-CJ-4640 
"MTOR WILD-TYPE" "MTOR WILD-TYPE" "MTOR WILD-TYPE" "MTOR WILD-TYPE" 
    TCGA-CJ-4641     TCGA-CJ-4643 
"MTOR WILD-TYPE" "MTOR WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  MTOR MUTATED        0      0      0      1      1      0      0
  MTOR WILD-TYPE      4      6      3      9      9      7      8
D7V2, multiclass
[1] "Remove cluster labels:" "MTOR MUTATED"          
clus
  MTOR MUTATED MTOR WILD-TYPE 
             2             46 
    TCGA-A3-3311     TCGA-A3-3316     TCGA-A3-3317     TCGA-A3-3322 
"MTOR WILD-TYPE" "MTOR WILD-TYPE" "MTOR WILD-TYPE" "MTOR WILD-TYPE" 
    TCGA-A3-3323     TCGA-A3-3326     TCGA-A3-3331     TCGA-A3-3349 
"MTOR WILD-TYPE" "MTOR WILD-TYPE" "MTOR WILD-TYPE" "MTOR WILD-TYPE" 
    TCGA-A3-3362     TCGA-A3-3363     TCGA-A3-3365     TCGA-A3-3374 
"MTOR WILD-TYPE" "MTOR WILD-TYPE" "MTOR WILD-TYPE" "MTOR WILD-TYPE" 
    TCGA-A3-3380     TCGA-A3-3383     TCGA-AK-3427     TCGA-AK-3440 
"MTOR WILD-TYPE" "MTOR WILD-TYPE" "MTOR WILD-TYPE" "MTOR WILD-TYPE" 
    TCGA-AK-3443     TCGA-AK-3453     TCGA-AK-3455     TCGA-AK-3456 
"MTOR WILD-TYPE" "MTOR WILD-TYPE" "MTOR WILD-TYPE" "MTOR WILD-TYPE" 
    TCGA-AK-3465     TCGA-AS-3777     TCGA-AS-3778     TCGA-B2-3923 
"MTOR WILD-TYPE" "MTOR WILD-TYPE" "MTOR WILD-TYPE" "MTOR WILD-TYPE" 
    TCGA-B2-3924     TCGA-B2-4098     TCGA-B2-4099     TCGA-B8-4143 
"MTOR WILD-TYPE" "MTOR WILD-TYPE" "MTOR WILD-TYPE" "MTOR WILD-TYPE" 
    TCGA-B8-4148     TCGA-B8-4151     TCGA-B8-4154     TCGA-B8-4619 
"MTOR WILD-TYPE" "MTOR WILD-TYPE" "MTOR WILD-TYPE" "MTOR WILD-TYPE" 
    TCGA-B8-4620     TCGA-BP-4161     TCGA-BP-4162     TCGA-BP-4163 
"MTOR WILD-TYPE" "MTOR WILD-TYPE" "MTOR WILD-TYPE" "MTOR WILD-TYPE" 
    TCGA-BP-4164     TCGA-BP-4167     TCGA-CJ-4634     TCGA-CJ-4636 
"MTOR WILD-TYPE" "MTOR WILD-TYPE" "MTOR WILD-TYPE" "MTOR WILD-TYPE" 
    TCGA-CJ-4637     TCGA-CJ-4638     TCGA-CJ-4639     TCGA-CJ-4640 
"MTOR WILD-TYPE" "MTOR WILD-TYPE" "MTOR WILD-TYPE" "MTOR WILD-TYPE" 
    TCGA-CJ-4641     TCGA-CJ-4643 
"MTOR WILD-TYPE" "MTOR WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MTOR MUTATED       11      6     11
  MTOR WILD-TYPE    183    106    121
D7V3, multiclass
        clus
vv       MTOR MUTATED MTOR WILD-TYPE
  CLUS_1           11            183
  CLUS_2            6            106
  CLUS_3           11            121
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MTOR MUTATED        7      3     13
  MTOR WILD-TYPE     97     59     84
D7V4, multiclass
        clus
vv       MTOR MUTATED MTOR WILD-TYPE
  CLUS_1            7             97
  CLUS_2            3             59
  CLUS_3           13             84
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MTOR MUTATED        7      8      9      1      1      0
  MTOR WILD-TYPE     90     49     58     66     71     41
D7V5, multiclass
        clus
vv       MTOR MUTATED MTOR WILD-TYPE
  CLUS_1            7             90
  CLUS_2            8             49
  CLUS_3            9             58
  CLUS_4            1             66
  CLUS_5            1             71
  CLUS_6            0             41
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MTOR MUTATED        8      3     15
  MTOR WILD-TYPE     99    175    101
D7V6, multiclass
        clus
vv       MTOR MUTATED MTOR WILD-TYPE
  CLUS_1            8             99
  CLUS_2            3            175
  CLUS_3           15            101
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MTOR MUTATED        5     11     12
  MTOR WILD-TYPE     82    170    159
D7V7, multiclass
        clus
vv       MTOR MUTATED MTOR WILD-TYPE
  CLUS_1            5             82
  CLUS_2           11            170
  CLUS_3           12            159
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MTOR MUTATED        5      2      9     10      1      1
  MTOR WILD-TYPE     97     23    142    106     29     14
D7V8, multiclass
        clus
vv       MTOR MUTATED MTOR WILD-TYPE
  CLUS_1            5             97
  CLUS_2            2             23
  CLUS_3            9            142
  CLUS_4           10            106
  CLUS_5            1             29
  CLUS_6            1             14
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MTOR MUTATED        7      8     13
  MTOR WILD-TYPE     94    167    142
D7V9, multiclass
        clus
vv       MTOR MUTATED MTOR WILD-TYPE
  CLUS_1            7             94
  CLUS_2            8            167
  CLUS_3           13            142
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MTOR MUTATED        8     10      7      3
  MTOR WILD-TYPE    110    105    156     32
D7V10, multiclass
        clus
vv       MTOR MUTATED MTOR WILD-TYPE
  CLUS_1            8            110
  CLUS_2           10            105
  CLUS_3            7            156
  CLUS_4            3             32
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MTOR MUTATED        1      1      4      1
  MTOR WILD-TYPE     15     19     39     27
D7V11, multiclass
        clus
vv       MTOR MUTATED MTOR WILD-TYPE
  CLUS_1            1             15
  CLUS_2            1             19
  CLUS_3            4             39
  CLUS_4            1             27
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MTOR MUTATED        1      3      3
  MTOR WILD-TYPE     17     42     41
D7V12, multiclass
        clus
vv       MTOR MUTATED MTOR WILD-TYPE
  CLUS_1            1             17
  CLUS_2            3             42
  CLUS_3            3             41
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(8) Variable = TP53 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TP53 MUTATED        0      0      1
  TP53 WILD-TYPE     21     17      9
D8V1, multiclass
[1] "Remove cluster labels:" "TP53 MUTATED"          
clus
  TP53 MUTATED TP53 WILD-TYPE 
             1             47 
    TCGA-A3-3311     TCGA-A3-3316     TCGA-A3-3317     TCGA-A3-3322 
"TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-A3-3323     TCGA-A3-3326     TCGA-A3-3331     TCGA-A3-3347 
"TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-A3-3349     TCGA-A3-3362     TCGA-A3-3363     TCGA-A3-3365 
"TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-A3-3374     TCGA-A3-3380     TCGA-A3-3383     TCGA-AK-3427 
"TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-AK-3443     TCGA-AK-3453     TCGA-AK-3455     TCGA-AK-3456 
"TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-AK-3465     TCGA-AS-3777     TCGA-AS-3778     TCGA-B2-3923 
"TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-B2-3924     TCGA-B2-4098     TCGA-B2-4099     TCGA-B8-4143 
"TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-B8-4148     TCGA-B8-4151     TCGA-B8-4154     TCGA-B8-4619 
"TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-B8-4620     TCGA-BP-4161     TCGA-BP-4162     TCGA-BP-4163 
"TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-BP-4164     TCGA-BP-4167     TCGA-CJ-4634     TCGA-CJ-4636 
"TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-CJ-4637     TCGA-CJ-4638     TCGA-CJ-4639     TCGA-CJ-4640 
"TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-CJ-4641     TCGA-CJ-4643     TCGA-CJ-4644 
"TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  TP53 MUTATED        0      0      0      0      0      0      1
  TP53 WILD-TYPE      4      6      3     10     10      7      7
D8V2, multiclass
[1] "Remove cluster labels:" "TP53 MUTATED"          
clus
  TP53 MUTATED TP53 WILD-TYPE 
             1             47 
    TCGA-A3-3311     TCGA-A3-3316     TCGA-A3-3317     TCGA-A3-3322 
"TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-A3-3323     TCGA-A3-3326     TCGA-A3-3331     TCGA-A3-3347 
"TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-A3-3349     TCGA-A3-3362     TCGA-A3-3363     TCGA-A3-3365 
"TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-A3-3374     TCGA-A3-3380     TCGA-A3-3383     TCGA-AK-3427 
"TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-AK-3443     TCGA-AK-3453     TCGA-AK-3455     TCGA-AK-3456 
"TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-AK-3465     TCGA-AS-3777     TCGA-AS-3778     TCGA-B2-3923 
"TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-B2-3924     TCGA-B2-4098     TCGA-B2-4099     TCGA-B8-4143 
"TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-B8-4148     TCGA-B8-4151     TCGA-B8-4154     TCGA-B8-4619 
"TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-B8-4620     TCGA-BP-4161     TCGA-BP-4162     TCGA-BP-4163 
"TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-BP-4164     TCGA-BP-4167     TCGA-CJ-4634     TCGA-CJ-4636 
"TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-CJ-4637     TCGA-CJ-4638     TCGA-CJ-4639     TCGA-CJ-4640 
"TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-CJ-4641     TCGA-CJ-4643     TCGA-CJ-4644 
"TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TP53 MUTATED        3      3      6
  TP53 WILD-TYPE    191    109    126
D8V3, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1            3            191
  CLUS_2            3            109
  CLUS_3            6            126
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TP53 MUTATED        3      3      3
  TP53 WILD-TYPE    101     59     94
D8V4, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1            3            101
  CLUS_2            3             59
  CLUS_3            3             94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TP53 MUTATED        0      2      2      3      2      1
  TP53 WILD-TYPE     97     55     65     64     70     40
D8V5, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1            0             97
  CLUS_2            2             55
  CLUS_3            2             65
  CLUS_4            3             64
  CLUS_5            2             70
  CLUS_6            1             40
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TP53 MUTATED        1      3      6
  TP53 WILD-TYPE    106    175    110
D8V6, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1            1            106
  CLUS_2            3            175
  CLUS_3            6            110
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TP53 MUTATED        4      2      6
  TP53 WILD-TYPE     83    179    165
D8V7, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1            4             83
  CLUS_2            2            179
  CLUS_3            6            165
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TP53 MUTATED        1      0      2      6      1      2
  TP53 WILD-TYPE    101     25    149    110     29     13
D8V8, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1            1            101
  CLUS_2            0             25
  CLUS_3            2            149
  CLUS_4            6            110
  CLUS_5            1             29
  CLUS_6            2             13
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TP53 MUTATED        3      2      7
  TP53 WILD-TYPE     98    173    148
D8V9, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1            3             98
  CLUS_2            2            173
  CLUS_3            7            148
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TP53 MUTATED        5      4      2      1
  TP53 WILD-TYPE    113    111    161     34
D8V10, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1            5            113
  CLUS_2            4            111
  CLUS_3            2            161
  CLUS_4            1             34
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TP53 MUTATED        1      1      2      1
  TP53 WILD-TYPE     15     19     41     27
D8V11, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1            1             15
  CLUS_2            1             19
  CLUS_3            2             41
  CLUS_4            1             27
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TP53 MUTATED        1      2      2
  TP53 WILD-TYPE     17     43     42
D8V12, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1            1             17
  CLUS_2            2             43
  CLUS_3            2             42
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(9) Variable = FAM200A MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  FAM200A MUTATED        2      0      0
  FAM200A WILD-TYPE     19     17     10
D9V1, multiclass
[1] "Remove cluster labels:" "FAM200A MUTATED"       
clus
  FAM200A MUTATED FAM200A WILD-TYPE 
                2                46 
       TCGA-A3-3311        TCGA-A3-3316        TCGA-A3-3317        TCGA-A3-3322 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-A3-3323        TCGA-A3-3326        TCGA-A3-3331        TCGA-A3-3347 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-A3-3349        TCGA-A3-3362        TCGA-A3-3363        TCGA-A3-3365 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-A3-3374        TCGA-A3-3380        TCGA-A3-3383        TCGA-AK-3427 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-AK-3440        TCGA-AK-3443        TCGA-AK-3453        TCGA-AK-3455 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-AK-3456        TCGA-AK-3465        TCGA-AS-3777        TCGA-AS-3778 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-B2-3923        TCGA-B2-3924        TCGA-B2-4098        TCGA-B2-4099 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-B8-4143        TCGA-B8-4148        TCGA-B8-4151        TCGA-B8-4619 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-B8-4620        TCGA-BP-4161        TCGA-BP-4163        TCGA-BP-4164 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-BP-4167        TCGA-CJ-4634        TCGA-CJ-4636        TCGA-CJ-4637 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-CJ-4638        TCGA-CJ-4639        TCGA-CJ-4640        TCGA-CJ-4641 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-CJ-4643        TCGA-CJ-4644 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  FAM200A MUTATED        0      0      0      0      2      0      0
  FAM200A WILD-TYPE      4      6      3     10      8      7      8
D9V2, multiclass
[1] "Remove cluster labels:" "FAM200A MUTATED"       
clus
  FAM200A MUTATED FAM200A WILD-TYPE 
                2                46 
       TCGA-A3-3311        TCGA-A3-3316        TCGA-A3-3317        TCGA-A3-3322 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-A3-3323        TCGA-A3-3326        TCGA-A3-3331        TCGA-A3-3347 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-A3-3349        TCGA-A3-3362        TCGA-A3-3363        TCGA-A3-3365 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-A3-3374        TCGA-A3-3380        TCGA-A3-3383        TCGA-AK-3427 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-AK-3440        TCGA-AK-3443        TCGA-AK-3453        TCGA-AK-3455 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-AK-3456        TCGA-AK-3465        TCGA-AS-3777        TCGA-AS-3778 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-B2-3923        TCGA-B2-3924        TCGA-B2-4098        TCGA-B2-4099 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-B8-4143        TCGA-B8-4148        TCGA-B8-4151        TCGA-B8-4619 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-B8-4620        TCGA-BP-4161        TCGA-BP-4163        TCGA-BP-4164 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-BP-4167        TCGA-CJ-4634        TCGA-CJ-4636        TCGA-CJ-4637 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-CJ-4638        TCGA-CJ-4639        TCGA-CJ-4640        TCGA-CJ-4641 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-CJ-4643        TCGA-CJ-4644 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  FAM200A MUTATED        2      2      1
  FAM200A WILD-TYPE    192    110    131
D9V3, multiclass
        clus
vv       FAM200A MUTATED FAM200A WILD-TYPE
  CLUS_1               2               192
  CLUS_2               2               110
  CLUS_3               1               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
  FAM200A MUTATED        0      0      1
  FAM200A WILD-TYPE    104     62     96
D9V4, multiclass
[1] "Remove cluster labels:" "FAM200A MUTATED"       
clus
  FAM200A MUTATED FAM200A WILD-TYPE 
                1               262 
       TCGA-A3-3357        TCGA-A3-3358        TCGA-A3-3367        TCGA-A3-3370 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-A3-3373        TCGA-A3-3376        TCGA-A3-3385        TCGA-A3-3387 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-AK-3425        TCGA-AK-3428        TCGA-AK-3431        TCGA-AK-3434 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-AK-3440        TCGA-AK-3445        TCGA-AK-3450        TCGA-AK-3453 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-AK-3454        TCGA-AK-3458        TCGA-AK-3460        TCGA-AK-3461 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-B0-4690        TCGA-B0-4691        TCGA-B0-4693        TCGA-B0-4694 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-B0-4697        TCGA-B0-4700        TCGA-B0-4703        TCGA-B0-4706 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-B0-4707        TCGA-B0-4712        TCGA-B0-4713        TCGA-B0-4714 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-B0-4718        TCGA-B0-4810        TCGA-B0-4811        TCGA-B0-4813 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-B0-4814        TCGA-B0-4815        TCGA-B0-4816        TCGA-B0-4817 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-B0-4818        TCGA-B0-4819        TCGA-B0-4822        TCGA-B0-4823 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-B0-4824        TCGA-B0-4827        TCGA-B0-4828        TCGA-B0-4841 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-B0-4842        TCGA-B0-4843        TCGA-B0-4844        TCGA-B0-4845 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-B0-4846        TCGA-B0-4847        TCGA-B0-4848        TCGA-B0-4849 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-B0-4852        TCGA-B0-4945        TCGA-B0-5080        TCGA-B0-5083 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-B0-5092        TCGA-B0-5094        TCGA-B0-5095        TCGA-B0-5096 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-B0-5097        TCGA-B0-5098        TCGA-B0-5099        TCGA-B0-5100 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-B0-5102        TCGA-B0-5104        TCGA-B0-5106        TCGA-B0-5107 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-B0-5108        TCGA-B0-5109        TCGA-B0-5110        TCGA-B0-5113 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-B0-5115        TCGA-B0-5116        TCGA-B0-5117        TCGA-B0-5119 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-B0-5120        TCGA-B0-5121        TCGA-B0-5399        TCGA-B0-5400 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-B0-5402        TCGA-B0-5691        TCGA-B0-5692        TCGA-B0-5693 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-B0-5694        TCGA-B0-5695        TCGA-B0-5696        TCGA-B0-5697 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-B0-5698        TCGA-B0-5699        TCGA-B0-5701        TCGA-B0-5702 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-B0-5703        TCGA-B0-5705        TCGA-B0-5706        TCGA-B0-5707 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-B0-5709        TCGA-B0-5710        TCGA-B0-5711        TCGA-B0-5712 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-B0-5713        TCGA-B0-5812        TCGA-B2-3924        TCGA-B2-4101 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-B2-5633        TCGA-B2-5635        TCGA-B2-5641        TCGA-B4-5377 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-B4-5832        TCGA-B4-5834        TCGA-B4-5835        TCGA-B4-5836 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-B4-5838        TCGA-B4-5843        TCGA-B4-5844        TCGA-B8-4146 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-B8-4153        TCGA-B8-4621        TCGA-B8-4622        TCGA-B8-5158 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-B8-5159        TCGA-B8-5162        TCGA-B8-5163        TCGA-B8-5164 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-B8-5165        TCGA-B8-5545        TCGA-B8-5546        TCGA-B8-5549 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-B8-5550        TCGA-B8-5551        TCGA-B8-5552        TCGA-B8-5553 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-BP-4177        TCGA-BP-4760        TCGA-BP-4770        TCGA-BP-4782 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-BP-4795        TCGA-BP-4801        TCGA-BP-4993        TCGA-BP-5010 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-BP-5168        TCGA-BP-5169        TCGA-BP-5170        TCGA-BP-5173 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-BP-5174        TCGA-BP-5175        TCGA-BP-5176        TCGA-BP-5177 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-BP-5178        TCGA-BP-5180        TCGA-BP-5181        TCGA-BP-5182 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-BP-5183        TCGA-BP-5184        TCGA-BP-5185        TCGA-BP-5186 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-BP-5187        TCGA-BP-5189        TCGA-BP-5190        TCGA-BP-5191 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-BP-5192        TCGA-BP-5194        TCGA-BP-5195        TCGA-BP-5196 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-BP-5198        TCGA-BP-5199        TCGA-BP-5200        TCGA-BP-5201 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-BP-5202        TCGA-CJ-4869        TCGA-CJ-4882        TCGA-CJ-4897 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-CJ-4901        TCGA-CJ-4902        TCGA-CJ-4903        TCGA-CJ-4904 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-CJ-4905        TCGA-CJ-4907        TCGA-CJ-4908        TCGA-CJ-4912 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-CJ-4913        TCGA-CJ-4916        TCGA-CJ-4918        TCGA-CJ-4920 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-CJ-4923        TCGA-CJ-5671        TCGA-CJ-5672        TCGA-CJ-5675 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-CJ-5676        TCGA-CJ-5677        TCGA-CJ-5678        TCGA-CJ-5679 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-CJ-5680        TCGA-CJ-5681        TCGA-CJ-5682        TCGA-CJ-5683 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-CJ-5684        TCGA-CJ-5686        TCGA-CJ-6027        TCGA-CJ-6028 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-CJ-6030        TCGA-CJ-6031        TCGA-CJ-6032        TCGA-CJ-6033 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-CW-5580        TCGA-CW-5581        TCGA-CW-5583        TCGA-CW-5585 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-CW-5588        TCGA-CW-5589        TCGA-CW-5591        TCGA-CW-6087 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-CW-6090        TCGA-CW-6093        TCGA-CW-6097        TCGA-CZ-4853 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-CZ-4856        TCGA-CZ-4859        TCGA-CZ-4863        TCGA-CZ-4865 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-CZ-4866        TCGA-CZ-5451        TCGA-CZ-5452        TCGA-CZ-5453 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-CZ-5454        TCGA-CZ-5455        TCGA-CZ-5456        TCGA-CZ-5457 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-CZ-5458        TCGA-CZ-5459        TCGA-CZ-5460        TCGA-CZ-5461 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-CZ-5462        TCGA-CZ-5463        TCGA-CZ-5465        TCGA-CZ-5466 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-CZ-5467        TCGA-CZ-5468        TCGA-CZ-5469        TCGA-CZ-5470 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-CZ-5982        TCGA-CZ-5984        TCGA-CZ-5985        TCGA-CZ-5986 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-CZ-5987        TCGA-CZ-5988        TCGA-CZ-5989        TCGA-DV-5565 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-DV-5566        TCGA-DV-5568        TCGA-DV-5569        TCGA-DV-5574 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-DV-5575        TCGA-DV-5576        TCGA-EU-5904        TCGA-EU-5905 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-EU-5906        TCGA-EU-5907 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  FAM200A MUTATED        0      0      0      0      0      3
  FAM200A WILD-TYPE     97     57     67     67     72     38
D9V5, multiclass
        clus
vv       FAM200A MUTATED FAM200A WILD-TYPE
  CLUS_1               0                97
  CLUS_2               0                57
  CLUS_3               0                67
  CLUS_4               0                67
  CLUS_5               0                72
  CLUS_6               3                38
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  FAM200A MUTATED        0      3      0
  FAM200A WILD-TYPE    107    175    116
D9V6, multiclass
        clus
vv       FAM200A MUTATED FAM200A WILD-TYPE
  CLUS_1               0               107
  CLUS_2               3               175
  CLUS_3               0               116
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  FAM200A MUTATED        1      4      0
  FAM200A WILD-TYPE     86    177    171
D9V7, multiclass
        clus
vv       FAM200A MUTATED FAM200A WILD-TYPE
  CLUS_1               1                86
  CLUS_2               4               177
  CLUS_3               0               171
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  FAM200A MUTATED        1      0      4      0      0      0
  FAM200A WILD-TYPE    101     25    147    116     30     15
D9V8, multiclass
        clus
vv       FAM200A MUTATED FAM200A WILD-TYPE
  CLUS_1               1               101
  CLUS_2               0                25
  CLUS_3               4               147
  CLUS_4               0               116
  CLUS_5               0                30
  CLUS_6               0                15
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  FAM200A MUTATED        1      4      0
  FAM200A WILD-TYPE    100    171    155
D9V9, multiclass
        clus
vv       FAM200A MUTATED FAM200A WILD-TYPE
  CLUS_1               1               100
  CLUS_2               4               171
  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 CLUS_4
  FAM200A MUTATED        1      0      4      0
  FAM200A WILD-TYPE    117    115    159     35
D9V10, multiclass
        clus
vv       FAM200A MUTATED FAM200A WILD-TYPE
  CLUS_1               1               117
  CLUS_2               0               115
  CLUS_3               4               159
  CLUS_4               0                35
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FAM200A MUTATED        0      0      1      0
  FAM200A WILD-TYPE     16     20     42     28
D9V11, multiclass
[1] "Remove cluster labels:" "FAM200A MUTATED"       
clus
  FAM200A MUTATED FAM200A WILD-TYPE 
                1               106 
       TCGA-A3-3317        TCGA-A3-3358        TCGA-A3-3387        TCGA-AK-3440 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-AK-3458        TCGA-AK-3465        TCGA-B0-4700        TCGA-B0-4706 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-B0-4712        TCGA-B0-4810        TCGA-B0-4811        TCGA-B0-4836 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-B0-4837        TCGA-B0-4852        TCGA-B0-5080        TCGA-B0-5085 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-B0-5088        TCGA-B0-5399        TCGA-B0-5691        TCGA-B0-5692 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-B0-5693        TCGA-B0-5694        TCGA-B0-5695        TCGA-B0-5696 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-B0-5699        TCGA-B0-5702        TCGA-B0-5705        TCGA-B0-5709 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-B2-3923        TCGA-B2-3924        TCGA-B2-5633        TCGA-B2-5635 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-B4-5377        TCGA-B4-5836        TCGA-B8-4621        TCGA-B8-5545 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-B8-5550        TCGA-B8-5551        TCGA-B8-5552        TCGA-B8-5553 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-BP-4173        TCGA-BP-4340        TCGA-BP-4761        TCGA-BP-4770 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-BP-4787        TCGA-BP-4789        TCGA-BP-4790        TCGA-BP-4804 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-BP-4807        TCGA-BP-4961        TCGA-BP-4967        TCGA-BP-4968 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-BP-4970        TCGA-BP-4974        TCGA-BP-4976        TCGA-BP-4981 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-BP-4982        TCGA-BP-4985        TCGA-BP-4988        TCGA-BP-4989 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-BP-4992        TCGA-BP-4995        TCGA-BP-4998        TCGA-BP-5001 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-BP-5008        TCGA-BP-5009        TCGA-CJ-4870        TCGA-CJ-4875 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-CJ-4876        TCGA-CJ-4878        TCGA-CJ-4881        TCGA-CJ-4887 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-CJ-4889        TCGA-CJ-4890        TCGA-CJ-4895        TCGA-CJ-4900 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-CJ-5671        TCGA-CJ-5675        TCGA-CJ-5676        TCGA-CJ-5681 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-CJ-5683        TCGA-CJ-5686        TCGA-CJ-6031        TCGA-CJ-6032 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-CW-5585        TCGA-CW-5589        TCGA-CW-6087        TCGA-CZ-4854 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-CZ-4857        TCGA-CZ-4858        TCGA-CZ-5453        TCGA-CZ-5454 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-CZ-5455        TCGA-CZ-5457        TCGA-CZ-5459        TCGA-CZ-5462 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-CZ-5463        TCGA-CZ-5466        TCGA-CZ-5467        TCGA-CZ-5469 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-CZ-5470        TCGA-CZ-5989        TCGA-DV-5565        TCGA-DV-5566 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-DV-5569        TCGA-EU-5904 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  FAM200A MUTATED        0      0      1
  FAM200A WILD-TYPE     18     45     43
D9V12, multiclass
[1] "Remove cluster labels:" "FAM200A MUTATED"       
clus
  FAM200A MUTATED FAM200A WILD-TYPE 
                1               106 
       TCGA-A3-3317        TCGA-A3-3358        TCGA-A3-3387        TCGA-AK-3440 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-AK-3458        TCGA-AK-3465        TCGA-B0-4700        TCGA-B0-4706 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-B0-4712        TCGA-B0-4810        TCGA-B0-4811        TCGA-B0-4836 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-B0-4837        TCGA-B0-4852        TCGA-B0-5080        TCGA-B0-5085 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-B0-5088        TCGA-B0-5399        TCGA-B0-5691        TCGA-B0-5692 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-B0-5693        TCGA-B0-5694        TCGA-B0-5695        TCGA-B0-5696 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-B0-5699        TCGA-B0-5702        TCGA-B0-5705        TCGA-B0-5709 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-B2-3923        TCGA-B2-3924        TCGA-B2-5633        TCGA-B2-5635 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-B4-5377        TCGA-B4-5836        TCGA-B8-4621        TCGA-B8-5545 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-B8-5550        TCGA-B8-5551        TCGA-B8-5552        TCGA-B8-5553 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-BP-4173        TCGA-BP-4340        TCGA-BP-4761        TCGA-BP-4770 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-BP-4787        TCGA-BP-4789        TCGA-BP-4790        TCGA-BP-4804 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-BP-4807        TCGA-BP-4961        TCGA-BP-4967        TCGA-BP-4968 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-BP-4970        TCGA-BP-4974        TCGA-BP-4976        TCGA-BP-4981 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-BP-4982        TCGA-BP-4985        TCGA-BP-4988        TCGA-BP-4989 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-BP-4992        TCGA-BP-4995        TCGA-BP-4998        TCGA-BP-5001 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-BP-5008        TCGA-BP-5009        TCGA-CJ-4870        TCGA-CJ-4875 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-CJ-4876        TCGA-CJ-4878        TCGA-CJ-4881        TCGA-CJ-4887 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-CJ-4889        TCGA-CJ-4890        TCGA-CJ-4895        TCGA-CJ-4900 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-CJ-5671        TCGA-CJ-5675        TCGA-CJ-5676        TCGA-CJ-5681 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-CJ-5683        TCGA-CJ-5686        TCGA-CJ-6031        TCGA-CJ-6032 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-CW-5585        TCGA-CW-5589        TCGA-CW-6087        TCGA-CZ-4854 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-CZ-4857        TCGA-CZ-4858        TCGA-CZ-5453        TCGA-CZ-5454 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-CZ-5455        TCGA-CZ-5457        TCGA-CZ-5459        TCGA-CZ-5462 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-CZ-5463        TCGA-CZ-5466        TCGA-CZ-5467        TCGA-CZ-5469 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-CZ-5470        TCGA-CZ-5989        TCGA-DV-5565        TCGA-DV-5566 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-DV-5569        TCGA-EU-5904 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 

Clustering(10) Variable = NEFH MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NEFH MUTATED        0      0      0
  NEFH WILD-TYPE     21     17     10
D10V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  NEFH MUTATED        0      0      0      0      0      0      0
  NEFH WILD-TYPE      4      6      3     10     10      7      8
D10V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NEFH MUTATED        3      1      1
  NEFH WILD-TYPE    191    111    131
D10V3, multiclass
        clus
vv       NEFH MUTATED NEFH WILD-TYPE
  CLUS_1            3            191
  CLUS_2            1            111
  CLUS_3            1            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
  NEFH MUTATED        3      0      1
  NEFH WILD-TYPE    101     62     96
D10V4, multiclass
        clus
vv       NEFH MUTATED NEFH WILD-TYPE
  CLUS_1            3            101
  CLUS_2            0             62
  CLUS_3            1             96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  NEFH MUTATED        2      0      1      1      1      0
  NEFH WILD-TYPE     95     57     66     66     71     41
D10V5, multiclass
        clus
vv       NEFH MUTATED NEFH WILD-TYPE
  CLUS_1            2             95
  CLUS_2            0             57
  CLUS_3            1             66
  CLUS_4            1             66
  CLUS_5            1             71
  CLUS_6            0             41
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NEFH MUTATED        0      2      3
  NEFH WILD-TYPE    107    176    113
D10V6, multiclass
        clus
vv       NEFH MUTATED NEFH WILD-TYPE
  CLUS_1            0            107
  CLUS_2            2            176
  CLUS_3            3            113
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NEFH MUTATED        3      0      2
  NEFH WILD-TYPE     84    181    169
D10V7, multiclass
        clus
vv       NEFH MUTATED NEFH WILD-TYPE
  CLUS_1            3             84
  CLUS_2            0            181
  CLUS_3            2            169
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  NEFH MUTATED        1      2      0      1      1      0
  NEFH WILD-TYPE    101     23    151    115     29     15
D10V8, multiclass
        clus
vv       NEFH MUTATED NEFH WILD-TYPE
  CLUS_1            1            101
  CLUS_2            2             23
  CLUS_3            0            151
  CLUS_4            1            115
  CLUS_5            1             29
  CLUS_6            0             15
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NEFH MUTATED        0      3      2
  NEFH WILD-TYPE    101    172    153
D10V9, multiclass
        clus
vv       NEFH MUTATED NEFH WILD-TYPE
  CLUS_1            0            101
  CLUS_2            3            172
  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 CLUS_4
  NEFH MUTATED        1      2      2      0
  NEFH WILD-TYPE    117    113    161     35
D10V10, multiclass
        clus
vv       NEFH MUTATED NEFH WILD-TYPE
  CLUS_1            1            117
  CLUS_2            2            113
  CLUS_3            2            161
  CLUS_4            0             35
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NEFH MUTATED        0      0      3      0
  NEFH WILD-TYPE     16     20     40     28
D10V11, multiclass
        clus
vv       NEFH MUTATED NEFH WILD-TYPE
  CLUS_1            0             16
  CLUS_2            0             20
  CLUS_3            3             40
  CLUS_4            0             28
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NEFH MUTATED        0      0      3
  NEFH WILD-TYPE     18     45     41
D10V12, multiclass
        clus
vv       NEFH MUTATED NEFH WILD-TYPE
  CLUS_1            0             18
  CLUS_2            0             45
  CLUS_3            3             41
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(11) Variable = PTCH1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PTCH1 MUTATED        0      0      0
  PTCH1 WILD-TYPE     21     17     10
D11V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  PTCH1 MUTATED        0      0      0      0      0      0      0
  PTCH1 WILD-TYPE      4      6      3     10     10      7      8
D11V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PTCH1 MUTATED        3      2      2
  PTCH1 WILD-TYPE    191    110    130
D11V3, multiclass
        clus
vv       PTCH1 MUTATED PTCH1 WILD-TYPE
  CLUS_1             3             191
  CLUS_2             2             110
  CLUS_3             2             130
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PTCH1 MUTATED        0      0      4
  PTCH1 WILD-TYPE    104     62     93
D11V4, multiclass
        clus
vv       PTCH1 MUTATED PTCH1 WILD-TYPE
  CLUS_1             0             104
  CLUS_2             0              62
  CLUS_3             4              93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PTCH1 MUTATED        2      3      0      1      1      0
  PTCH1 WILD-TYPE     95     54     67     66     71     41
D11V5, multiclass
        clus
vv       PTCH1 MUTATED PTCH1 WILD-TYPE
  CLUS_1             2              95
  CLUS_2             3              54
  CLUS_3             0              67
  CLUS_4             1              66
  CLUS_5             1              71
  CLUS_6             0              41
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PTCH1 MUTATED        2      1      4
  PTCH1 WILD-TYPE    105    177    112
D11V6, multiclass
        clus
vv       PTCH1 MUTATED PTCH1 WILD-TYPE
  CLUS_1             2             105
  CLUS_2             1             177
  CLUS_3             4             112
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PTCH1 MUTATED        1      4      2
  PTCH1 WILD-TYPE     86    177    169
D11V7, multiclass
        clus
vv       PTCH1 MUTATED PTCH1 WILD-TYPE
  CLUS_1             1              86
  CLUS_2             4             177
  CLUS_3             2             169
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PTCH1 MUTATED        3      0      2      0      2      0
  PTCH1 WILD-TYPE     99     25    149    116     28     15
D11V8, multiclass
        clus
vv       PTCH1 MUTATED PTCH1 WILD-TYPE
  CLUS_1             3              99
  CLUS_2             0              25
  CLUS_3             2             149
  CLUS_4             0             116
  CLUS_5             2              28
  CLUS_6             0              15
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PTCH1 MUTATED        1      3      3
  PTCH1 WILD-TYPE    100    172    152
D11V9, multiclass
        clus
vv       PTCH1 MUTATED PTCH1 WILD-TYPE
  CLUS_1             1             100
  CLUS_2             3             172
  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 CLUS_4
  PTCH1 MUTATED        1      3      3      0
  PTCH1 WILD-TYPE    117    112    160     35
D11V10, multiclass
        clus
vv       PTCH1 MUTATED PTCH1 WILD-TYPE
  CLUS_1             1             117
  CLUS_2             3             112
  CLUS_3             3             160
  CLUS_4             0              35
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PTCH1 MUTATED        0      0      0      0
  PTCH1 WILD-TYPE     16     20     43     28
D11V11, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PTCH1 MUTATED        0      0      0
  PTCH1 WILD-TYPE     18     45     44
D11V12, multiclass

Clustering(12) Variable = NF2 MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  NF2 MUTATED        0      1      0
  NF2 WILD-TYPE     21     16     10
D12V1, multiclass
[1] "Remove cluster labels:" "NF2 MUTATED"           
clus
  NF2 MUTATED NF2 WILD-TYPE 
            1            47 
   TCGA-A3-3311    TCGA-A3-3316    TCGA-A3-3317    TCGA-A3-3322    TCGA-A3-3323 
"NF2 WILD-TYPE" "NF2 WILD-TYPE" "NF2 WILD-TYPE" "NF2 WILD-TYPE" "NF2 WILD-TYPE" 
   TCGA-A3-3326    TCGA-A3-3331    TCGA-A3-3347    TCGA-A3-3349    TCGA-A3-3362 
"NF2 WILD-TYPE" "NF2 WILD-TYPE" "NF2 WILD-TYPE" "NF2 WILD-TYPE" "NF2 WILD-TYPE" 
   TCGA-A3-3363    TCGA-A3-3365    TCGA-A3-3374    TCGA-A3-3380    TCGA-A3-3383 
"NF2 WILD-TYPE" "NF2 WILD-TYPE" "NF2 WILD-TYPE" "NF2 WILD-TYPE" "NF2 WILD-TYPE" 
   TCGA-AK-3427    TCGA-AK-3440    TCGA-AK-3443    TCGA-AK-3453    TCGA-AK-3455 
"NF2 WILD-TYPE" "NF2 WILD-TYPE" "NF2 WILD-TYPE" "NF2 WILD-TYPE" "NF2 WILD-TYPE" 
   TCGA-AK-3456    TCGA-AK-3465    TCGA-AS-3777    TCGA-AS-3778    TCGA-B2-3923 
"NF2 WILD-TYPE" "NF2 WILD-TYPE" "NF2 WILD-TYPE" "NF2 WILD-TYPE" "NF2 WILD-TYPE" 
   TCGA-B2-3924    TCGA-B2-4098    TCGA-B2-4099    TCGA-B8-4143    TCGA-B8-4148 
"NF2 WILD-TYPE" "NF2 WILD-TYPE" "NF2 WILD-TYPE" "NF2 WILD-TYPE" "NF2 WILD-TYPE" 
   TCGA-B8-4151    TCGA-B8-4154    TCGA-B8-4619    TCGA-B8-4620    TCGA-BP-4161 
"NF2 WILD-TYPE" "NF2 WILD-TYPE" "NF2 WILD-TYPE" "NF2 WILD-TYPE" "NF2 WILD-TYPE" 
   TCGA-BP-4162    TCGA-BP-4163    TCGA-BP-4164    TCGA-BP-4167    TCGA-CJ-4634 
"NF2 WILD-TYPE" "NF2 WILD-TYPE" "NF2 WILD-TYPE" "NF2 WILD-TYPE" "NF2 WILD-TYPE" 
   TCGA-CJ-4636    TCGA-CJ-4637    TCGA-CJ-4639    TCGA-CJ-4640    TCGA-CJ-4641 
"NF2 WILD-TYPE" "NF2 WILD-TYPE" "NF2 WILD-TYPE" "NF2 WILD-TYPE" "NF2 WILD-TYPE" 
   TCGA-CJ-4643    TCGA-CJ-4644 
"NF2 WILD-TYPE" "NF2 WILD-TYPE" 
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  NF2 MUTATED        0      0      0      1      0      0      0
  NF2 WILD-TYPE      4      6      3      9     10      7      8
D12V2, multiclass
[1] "Remove cluster labels:" "NF2 MUTATED"           
clus
  NF2 MUTATED NF2 WILD-TYPE 
            1            47 
   TCGA-A3-3311    TCGA-A3-3316    TCGA-A3-3317    TCGA-A3-3322    TCGA-A3-3323 
"NF2 WILD-TYPE" "NF2 WILD-TYPE" "NF2 WILD-TYPE" "NF2 WILD-TYPE" "NF2 WILD-TYPE" 
   TCGA-A3-3326    TCGA-A3-3331    TCGA-A3-3347    TCGA-A3-3349    TCGA-A3-3362 
"NF2 WILD-TYPE" "NF2 WILD-TYPE" "NF2 WILD-TYPE" "NF2 WILD-TYPE" "NF2 WILD-TYPE" 
   TCGA-A3-3363    TCGA-A3-3365    TCGA-A3-3374    TCGA-A3-3380    TCGA-A3-3383 
"NF2 WILD-TYPE" "NF2 WILD-TYPE" "NF2 WILD-TYPE" "NF2 WILD-TYPE" "NF2 WILD-TYPE" 
   TCGA-AK-3427    TCGA-AK-3440    TCGA-AK-3443    TCGA-AK-3453    TCGA-AK-3455 
"NF2 WILD-TYPE" "NF2 WILD-TYPE" "NF2 WILD-TYPE" "NF2 WILD-TYPE" "NF2 WILD-TYPE" 
   TCGA-AK-3456    TCGA-AK-3465    TCGA-AS-3777    TCGA-AS-3778    TCGA-B2-3923 
"NF2 WILD-TYPE" "NF2 WILD-TYPE" "NF2 WILD-TYPE" "NF2 WILD-TYPE" "NF2 WILD-TYPE" 
   TCGA-B2-3924    TCGA-B2-4098    TCGA-B2-4099    TCGA-B8-4143    TCGA-B8-4148 
"NF2 WILD-TYPE" "NF2 WILD-TYPE" "NF2 WILD-TYPE" "NF2 WILD-TYPE" "NF2 WILD-TYPE" 
   TCGA-B8-4151    TCGA-B8-4154    TCGA-B8-4619    TCGA-B8-4620    TCGA-BP-4161 
"NF2 WILD-TYPE" "NF2 WILD-TYPE" "NF2 WILD-TYPE" "NF2 WILD-TYPE" "NF2 WILD-TYPE" 
   TCGA-BP-4162    TCGA-BP-4163    TCGA-BP-4164    TCGA-BP-4167    TCGA-CJ-4634 
"NF2 WILD-TYPE" "NF2 WILD-TYPE" "NF2 WILD-TYPE" "NF2 WILD-TYPE" "NF2 WILD-TYPE" 
   TCGA-CJ-4636    TCGA-CJ-4637    TCGA-CJ-4639    TCGA-CJ-4640    TCGA-CJ-4641 
"NF2 WILD-TYPE" "NF2 WILD-TYPE" "NF2 WILD-TYPE" "NF2 WILD-TYPE" "NF2 WILD-TYPE" 
   TCGA-CJ-4643    TCGA-CJ-4644 
"NF2 WILD-TYPE" "NF2 WILD-TYPE" 
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  NF2 MUTATED        1      0      5
  NF2 WILD-TYPE    193    112    127
D12V3, multiclass
        clus
vv       NF2 MUTATED NF2 WILD-TYPE
  CLUS_1           1           193
  CLUS_2           0           112
  CLUS_3           5           127
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  NF2 MUTATED        0      1      2
  NF2 WILD-TYPE    104     61     95
D12V4, multiclass
        clus
vv       NF2 MUTATED NF2 WILD-TYPE
  CLUS_1           0           104
  CLUS_2           1            61
  CLUS_3           2            95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  NF2 MUTATED        1      1      0      3      0      1
  NF2 WILD-TYPE     96     56     67     64     72     40
D12V5, multiclass
        clus
vv       NF2 MUTATED NF2 WILD-TYPE
  CLUS_1           1            96
  CLUS_2           1            56
  CLUS_3           0            67
  CLUS_4           3            64
  CLUS_5           0            72
  CLUS_6           1            40
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  NF2 MUTATED        1      2      3
  NF2 WILD-TYPE    106    176    113
D12V6, multiclass
        clus
vv       NF2 MUTATED NF2 WILD-TYPE
  CLUS_1           1           106
  CLUS_2           2           176
  CLUS_3           3           113
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  NF2 MUTATED        0      1      5
  NF2 WILD-TYPE     87    180    166
D12V7, multiclass
        clus
vv       NF2 MUTATED NF2 WILD-TYPE
  CLUS_1           0            87
  CLUS_2           1           180
  CLUS_3           5           166
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  NF2 MUTATED        0      0      1      4      1      0
  NF2 WILD-TYPE    102     25    150    112     29     15
D12V8, multiclass
        clus
vv       NF2 MUTATED NF2 WILD-TYPE
  CLUS_1           0           102
  CLUS_2           0            25
  CLUS_3           1           150
  CLUS_4           4           112
  CLUS_5           1            29
  CLUS_6           0            15
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  NF2 MUTATED        0      1      5
  NF2 WILD-TYPE    101    174    150
D12V9, multiclass
        clus
vv       NF2 MUTATED NF2 WILD-TYPE
  CLUS_1           0           101
  CLUS_2           1           174
  CLUS_3           5           150
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NF2 MUTATED        3      1      1      1
  NF2 WILD-TYPE    115    114    162     34
D12V10, multiclass
        clus
vv       NF2 MUTATED NF2 WILD-TYPE
  CLUS_1           3           115
  CLUS_2           1           114
  CLUS_3           1           162
  CLUS_4           1            34
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NF2 MUTATED        0      0      0      0
  NF2 WILD-TYPE     16     20     43     28
D12V11, multiclass
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  NF2 MUTATED        0      0      0
  NF2 WILD-TYPE     18     45     44
D12V12, multiclass

Clustering(13) Variable = CCDC120 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  CCDC120 MUTATED        0      0      0
  CCDC120 WILD-TYPE     21     17     10
D13V1, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  CCDC120 MUTATED        0      0      0      0      0      0      0
  CCDC120 WILD-TYPE      4      6      3     10     10      7      8
D13V2, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  CCDC120 MUTATED        0      2      2
  CCDC120 WILD-TYPE    194    110    130
D13V3, multiclass
        clus
vv       CCDC120 MUTATED CCDC120 WILD-TYPE
  CLUS_1               0               194
  CLUS_2               2               110
  CLUS_3               2               130
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  CCDC120 MUTATED        0      1      1
  CCDC120 WILD-TYPE    104     61     96
D13V4, multiclass
[1] "Remove cluster labels:" "CCDC120 MUTATED"       
clus
  CCDC120 MUTATED CCDC120 WILD-TYPE 
                2               261 
       TCGA-A3-3357        TCGA-A3-3358        TCGA-A3-3367        TCGA-A3-3370 
"CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" 
       TCGA-A3-3373        TCGA-A3-3376        TCGA-A3-3385        TCGA-A3-3387 
"CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" 
       TCGA-AK-3428        TCGA-AK-3431        TCGA-AK-3434        TCGA-AK-3440 
"CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" 
       TCGA-AK-3445        TCGA-AK-3450        TCGA-AK-3453        TCGA-AK-3454 
"CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" 
       TCGA-AK-3458        TCGA-AK-3460        TCGA-AK-3461        TCGA-B0-4690 
"CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" 
       TCGA-B0-4691        TCGA-B0-4693        TCGA-B0-4694        TCGA-B0-4697 
"CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" 
       TCGA-B0-4700        TCGA-B0-4703        TCGA-B0-4706        TCGA-B0-4707 
"CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" 
       TCGA-B0-4710        TCGA-B0-4712        TCGA-B0-4713        TCGA-B0-4714 
"CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" 
       TCGA-B0-4718        TCGA-B0-4810        TCGA-B0-4811        TCGA-B0-4813 
"CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" 
       TCGA-B0-4814        TCGA-B0-4815        TCGA-B0-4816        TCGA-B0-4817 
"CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" 
       TCGA-B0-4818        TCGA-B0-4819        TCGA-B0-4822        TCGA-B0-4823 
"CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" 
       TCGA-B0-4824        TCGA-B0-4827        TCGA-B0-4828        TCGA-B0-4841 
"CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" 
       TCGA-B0-4842        TCGA-B0-4843        TCGA-B0-4844        TCGA-B0-4845 
"CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" 
       TCGA-B0-4846        TCGA-B0-4847        TCGA-B0-4848        TCGA-B0-4849 
"CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" 
       TCGA-B0-4852        TCGA-B0-4945        TCGA-B0-5080        TCGA-B0-5083 
"CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" 
       TCGA-B0-5092        TCGA-B0-5094        TCGA-B0-5095        TCGA-B0-5096 
"CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" 
       TCGA-B0-5097        TCGA-B0-5098        TCGA-B0-5099        TCGA-B0-5100 
"CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" 
       TCGA-B0-5102        TCGA-B0-5104        TCGA-B0-5106        TCGA-B0-5107 
"CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" 
       TCGA-B0-5108        TCGA-B0-5109        TCGA-B0-5110        TCGA-B0-5113 
"CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" 
       TCGA-B0-5115        TCGA-B0-5116        TCGA-B0-5117        TCGA-B0-5119 
"CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" 
       TCGA-B0-5120        TCGA-B0-5121        TCGA-B0-5399        TCGA-B0-5400 
"CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" 
       TCGA-B0-5402        TCGA-B0-5691        TCGA-B0-5692        TCGA-B0-5693 
"CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" 
       TCGA-B0-5694        TCGA-B0-5695        TCGA-B0-5696        TCGA-B0-5697 
"CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" 
       TCGA-B0-5698        TCGA-B0-5699        TCGA-B0-5701        TCGA-B0-5702 
"CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" 
       TCGA-B0-5703        TCGA-B0-5705        TCGA-B0-5706        TCGA-B0-5707 
"CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" 
       TCGA-B0-5709        TCGA-B0-5710        TCGA-B0-5711        TCGA-B0-5712 
"CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" 
       TCGA-B0-5713        TCGA-B0-5812        TCGA-B2-3924        TCGA-B2-4101 
"CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" 
       TCGA-B2-5633        TCGA-B2-5635        TCGA-B2-5641        TCGA-B4-5377 
"CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" 
       TCGA-B4-5832        TCGA-B4-5834        TCGA-B4-5835        TCGA-B4-5836 
"CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" 
       TCGA-B4-5838        TCGA-B4-5843        TCGA-B4-5844        TCGA-B8-4146 
"CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" 
       TCGA-B8-4153        TCGA-B8-4621        TCGA-B8-4622        TCGA-B8-5158 
"CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" 
       TCGA-B8-5159        TCGA-B8-5162        TCGA-B8-5163        TCGA-B8-5164 
"CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" 
       TCGA-B8-5165        TCGA-B8-5545        TCGA-B8-5546        TCGA-B8-5549 
"CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" 
       TCGA-B8-5550        TCGA-B8-5551        TCGA-B8-5552        TCGA-B8-5553 
"CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" 
       TCGA-BP-4177        TCGA-BP-4760        TCGA-BP-4770        TCGA-BP-4782 
"CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" 
       TCGA-BP-4795        TCGA-BP-4801        TCGA-BP-4993        TCGA-BP-5010 
"CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" 
       TCGA-BP-5168        TCGA-BP-5169        TCGA-BP-5170        TCGA-BP-5173 
"CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" 
       TCGA-BP-5174        TCGA-BP-5175        TCGA-BP-5176        TCGA-BP-5177 
"CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" 
       TCGA-BP-5178        TCGA-BP-5180        TCGA-BP-5181        TCGA-BP-5182 
"CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" 
       TCGA-BP-5183        TCGA-BP-5184        TCGA-BP-5185        TCGA-BP-5186 
"CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" 
       TCGA-BP-5187        TCGA-BP-5189        TCGA-BP-5190        TCGA-BP-5191 
"CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" 
       TCGA-BP-5192        TCGA-BP-5194        TCGA-BP-5195        TCGA-BP-5196 
"CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" 
       TCGA-BP-5198        TCGA-BP-5199        TCGA-BP-5200        TCGA-BP-5201 
"CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" 
       TCGA-BP-5202        TCGA-CJ-4869        TCGA-CJ-4882        TCGA-CJ-4897 
"CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" 
       TCGA-CJ-4901        TCGA-CJ-4902        TCGA-CJ-4903        TCGA-CJ-4904 
"CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" 
       TCGA-CJ-4905        TCGA-CJ-4907        TCGA-CJ-4908        TCGA-CJ-4912 
"CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" 
       TCGA-CJ-4913        TCGA-CJ-4916        TCGA-CJ-4918        TCGA-CJ-4920 
"CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" 
       TCGA-CJ-4923        TCGA-CJ-5671        TCGA-CJ-5672        TCGA-CJ-5675 
"CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" 
       TCGA-CJ-5676        TCGA-CJ-5677        TCGA-CJ-5678        TCGA-CJ-5679 
"CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" 
       TCGA-CJ-5680        TCGA-CJ-5681        TCGA-CJ-5682        TCGA-CJ-5683 
"CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" 
       TCGA-CJ-5684        TCGA-CJ-5686        TCGA-CJ-6027        TCGA-CJ-6028 
"CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" 
       TCGA-CJ-6030        TCGA-CJ-6031        TCGA-CJ-6032        TCGA-CJ-6033 
"CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" 
       TCGA-CW-5580        TCGA-CW-5581        TCGA-CW-5583        TCGA-CW-5585 
"CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" 
       TCGA-CW-5588        TCGA-CW-5589        TCGA-CW-5591        TCGA-CW-6087 
"CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" 
       TCGA-CW-6090        TCGA-CW-6093        TCGA-CW-6097        TCGA-CZ-4853 
"CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" 
       TCGA-CZ-4856        TCGA-CZ-4859        TCGA-CZ-4863        TCGA-CZ-4865 
"CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" 
       TCGA-CZ-4866        TCGA-CZ-5451        TCGA-CZ-5452        TCGA-CZ-5453 
"CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" 
       TCGA-CZ-5454        TCGA-CZ-5455        TCGA-CZ-5456        TCGA-CZ-5457 
"CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" 
       TCGA-CZ-5458        TCGA-CZ-5459        TCGA-CZ-5460        TCGA-CZ-5461 
"CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" 
       TCGA-CZ-5462        TCGA-CZ-5463        TCGA-CZ-5465        TCGA-CZ-5466 
"CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" 
       TCGA-CZ-5467        TCGA-CZ-5468        TCGA-CZ-5469        TCGA-CZ-5982 
"CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" 
       TCGA-CZ-5984        TCGA-CZ-5985        TCGA-CZ-5986        TCGA-CZ-5987 
"CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" 
       TCGA-CZ-5988        TCGA-CZ-5989        TCGA-DV-5565        TCGA-DV-5566 
"CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" 
       TCGA-DV-5568        TCGA-DV-5569        TCGA-DV-5574        TCGA-DV-5575 
"CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" 
       TCGA-DV-5576        TCGA-EU-5904        TCGA-EU-5905        TCGA-EU-5906 
"CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" 
       TCGA-EU-5907 
"CCDC120 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CCDC120 MUTATED        1      0      2      0      0      0
  CCDC120 WILD-TYPE     96     57     65     67     72     41
D13V5, multiclass
        clus
vv       CCDC120 MUTATED CCDC120 WILD-TYPE
  CLUS_1               1                96
  CLUS_2               0                57
  CLUS_3               2                65
  CLUS_4               0                67
  CLUS_5               0                72
  CLUS_6               0                41
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  CCDC120 MUTATED        1      1      1
  CCDC120 WILD-TYPE    106    177    115
D13V6, multiclass
        clus
vv       CCDC120 MUTATED CCDC120 WILD-TYPE
  CLUS_1               1               106
  CLUS_2               1               177
  CLUS_3               1               115
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  CCDC120 MUTATED        1      1      2
  CCDC120 WILD-TYPE     86    180    169
D13V7, multiclass
        clus
vv       CCDC120 MUTATED CCDC120 WILD-TYPE
  CLUS_1               1                86
  CLUS_2               1               180
  CLUS_3               2               169
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CCDC120 MUTATED        2      0      1      1      0      0
  CCDC120 WILD-TYPE    100     25    150    115     30     15
D13V8, multiclass
        clus
vv       CCDC120 MUTATED CCDC120 WILD-TYPE
  CLUS_1               2               100
  CLUS_2               0                25
  CLUS_3               1               150
  CLUS_4               1               115
  CLUS_5               0                30
  CLUS_6               0                15
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  CCDC120 MUTATED        1      1      2
  CCDC120 WILD-TYPE    100    174    153
D13V9, multiclass
        clus
vv       CCDC120 MUTATED CCDC120 WILD-TYPE
  CLUS_1               1               100
  CLUS_2               1               174
  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 CLUS_4
  CCDC120 MUTATED        1      1      2      0
  CCDC120 WILD-TYPE    117    114    161     35
D13V10, multiclass
        clus
vv       CCDC120 MUTATED CCDC120 WILD-TYPE
  CLUS_1               1               117
  CLUS_2               1               114
  CLUS_3               2               161
  CLUS_4               0                35
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CCDC120 MUTATED        0      0      0      2
  CCDC120 WILD-TYPE     16     20     43     26
D13V11, multiclass
[1] "Remove cluster labels:" "CCDC120 MUTATED"       
clus
  CCDC120 MUTATED CCDC120 WILD-TYPE 
                2               105 
       TCGA-A3-3317        TCGA-A3-3358        TCGA-A3-3387        TCGA-AK-3440 
"CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" 
       TCGA-AK-3458        TCGA-AK-3465        TCGA-B0-4700        TCGA-B0-4706 
"CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" 
       TCGA-B0-4710        TCGA-B0-4712        TCGA-B0-4810        TCGA-B0-4811 
"CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" 
       TCGA-B0-4836        TCGA-B0-4837        TCGA-B0-4852        TCGA-B0-5080 
"CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" 
       TCGA-B0-5085        TCGA-B0-5088        TCGA-B0-5399        TCGA-B0-5691 
"CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" 
       TCGA-B0-5692        TCGA-B0-5693        TCGA-B0-5694        TCGA-B0-5695 
"CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" 
       TCGA-B0-5696        TCGA-B0-5699        TCGA-B0-5702        TCGA-B0-5705 
"CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" 
       TCGA-B0-5709        TCGA-B2-3923        TCGA-B2-3924        TCGA-B2-5633 
"CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" 
       TCGA-B2-5635        TCGA-B4-5377        TCGA-B4-5836        TCGA-B8-4621 
"CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" 
       TCGA-B8-5545        TCGA-B8-5550        TCGA-B8-5551        TCGA-B8-5552 
"CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" 
       TCGA-B8-5553        TCGA-BP-4173        TCGA-BP-4340        TCGA-BP-4761 
"CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" 
       TCGA-BP-4770        TCGA-BP-4787        TCGA-BP-4789        TCGA-BP-4790 
"CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" 
       TCGA-BP-4804        TCGA-BP-4807        TCGA-BP-4961        TCGA-BP-4967 
"CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" 
       TCGA-BP-4968        TCGA-BP-4970        TCGA-BP-4974        TCGA-BP-4976 
"CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" 
       TCGA-BP-4981        TCGA-BP-4982        TCGA-BP-4985        TCGA-BP-4988 
"CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" 
       TCGA-BP-4989        TCGA-BP-4992        TCGA-BP-4995        TCGA-BP-4998 
"CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" 
       TCGA-BP-5001        TCGA-BP-5008        TCGA-BP-5009        TCGA-CJ-4870 
"CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" 
       TCGA-CJ-4875        TCGA-CJ-4878        TCGA-CJ-4881        TCGA-CJ-4887 
"CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" 
       TCGA-CJ-4889        TCGA-CJ-4890        TCGA-CJ-4895        TCGA-CJ-4900 
"CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" 
       TCGA-CJ-5671        TCGA-CJ-5675        TCGA-CJ-5676        TCGA-CJ-5681 
"CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" 
       TCGA-CJ-5683        TCGA-CJ-5686        TCGA-CJ-6031        TCGA-CJ-6032 
"CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" 
       TCGA-CW-5585        TCGA-CW-5589        TCGA-CW-6087        TCGA-CZ-4854 
"CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" 
       TCGA-CZ-4857        TCGA-CZ-4858        TCGA-CZ-5453        TCGA-CZ-5454 
"CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" 
       TCGA-CZ-5455        TCGA-CZ-5457        TCGA-CZ-5459        TCGA-CZ-5462 
"CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" 
       TCGA-CZ-5463        TCGA-CZ-5466        TCGA-CZ-5467        TCGA-CZ-5469 
"CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" 
       TCGA-CZ-5989        TCGA-DV-5565        TCGA-DV-5566        TCGA-DV-5569 
"CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" 
       TCGA-EU-5904 
"CCDC120 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  CCDC120 MUTATED        0      0      2
  CCDC120 WILD-TYPE     18     45     42
D13V12, multiclass
[1] "Remove cluster labels:" "CCDC120 MUTATED"       
clus
  CCDC120 MUTATED CCDC120 WILD-TYPE 
                2               105 
       TCGA-A3-3317        TCGA-A3-3358        TCGA-A3-3387        TCGA-AK-3440 
"CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" 
       TCGA-AK-3458        TCGA-AK-3465        TCGA-B0-4700        TCGA-B0-4706 
"CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" 
       TCGA-B0-4710        TCGA-B0-4712        TCGA-B0-4810        TCGA-B0-4811 
"CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" 
       TCGA-B0-4836        TCGA-B0-4837        TCGA-B0-4852        TCGA-B0-5080 
"CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" 
       TCGA-B0-5085        TCGA-B0-5088        TCGA-B0-5399        TCGA-B0-5691 
"CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" 
       TCGA-B0-5692        TCGA-B0-5693        TCGA-B0-5694        TCGA-B0-5695 
"CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" 
       TCGA-B0-5696        TCGA-B0-5699        TCGA-B0-5702        TCGA-B0-5705 
"CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" 
       TCGA-B0-5709        TCGA-B2-3923        TCGA-B2-3924        TCGA-B2-5633 
"CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" 
       TCGA-B2-5635        TCGA-B4-5377        TCGA-B4-5836        TCGA-B8-4621 
"CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" 
       TCGA-B8-5545        TCGA-B8-5550        TCGA-B8-5551        TCGA-B8-5552 
"CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" 
       TCGA-B8-5553        TCGA-BP-4173        TCGA-BP-4340        TCGA-BP-4761 
"CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" 
       TCGA-BP-4770        TCGA-BP-4787        TCGA-BP-4789        TCGA-BP-4790 
"CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" 
       TCGA-BP-4804        TCGA-BP-4807        TCGA-BP-4961        TCGA-BP-4967 
"CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" 
       TCGA-BP-4968        TCGA-BP-4970        TCGA-BP-4974        TCGA-BP-4976 
"CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" 
       TCGA-BP-4981        TCGA-BP-4982        TCGA-BP-4985        TCGA-BP-4988 
"CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" 
       TCGA-BP-4989        TCGA-BP-4992        TCGA-BP-4995        TCGA-BP-4998 
"CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" 
       TCGA-BP-5001        TCGA-BP-5008        TCGA-BP-5009        TCGA-CJ-4870 
"CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" 
       TCGA-CJ-4875        TCGA-CJ-4878        TCGA-CJ-4881        TCGA-CJ-4887 
"CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" 
       TCGA-CJ-4889        TCGA-CJ-4890        TCGA-CJ-4895        TCGA-CJ-4900 
"CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" 
       TCGA-CJ-5671        TCGA-CJ-5675        TCGA-CJ-5676        TCGA-CJ-5681 
"CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" 
       TCGA-CJ-5683        TCGA-CJ-5686        TCGA-CJ-6031        TCGA-CJ-6032 
"CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" 
       TCGA-CW-5585        TCGA-CW-5589        TCGA-CW-6087        TCGA-CZ-4854 
"CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" 
       TCGA-CZ-4857        TCGA-CZ-4858        TCGA-CZ-5453        TCGA-CZ-5454 
"CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" 
       TCGA-CZ-5455        TCGA-CZ-5457        TCGA-CZ-5459        TCGA-CZ-5462 
"CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" 
       TCGA-CZ-5463        TCGA-CZ-5466        TCGA-CZ-5467        TCGA-CZ-5469 
"CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" 
       TCGA-CZ-5989        TCGA-DV-5565        TCGA-DV-5566        TCGA-DV-5569 
"CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" "CCDC120 WILD-TYPE" 
       TCGA-EU-5904 
"CCDC120 WILD-TYPE" 

Clustering(14) Variable = PIK3CA MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PIK3CA MUTATED        0      0      0
  PIK3CA WILD-TYPE     21     17     10
D14V1, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  PIK3CA MUTATED        0      0      0      0      0      0      0
  PIK3CA WILD-TYPE      4      6      3     10     10      7      8
D14V2, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PIK3CA MUTATED        7      1      4
  PIK3CA WILD-TYPE    187    111    128
D14V3, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1              7              187
  CLUS_2              1              111
  CLUS_3              4              128
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PIK3CA MUTATED        3      0      3
  PIK3CA WILD-TYPE    101     62     94
D14V4, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1              3              101
  CLUS_2              0               62
  CLUS_3              3               94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PIK3CA MUTATED        4      1      1      2      3      0
  PIK3CA WILD-TYPE     93     56     66     65     69     41
D14V5, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1              4               93
  CLUS_2              1               56
  CLUS_3              1               66
  CLUS_4              2               65
  CLUS_5              3               69
  CLUS_6              0               41
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PIK3CA MUTATED        5      3      3
  PIK3CA WILD-TYPE    102    175    113
D14V6, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1              5              102
  CLUS_2              3              175
  CLUS_3              3              113
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PIK3CA MUTATED        0      6      6
  PIK3CA WILD-TYPE     87    175    165
D14V7, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1              0               87
  CLUS_2              6              175
  CLUS_3              6              165
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PIK3CA MUTATED        1      0      5      5      1      0
  PIK3CA WILD-TYPE    101     25    146    111     29     15
D14V8, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1              1              101
  CLUS_2              0               25
  CLUS_3              5              146
  CLUS_4              5              111
  CLUS_5              1               29
  CLUS_6              0               15
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PIK3CA MUTATED        3      4      5
  PIK3CA WILD-TYPE     98    171    150
D14V9, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1              3               98
  CLUS_2              4              171
  CLUS_3              5              150
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PIK3CA MUTATED        4      2      5      1
  PIK3CA WILD-TYPE    114    113    158     34
D14V10, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1              4              114
  CLUS_2              2              113
  CLUS_3              5              158
  CLUS_4              1               34
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PIK3CA MUTATED        0      0      0      0
  PIK3CA WILD-TYPE     16     20     43     28
D14V11, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PIK3CA MUTATED        0      0      0
  PIK3CA WILD-TYPE     18     45     44
D14V12, multiclass

Clustering(15) Variable = ATM MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  ATM MUTATED        1      0      0
  ATM WILD-TYPE     20     17     10
D15V1, multiclass
[1] "Remove cluster labels:" "ATM MUTATED"           
clus
  ATM MUTATED ATM WILD-TYPE 
            1            47 
   TCGA-A3-3311    TCGA-A3-3316    TCGA-A3-3317    TCGA-A3-3322    TCGA-A3-3323 
"ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" 
   TCGA-A3-3326    TCGA-A3-3331    TCGA-A3-3347    TCGA-A3-3349    TCGA-A3-3362 
"ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" 
   TCGA-A3-3363    TCGA-A3-3365    TCGA-A3-3374    TCGA-A3-3380    TCGA-A3-3383 
"ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" 
   TCGA-AK-3427    TCGA-AK-3440    TCGA-AK-3443    TCGA-AK-3453    TCGA-AK-3455 
"ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" 
   TCGA-AK-3456    TCGA-AK-3465    TCGA-AS-3777    TCGA-AS-3778    TCGA-B2-3923 
"ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" 
   TCGA-B2-3924    TCGA-B2-4098    TCGA-B2-4099    TCGA-B8-4143    TCGA-B8-4148 
"ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" 
   TCGA-B8-4151    TCGA-B8-4154    TCGA-B8-4619    TCGA-B8-4620    TCGA-BP-4161 
"ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" 
   TCGA-BP-4162    TCGA-BP-4163    TCGA-BP-4164    TCGA-BP-4167    TCGA-CJ-4634 
"ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" 
   TCGA-CJ-4636    TCGA-CJ-4637    TCGA-CJ-4638    TCGA-CJ-4640    TCGA-CJ-4641 
"ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" 
   TCGA-CJ-4643    TCGA-CJ-4644 
"ATM WILD-TYPE" "ATM WILD-TYPE" 
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  ATM MUTATED        0      0      0      0      1      0      0
  ATM WILD-TYPE      4      6      3     10      9      7      8
D15V2, multiclass
[1] "Remove cluster labels:" "ATM MUTATED"           
clus
  ATM MUTATED ATM WILD-TYPE 
            1            47 
   TCGA-A3-3311    TCGA-A3-3316    TCGA-A3-3317    TCGA-A3-3322    TCGA-A3-3323 
"ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" 
   TCGA-A3-3326    TCGA-A3-3331    TCGA-A3-3347    TCGA-A3-3349    TCGA-A3-3362 
"ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" 
   TCGA-A3-3363    TCGA-A3-3365    TCGA-A3-3374    TCGA-A3-3380    TCGA-A3-3383 
"ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" 
   TCGA-AK-3427    TCGA-AK-3440    TCGA-AK-3443    TCGA-AK-3453    TCGA-AK-3455 
"ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" 
   TCGA-AK-3456    TCGA-AK-3465    TCGA-AS-3777    TCGA-AS-3778    TCGA-B2-3923 
"ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" 
   TCGA-B2-3924    TCGA-B2-4098    TCGA-B2-4099    TCGA-B8-4143    TCGA-B8-4148 
"ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" 
   TCGA-B8-4151    TCGA-B8-4154    TCGA-B8-4619    TCGA-B8-4620    TCGA-BP-4161 
"ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" 
   TCGA-BP-4162    TCGA-BP-4163    TCGA-BP-4164    TCGA-BP-4167    TCGA-CJ-4634 
"ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" 
   TCGA-CJ-4636    TCGA-CJ-4637    TCGA-CJ-4638    TCGA-CJ-4640    TCGA-CJ-4641 
"ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" 
   TCGA-CJ-4643    TCGA-CJ-4644 
"ATM WILD-TYPE" "ATM WILD-TYPE" 
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  ATM MUTATED        6      3      3
  ATM WILD-TYPE    188    109    129
D15V3, multiclass
        clus
vv       ATM MUTATED ATM WILD-TYPE
  CLUS_1           6           188
  CLUS_2           3           109
  CLUS_3           3           129
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  ATM MUTATED        5      1      2
  ATM WILD-TYPE     99     61     95
D15V4, multiclass
        clus
vv       ATM MUTATED ATM WILD-TYPE
  CLUS_1           5            99
  CLUS_2           1            61
  CLUS_3           2            95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ATM MUTATED        3      1      0      3      3      1
  ATM WILD-TYPE     94     56     67     64     69     40
D15V5, multiclass
        clus
vv       ATM MUTATED ATM WILD-TYPE
  CLUS_1           3            94
  CLUS_2           1            56
  CLUS_3           0            67
  CLUS_4           3            64
  CLUS_5           3            69
  CLUS_6           1            40
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  ATM MUTATED        3      5      3
  ATM WILD-TYPE    104    173    113
D15V6, multiclass
        clus
vv       ATM MUTATED ATM WILD-TYPE
  CLUS_1           3           104
  CLUS_2           5           173
  CLUS_3           3           113
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  ATM MUTATED        0      7      5
  ATM WILD-TYPE     87    174    166
D15V7, multiclass
        clus
vv       ATM MUTATED ATM WILD-TYPE
  CLUS_1           0            87
  CLUS_2           7           174
  CLUS_3           5           166
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ATM MUTATED        1      0      8      2      1      0
  ATM WILD-TYPE    101     25    143    114     29     15
D15V8, multiclass
        clus
vv       ATM MUTATED ATM WILD-TYPE
  CLUS_1           1           101
  CLUS_2           0            25
  CLUS_3           8           143
  CLUS_4           2           114
  CLUS_5           1            29
  CLUS_6           0            15
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  ATM MUTATED        0      7      4
  ATM WILD-TYPE    101    168    151
D15V9, multiclass
        clus
vv       ATM MUTATED ATM WILD-TYPE
  CLUS_1           0           101
  CLUS_2           7           168
  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 CLUS_4
  ATM MUTATED        0      4      5      2
  ATM WILD-TYPE    118    111    158     33
D15V10, multiclass
        clus
vv       ATM MUTATED ATM WILD-TYPE
  CLUS_1           0           118
  CLUS_2           4           111
  CLUS_3           5           158
  CLUS_4           2            33
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ATM MUTATED        1      0      0      1
  ATM WILD-TYPE     15     20     43     27
D15V11, multiclass
[1] "Remove cluster labels:" "ATM MUTATED"           
clus
  ATM MUTATED ATM WILD-TYPE 
            2           105 
   TCGA-A3-3317    TCGA-A3-3358    TCGA-A3-3387    TCGA-AK-3440    TCGA-AK-3458 
"ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" 
   TCGA-AK-3465    TCGA-B0-4700    TCGA-B0-4706    TCGA-B0-4710    TCGA-B0-4712 
"ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" 
   TCGA-B0-4810    TCGA-B0-4811    TCGA-B0-4836    TCGA-B0-4837    TCGA-B0-4852 
"ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" 
   TCGA-B0-5080    TCGA-B0-5085    TCGA-B0-5088    TCGA-B0-5399    TCGA-B0-5691 
"ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" 
   TCGA-B0-5692    TCGA-B0-5693    TCGA-B0-5694    TCGA-B0-5695    TCGA-B0-5696 
"ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" 
   TCGA-B0-5699    TCGA-B0-5702    TCGA-B0-5705    TCGA-B0-5709    TCGA-B2-3923 
"ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" 
   TCGA-B2-3924    TCGA-B2-5633    TCGA-B2-5635    TCGA-B4-5377    TCGA-B4-5836 
"ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" 
   TCGA-B8-4621    TCGA-B8-5545    TCGA-B8-5550    TCGA-B8-5551    TCGA-B8-5552 
"ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" 
   TCGA-B8-5553    TCGA-BP-4173    TCGA-BP-4340    TCGA-BP-4761    TCGA-BP-4770 
"ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" 
   TCGA-BP-4787    TCGA-BP-4789    TCGA-BP-4790    TCGA-BP-4804    TCGA-BP-4807 
"ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" 
   TCGA-BP-4961    TCGA-BP-4967    TCGA-BP-4968    TCGA-BP-4970    TCGA-BP-4974 
"ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" 
   TCGA-BP-4976    TCGA-BP-4981    TCGA-BP-4982    TCGA-BP-4985    TCGA-BP-4988 
"ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" 
   TCGA-BP-4989    TCGA-BP-4992    TCGA-BP-4995    TCGA-BP-4998    TCGA-BP-5001 
"ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" 
   TCGA-BP-5008    TCGA-BP-5009    TCGA-CJ-4870    TCGA-CJ-4875    TCGA-CJ-4876 
"ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" 
   TCGA-CJ-4878    TCGA-CJ-4881    TCGA-CJ-4887    TCGA-CJ-4889    TCGA-CJ-4890 
"ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" 
   TCGA-CJ-4895    TCGA-CJ-5671    TCGA-CJ-5675    TCGA-CJ-5676    TCGA-CJ-5681 
"ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" 
   TCGA-CJ-5683    TCGA-CJ-6031    TCGA-CJ-6032    TCGA-CW-5585    TCGA-CW-5589 
"ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" 
   TCGA-CW-6087    TCGA-CZ-4854    TCGA-CZ-4857    TCGA-CZ-4858    TCGA-CZ-5453 
"ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" 
   TCGA-CZ-5454    TCGA-CZ-5455    TCGA-CZ-5457    TCGA-CZ-5459    TCGA-CZ-5462 
"ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" 
   TCGA-CZ-5463    TCGA-CZ-5466    TCGA-CZ-5467    TCGA-CZ-5469    TCGA-CZ-5470 
"ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" 
   TCGA-CZ-5989    TCGA-DV-5565    TCGA-DV-5566    TCGA-DV-5569    TCGA-EU-5904 
"ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" 
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  ATM MUTATED        1      0      1
  ATM WILD-TYPE     17     45     43
D15V12, multiclass
[1] "Remove cluster labels:" "ATM MUTATED"           
clus
  ATM MUTATED ATM WILD-TYPE 
            2           105 
   TCGA-A3-3317    TCGA-A3-3358    TCGA-A3-3387    TCGA-AK-3440    TCGA-AK-3458 
"ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" 
   TCGA-AK-3465    TCGA-B0-4700    TCGA-B0-4706    TCGA-B0-4710    TCGA-B0-4712 
"ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" 
   TCGA-B0-4810    TCGA-B0-4811    TCGA-B0-4836    TCGA-B0-4837    TCGA-B0-4852 
"ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" 
   TCGA-B0-5080    TCGA-B0-5085    TCGA-B0-5088    TCGA-B0-5399    TCGA-B0-5691 
"ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" 
   TCGA-B0-5692    TCGA-B0-5693    TCGA-B0-5694    TCGA-B0-5695    TCGA-B0-5696 
"ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" 
   TCGA-B0-5699    TCGA-B0-5702    TCGA-B0-5705    TCGA-B0-5709    TCGA-B2-3923 
"ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" 
   TCGA-B2-3924    TCGA-B2-5633    TCGA-B2-5635    TCGA-B4-5377    TCGA-B4-5836 
"ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" 
   TCGA-B8-4621    TCGA-B8-5545    TCGA-B8-5550    TCGA-B8-5551    TCGA-B8-5552 
"ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" 
   TCGA-B8-5553    TCGA-BP-4173    TCGA-BP-4340    TCGA-BP-4761    TCGA-BP-4770 
"ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" 
   TCGA-BP-4787    TCGA-BP-4789    TCGA-BP-4790    TCGA-BP-4804    TCGA-BP-4807 
"ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" 
   TCGA-BP-4961    TCGA-BP-4967    TCGA-BP-4968    TCGA-BP-4970    TCGA-BP-4974 
"ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" 
   TCGA-BP-4976    TCGA-BP-4981    TCGA-BP-4982    TCGA-BP-4985    TCGA-BP-4988 
"ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" 
   TCGA-BP-4989    TCGA-BP-4992    TCGA-BP-4995    TCGA-BP-4998    TCGA-BP-5001 
"ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" 
   TCGA-BP-5008    TCGA-BP-5009    TCGA-CJ-4870    TCGA-CJ-4875    TCGA-CJ-4876 
"ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" 
   TCGA-CJ-4878    TCGA-CJ-4881    TCGA-CJ-4887    TCGA-CJ-4889    TCGA-CJ-4890 
"ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" 
   TCGA-CJ-4895    TCGA-CJ-5671    TCGA-CJ-5675    TCGA-CJ-5676    TCGA-CJ-5681 
"ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" 
   TCGA-CJ-5683    TCGA-CJ-6031    TCGA-CJ-6032    TCGA-CW-5585    TCGA-CW-5589 
"ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" 
   TCGA-CW-6087    TCGA-CZ-4854    TCGA-CZ-4857    TCGA-CZ-4858    TCGA-CZ-5453 
"ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" 
   TCGA-CZ-5454    TCGA-CZ-5455    TCGA-CZ-5457    TCGA-CZ-5459    TCGA-CZ-5462 
"ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" 
   TCGA-CZ-5463    TCGA-CZ-5466    TCGA-CZ-5467    TCGA-CZ-5469    TCGA-CZ-5470 
"ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" 
   TCGA-CZ-5989    TCGA-DV-5565    TCGA-DV-5566    TCGA-DV-5569    TCGA-EU-5904 
"ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" 

Clustering(16) Variable = KIAA1751 MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  KIAA1751 MUTATED        0      0      0
  KIAA1751 WILD-TYPE     21     17     10
D16V1, multiclass
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  KIAA1751 MUTATED        0      0      0      0      0      0      0
  KIAA1751 WILD-TYPE      4      6      3     10     10      7      8
D16V2, multiclass
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  KIAA1751 MUTATED        2      1      3
  KIAA1751 WILD-TYPE    192    111    129
D16V3, multiclass
        clus
vv       KIAA1751 MUTATED KIAA1751 WILD-TYPE
  CLUS_1                2                192
  CLUS_2                1                111
  CLUS_3                3                129
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  KIAA1751 MUTATED        3      0      2
  KIAA1751 WILD-TYPE    101     62     95
D16V4, multiclass
        clus
vv       KIAA1751 MUTATED KIAA1751 WILD-TYPE
  CLUS_1                3                101
  CLUS_2                0                 62
  CLUS_3                2                 95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  KIAA1751 MUTATED        2      0      1      2      0      0
  KIAA1751 WILD-TYPE     95     57     66     65     72     41
D16V5, multiclass
        clus
vv       KIAA1751 MUTATED KIAA1751 WILD-TYPE
  CLUS_1                2                 95
  CLUS_2                0                 57
  CLUS_3                1                 66
  CLUS_4                2                 65
  CLUS_5                0                 72
  CLUS_6                0                 41
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  KIAA1751 MUTATED        2      0      3
  KIAA1751 WILD-TYPE    105    178    113
D16V6, multiclass
        clus
vv       KIAA1751 MUTATED KIAA1751 WILD-TYPE
  CLUS_1                2                105
  CLUS_2                0                178
  CLUS_3                3                113
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  KIAA1751 MUTATED        2      2      1
  KIAA1751 WILD-TYPE     85    179    170
D16V7, multiclass
        clus
vv       KIAA1751 MUTATED KIAA1751 WILD-TYPE
  CLUS_1                2                 85
  CLUS_2                2                179
  CLUS_3                1                170
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  KIAA1751 MUTATED        3      0      1      1      0      0
  KIAA1751 WILD-TYPE     99     25    150    115     30     15
D16V8, multiclass
        clus
vv       KIAA1751 MUTATED KIAA1751 WILD-TYPE
  CLUS_1                3                 99
  CLUS_2                0                 25
  CLUS_3                1                150
  CLUS_4                1                115
  CLUS_5                0                 30
  CLUS_6                0                 15
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  KIAA1751 MUTATED        0      4      2
  KIAA1751 WILD-TYPE    101    171    153
D16V9, multiclass
        clus
vv       KIAA1751 MUTATED KIAA1751 WILD-TYPE
  CLUS_1                0                101
  CLUS_2                4                171
  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 CLUS_4
  KIAA1751 MUTATED        0      3      3      0
  KIAA1751 WILD-TYPE    118    112    160     35
D16V10, multiclass
        clus
vv       KIAA1751 MUTATED KIAA1751 WILD-TYPE
  CLUS_1                0                118
  CLUS_2                3                112
  CLUS_3                3                160
  CLUS_4                0                 35
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KIAA1751 MUTATED        0      0      1      0
  KIAA1751 WILD-TYPE     16     20     42     28
D16V11, multiclass
[1] "Remove cluster labels:" "KIAA1751 MUTATED"      
clus
  KIAA1751 MUTATED KIAA1751 WILD-TYPE 
                 1                106 
        TCGA-A3-3317         TCGA-A3-3358         TCGA-A3-3387 
"KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" 
        TCGA-AK-3440         TCGA-AK-3458         TCGA-AK-3465 
"KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" 
        TCGA-B0-4700         TCGA-B0-4706         TCGA-B0-4710 
"KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" 
        TCGA-B0-4712         TCGA-B0-4810         TCGA-B0-4811 
"KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" 
        TCGA-B0-4836         TCGA-B0-4837         TCGA-B0-4852 
"KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" 
        TCGA-B0-5080         TCGA-B0-5085         TCGA-B0-5088 
"KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" 
        TCGA-B0-5399         TCGA-B0-5691         TCGA-B0-5692 
"KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" 
        TCGA-B0-5693         TCGA-B0-5694         TCGA-B0-5695 
"KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" 
        TCGA-B0-5696         TCGA-B0-5699         TCGA-B0-5702 
"KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" 
        TCGA-B0-5705         TCGA-B0-5709         TCGA-B2-3923 
"KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" 
        TCGA-B2-3924         TCGA-B2-5633         TCGA-B2-5635 
"KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" 
        TCGA-B4-5377         TCGA-B4-5836         TCGA-B8-4621 
"KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" 
        TCGA-B8-5545         TCGA-B8-5550         TCGA-B8-5551 
"KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" 
        TCGA-B8-5552         TCGA-B8-5553         TCGA-BP-4173 
"KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" 
        TCGA-BP-4340         TCGA-BP-4761         TCGA-BP-4770 
"KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" 
        TCGA-BP-4787         TCGA-BP-4789         TCGA-BP-4790 
"KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" 
        TCGA-BP-4804         TCGA-BP-4807         TCGA-BP-4961 
"KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" 
        TCGA-BP-4967         TCGA-BP-4968         TCGA-BP-4970 
"KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" 
        TCGA-BP-4974         TCGA-BP-4976         TCGA-BP-4981 
"KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" 
        TCGA-BP-4982         TCGA-BP-4985         TCGA-BP-4988 
"KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" 
        TCGA-BP-4989         TCGA-BP-4992         TCGA-BP-4995 
"KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" 
        TCGA-BP-4998         TCGA-BP-5001         TCGA-BP-5008 
"KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" 
        TCGA-BP-5009         TCGA-CJ-4870         TCGA-CJ-4875 
"KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" 
        TCGA-CJ-4876         TCGA-CJ-4878         TCGA-CJ-4881 
"KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" 
        TCGA-CJ-4887         TCGA-CJ-4889         TCGA-CJ-4890 
"KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" 
        TCGA-CJ-4895         TCGA-CJ-4900         TCGA-CJ-5671 
"KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" 
        TCGA-CJ-5675         TCGA-CJ-5676         TCGA-CJ-5681 
"KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" 
        TCGA-CJ-5683         TCGA-CJ-5686         TCGA-CJ-6031 
"KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" 
        TCGA-CJ-6032         TCGA-CW-5585         TCGA-CW-5589 
"KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" 
        TCGA-CW-6087         TCGA-CZ-4854         TCGA-CZ-4857 
"KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" 
        TCGA-CZ-4858         TCGA-CZ-5453         TCGA-CZ-5454 
"KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" 
        TCGA-CZ-5455         TCGA-CZ-5457         TCGA-CZ-5459 
"KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" 
        TCGA-CZ-5462         TCGA-CZ-5463         TCGA-CZ-5466 
"KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" 
        TCGA-CZ-5469         TCGA-CZ-5470         TCGA-CZ-5989 
"KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" 
        TCGA-DV-5565         TCGA-DV-5566         TCGA-DV-5569 
"KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" 
        TCGA-EU-5904 
"KIAA1751 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  KIAA1751 MUTATED        0      0      1
  KIAA1751 WILD-TYPE     18     45     43
D16V12, multiclass
[1] "Remove cluster labels:" "KIAA1751 MUTATED"      
clus
  KIAA1751 MUTATED KIAA1751 WILD-TYPE 
                 1                106 
        TCGA-A3-3317         TCGA-A3-3358         TCGA-A3-3387 
"KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" 
        TCGA-AK-3440         TCGA-AK-3458         TCGA-AK-3465 
"KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" 
        TCGA-B0-4700         TCGA-B0-4706         TCGA-B0-4710 
"KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" 
        TCGA-B0-4712         TCGA-B0-4810         TCGA-B0-4811 
"KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" 
        TCGA-B0-4836         TCGA-B0-4837         TCGA-B0-4852 
"KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" 
        TCGA-B0-5080         TCGA-B0-5085         TCGA-B0-5088 
"KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" 
        TCGA-B0-5399         TCGA-B0-5691         TCGA-B0-5692 
"KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" 
        TCGA-B0-5693         TCGA-B0-5694         TCGA-B0-5695 
"KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" 
        TCGA-B0-5696         TCGA-B0-5699         TCGA-B0-5702 
"KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" 
        TCGA-B0-5705         TCGA-B0-5709         TCGA-B2-3923 
"KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" 
        TCGA-B2-3924         TCGA-B2-5633         TCGA-B2-5635 
"KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" 
        TCGA-B4-5377         TCGA-B4-5836         TCGA-B8-4621 
"KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" 
        TCGA-B8-5545         TCGA-B8-5550         TCGA-B8-5551 
"KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" 
        TCGA-B8-5552         TCGA-B8-5553         TCGA-BP-4173 
"KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" 
        TCGA-BP-4340         TCGA-BP-4761         TCGA-BP-4770 
"KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" 
        TCGA-BP-4787         TCGA-BP-4789         TCGA-BP-4790 
"KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" 
        TCGA-BP-4804         TCGA-BP-4807         TCGA-BP-4961 
"KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" 
        TCGA-BP-4967         TCGA-BP-4968         TCGA-BP-4970 
"KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" 
        TCGA-BP-4974         TCGA-BP-4976         TCGA-BP-4981 
"KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" 
        TCGA-BP-4982         TCGA-BP-4985         TCGA-BP-4988 
"KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" 
        TCGA-BP-4989         TCGA-BP-4992         TCGA-BP-4995 
"KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" 
        TCGA-BP-4998         TCGA-BP-5001         TCGA-BP-5008 
"KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" 
        TCGA-BP-5009         TCGA-CJ-4870         TCGA-CJ-4875 
"KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" 
        TCGA-CJ-4876         TCGA-CJ-4878         TCGA-CJ-4881 
"KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" 
        TCGA-CJ-4887         TCGA-CJ-4889         TCGA-CJ-4890 
"KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" 
        TCGA-CJ-4895         TCGA-CJ-4900         TCGA-CJ-5671 
"KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" 
        TCGA-CJ-5675         TCGA-CJ-5676         TCGA-CJ-5681 
"KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" 
        TCGA-CJ-5683         TCGA-CJ-5686         TCGA-CJ-6031 
"KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" 
        TCGA-CJ-6032         TCGA-CW-5585         TCGA-CW-5589 
"KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" 
        TCGA-CW-6087         TCGA-CZ-4854         TCGA-CZ-4857 
"KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" 
        TCGA-CZ-4858         TCGA-CZ-5453         TCGA-CZ-5454 
"KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" 
        TCGA-CZ-5455         TCGA-CZ-5457         TCGA-CZ-5459 
"KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" 
        TCGA-CZ-5462         TCGA-CZ-5463         TCGA-CZ-5466 
"KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" 
        TCGA-CZ-5469         TCGA-CZ-5470         TCGA-CZ-5989 
"KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" 
        TCGA-DV-5565         TCGA-DV-5566         TCGA-DV-5569 
"KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" "KIAA1751 WILD-TYPE" 
        TCGA-EU-5904 
"KIAA1751 WILD-TYPE" 

Clustering(17) Variable = GUSB MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GUSB MUTATED        0      0      0
  GUSB WILD-TYPE     21     17     10
D17V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  GUSB MUTATED        0      0      0      0      0      0      0
  GUSB WILD-TYPE      4      6      3     10     10      7      8
D17V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GUSB MUTATED        3      0      1
  GUSB WILD-TYPE    191    112    131
D17V3, multiclass
        clus
vv       GUSB MUTATED GUSB WILD-TYPE
  CLUS_1            3            191
  CLUS_2            0            112
  CLUS_3            1            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
  GUSB MUTATED        0      0      2
  GUSB WILD-TYPE    104     62     95
D17V4, multiclass
[1] "Remove cluster labels:" "GUSB MUTATED"          
clus
  GUSB MUTATED GUSB WILD-TYPE 
             2            261 
    TCGA-A3-3357     TCGA-A3-3358     TCGA-A3-3367     TCGA-A3-3370 
"GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" 
    TCGA-A3-3373     TCGA-A3-3376     TCGA-A3-3385     TCGA-A3-3387 
"GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" 
    TCGA-AK-3425     TCGA-AK-3428     TCGA-AK-3431     TCGA-AK-3434 
"GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" 
    TCGA-AK-3440     TCGA-AK-3445     TCGA-AK-3450     TCGA-AK-3453 
"GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" 
    TCGA-AK-3454     TCGA-AK-3458     TCGA-AK-3460     TCGA-AK-3461 
"GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" 
    TCGA-B0-4690     TCGA-B0-4691     TCGA-B0-4693     TCGA-B0-4694 
"GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" 
    TCGA-B0-4697     TCGA-B0-4700     TCGA-B0-4703     TCGA-B0-4706 
"GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" 
    TCGA-B0-4707     TCGA-B0-4710     TCGA-B0-4712     TCGA-B0-4713 
"GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" 
    TCGA-B0-4714     TCGA-B0-4718     TCGA-B0-4810     TCGA-B0-4811 
"GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" 
    TCGA-B0-4813     TCGA-B0-4814     TCGA-B0-4815     TCGA-B0-4816 
"GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" 
    TCGA-B0-4817     TCGA-B0-4818     TCGA-B0-4819     TCGA-B0-4822 
"GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" 
    TCGA-B0-4823     TCGA-B0-4824     TCGA-B0-4827     TCGA-B0-4828 
"GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" 
    TCGA-B0-4841     TCGA-B0-4842     TCGA-B0-4843     TCGA-B0-4844 
"GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" 
    TCGA-B0-4845     TCGA-B0-4846     TCGA-B0-4847     TCGA-B0-4848 
"GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" 
    TCGA-B0-4849     TCGA-B0-4852     TCGA-B0-4945     TCGA-B0-5080 
"GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" 
    TCGA-B0-5083     TCGA-B0-5092     TCGA-B0-5094     TCGA-B0-5096 
"GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" 
    TCGA-B0-5097     TCGA-B0-5098     TCGA-B0-5099     TCGA-B0-5100 
"GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" 
    TCGA-B0-5102     TCGA-B0-5104     TCGA-B0-5106     TCGA-B0-5107 
"GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" 
    TCGA-B0-5108     TCGA-B0-5109     TCGA-B0-5110     TCGA-B0-5113 
"GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" 
    TCGA-B0-5115     TCGA-B0-5116     TCGA-B0-5117     TCGA-B0-5119 
"GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" 
    TCGA-B0-5120     TCGA-B0-5121     TCGA-B0-5399     TCGA-B0-5400 
"GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" 
    TCGA-B0-5402     TCGA-B0-5691     TCGA-B0-5692     TCGA-B0-5693 
"GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" 
    TCGA-B0-5694     TCGA-B0-5695     TCGA-B0-5696     TCGA-B0-5697 
"GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" 
    TCGA-B0-5698     TCGA-B0-5699     TCGA-B0-5701     TCGA-B0-5702 
"GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" 
    TCGA-B0-5703     TCGA-B0-5705     TCGA-B0-5706     TCGA-B0-5707 
"GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" 
    TCGA-B0-5709     TCGA-B0-5710     TCGA-B0-5711     TCGA-B0-5712 
"GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" 
    TCGA-B0-5713     TCGA-B0-5812     TCGA-B2-3924     TCGA-B2-4101 
"GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" 
    TCGA-B2-5633     TCGA-B2-5635     TCGA-B2-5641     TCGA-B4-5377 
"GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" 
    TCGA-B4-5832     TCGA-B4-5834     TCGA-B4-5835     TCGA-B4-5836 
"GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" 
    TCGA-B4-5838     TCGA-B4-5843     TCGA-B4-5844     TCGA-B8-4146 
"GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" 
    TCGA-B8-4153     TCGA-B8-4621     TCGA-B8-4622     TCGA-B8-5158 
"GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" 
    TCGA-B8-5159     TCGA-B8-5162     TCGA-B8-5163     TCGA-B8-5164 
"GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" 
    TCGA-B8-5165     TCGA-B8-5545     TCGA-B8-5546     TCGA-B8-5549 
"GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" 
    TCGA-B8-5550     TCGA-B8-5551     TCGA-B8-5552     TCGA-B8-5553 
"GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" 
    TCGA-BP-4177     TCGA-BP-4760     TCGA-BP-4770     TCGA-BP-4782 
"GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" 
    TCGA-BP-4795     TCGA-BP-4801     TCGA-BP-4993     TCGA-BP-5010 
"GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" 
    TCGA-BP-5168     TCGA-BP-5169     TCGA-BP-5170     TCGA-BP-5173 
"GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" 
    TCGA-BP-5174     TCGA-BP-5175     TCGA-BP-5176     TCGA-BP-5177 
"GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" 
    TCGA-BP-5178     TCGA-BP-5180     TCGA-BP-5181     TCGA-BP-5182 
"GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" 
    TCGA-BP-5183     TCGA-BP-5184     TCGA-BP-5185     TCGA-BP-5186 
"GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" 
    TCGA-BP-5187     TCGA-BP-5189     TCGA-BP-5190     TCGA-BP-5191 
"GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" 
    TCGA-BP-5192     TCGA-BP-5194     TCGA-BP-5195     TCGA-BP-5196 
"GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" 
    TCGA-BP-5198     TCGA-BP-5199     TCGA-BP-5200     TCGA-BP-5201 
"GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" 
    TCGA-BP-5202     TCGA-CJ-4869     TCGA-CJ-4882     TCGA-CJ-4897 
"GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" 
    TCGA-CJ-4901     TCGA-CJ-4903     TCGA-CJ-4904     TCGA-CJ-4905 
"GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" 
    TCGA-CJ-4907     TCGA-CJ-4908     TCGA-CJ-4912     TCGA-CJ-4913 
"GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" 
    TCGA-CJ-4916     TCGA-CJ-4918     TCGA-CJ-4920     TCGA-CJ-4923 
"GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" 
    TCGA-CJ-5671     TCGA-CJ-5672     TCGA-CJ-5675     TCGA-CJ-5676 
"GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" 
    TCGA-CJ-5677     TCGA-CJ-5678     TCGA-CJ-5679     TCGA-CJ-5680 
"GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" 
    TCGA-CJ-5681     TCGA-CJ-5682     TCGA-CJ-5683     TCGA-CJ-5684 
"GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" 
    TCGA-CJ-5686     TCGA-CJ-6027     TCGA-CJ-6028     TCGA-CJ-6030 
"GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" 
    TCGA-CJ-6031     TCGA-CJ-6032     TCGA-CJ-6033     TCGA-CW-5580 
"GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" 
    TCGA-CW-5581     TCGA-CW-5583     TCGA-CW-5585     TCGA-CW-5588 
"GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" 
    TCGA-CW-5589     TCGA-CW-5591     TCGA-CW-6087     TCGA-CW-6090 
"GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" 
    TCGA-CW-6093     TCGA-CW-6097     TCGA-CZ-4853     TCGA-CZ-4856 
"GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" 
    TCGA-CZ-4859     TCGA-CZ-4863     TCGA-CZ-4865     TCGA-CZ-4866 
"GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" 
    TCGA-CZ-5451     TCGA-CZ-5452     TCGA-CZ-5453     TCGA-CZ-5454 
"GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" 
    TCGA-CZ-5455     TCGA-CZ-5456     TCGA-CZ-5457     TCGA-CZ-5458 
"GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" 
    TCGA-CZ-5459     TCGA-CZ-5460     TCGA-CZ-5461     TCGA-CZ-5462 
"GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" 
    TCGA-CZ-5463     TCGA-CZ-5465     TCGA-CZ-5466     TCGA-CZ-5467 
"GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" 
    TCGA-CZ-5468     TCGA-CZ-5469     TCGA-CZ-5470     TCGA-CZ-5982 
"GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" 
    TCGA-CZ-5984     TCGA-CZ-5985     TCGA-CZ-5986     TCGA-CZ-5987 
"GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" 
    TCGA-CZ-5988     TCGA-CZ-5989     TCGA-DV-5565     TCGA-DV-5566 
"GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" 
    TCGA-DV-5568     TCGA-DV-5569     TCGA-DV-5574     TCGA-DV-5575 
"GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" 
    TCGA-DV-5576     TCGA-EU-5904     TCGA-EU-5905     TCGA-EU-5906 
"GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" "GUSB WILD-TYPE" 
    TCGA-EU-5907 
"GUSB WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  GUSB MUTATED        0      0      1      0      2      0
  GUSB WILD-TYPE     97     57     66     67     70     41
D17V5, multiclass
        clus
vv       GUSB MUTATED GUSB WILD-TYPE
  CLUS_1            0             97
  CLUS_2            0             57
  CLUS_3            1             66
  CLUS_4            0             67
  CLUS_5            2             70
  CLUS_6            0             41
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GUSB MUTATED        1      2      0
  GUSB WILD-TYPE    106    176    116
D17V6, multiclass
        clus
vv       GUSB MUTATED GUSB WILD-TYPE
  CLUS_1            1            106
  CLUS_2            2            176
  CLUS_3            0            116
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GUSB MUTATED        1      0      3
  GUSB WILD-TYPE     86    181    168
D17V7, multiclass
        clus
vv       GUSB MUTATED GUSB WILD-TYPE
  CLUS_1            1             86
  CLUS_2            0            181
  CLUS_3            3            168
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  GUSB MUTATED        1      0      0      2      1      0
  GUSB WILD-TYPE    101     25    151    114     29     15
D17V8, multiclass
        clus
vv       GUSB MUTATED GUSB WILD-TYPE
  CLUS_1            1            101
  CLUS_2            0             25
  CLUS_3            0            151
  CLUS_4            2            114
  CLUS_5            1             29
  CLUS_6            0             15
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GUSB MUTATED        2      1      1
  GUSB WILD-TYPE     99    174    154
D17V9, multiclass
        clus
vv       GUSB MUTATED GUSB WILD-TYPE
  CLUS_1            2             99
  CLUS_2            1            174
  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 CLUS_4
  GUSB MUTATED        2      1      1      0
  GUSB WILD-TYPE    116    114    162     35
D17V10, multiclass
        clus
vv       GUSB MUTATED GUSB WILD-TYPE
  CLUS_1            2            116
  CLUS_2            1            114
  CLUS_3            1            162
  CLUS_4            0             35
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GUSB MUTATED        0      0      0      0
  GUSB WILD-TYPE     16     20     43     28
D17V11, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GUSB MUTATED        0      0      0
  GUSB WILD-TYPE     18     45     44
D17V12, multiclass

Clustering(18) Variable = ARID1A MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ARID1A MUTATED        0      0      0
  ARID1A WILD-TYPE     21     17     10
D18V1, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  ARID1A MUTATED        0      0      0      0      0      0      0
  ARID1A WILD-TYPE      4      6      3     10     10      7      8
D18V2, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ARID1A MUTATED        5      2      4
  ARID1A WILD-TYPE    189    110    128
D18V3, multiclass
        clus
vv       ARID1A MUTATED ARID1A WILD-TYPE
  CLUS_1              5              189
  CLUS_2              2              110
  CLUS_3              4              128
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ARID1A MUTATED        5      2      1
  ARID1A WILD-TYPE     99     60     96
D18V4, multiclass
        clus
vv       ARID1A MUTATED ARID1A WILD-TYPE
  CLUS_1              5               99
  CLUS_2              2               60
  CLUS_3              1               96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ARID1A MUTATED        3      1      1      2      3      1
  ARID1A WILD-TYPE     94     56     66     65     69     40
D18V5, multiclass
        clus
vv       ARID1A MUTATED ARID1A WILD-TYPE
  CLUS_1              3               94
  CLUS_2              1               56
  CLUS_3              1               66
  CLUS_4              2               65
  CLUS_5              3               69
  CLUS_6              1               40
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ARID1A MUTATED        3      5      3
  ARID1A WILD-TYPE    104    173    113
D18V6, multiclass
        clus
vv       ARID1A MUTATED ARID1A WILD-TYPE
  CLUS_1              3              104
  CLUS_2              5              173
  CLUS_3              3              113
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ARID1A MUTATED        1      6      4
  ARID1A WILD-TYPE     86    175    167
D18V7, multiclass
        clus
vv       ARID1A MUTATED ARID1A WILD-TYPE
  CLUS_1              1               86
  CLUS_2              6              175
  CLUS_3              4              167
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ARID1A MUTATED        2      0      5      3      1      0
  ARID1A WILD-TYPE    100     25    146    113     29     15
D18V8, multiclass
        clus
vv       ARID1A MUTATED ARID1A WILD-TYPE
  CLUS_1              2              100
  CLUS_2              0               25
  CLUS_3              5              146
  CLUS_4              3              113
  CLUS_5              1               29
  CLUS_6              0               15
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ARID1A MUTATED        1      6      4
  ARID1A WILD-TYPE    100    169    151
D18V9, multiclass
        clus
vv       ARID1A MUTATED ARID1A WILD-TYPE
  CLUS_1              1              100
  CLUS_2              6              169
  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 CLUS_4
  ARID1A MUTATED        1      1      8      1
  ARID1A WILD-TYPE    117    114    155     34
D18V10, multiclass
        clus
vv       ARID1A MUTATED ARID1A WILD-TYPE
  CLUS_1              1              117
  CLUS_2              1              114
  CLUS_3              8              155
  CLUS_4              1               34
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ARID1A MUTATED        1      0      2      0
  ARID1A WILD-TYPE     15     20     41     28
D18V11, multiclass
        clus
vv       ARID1A MUTATED ARID1A WILD-TYPE
  CLUS_1              1               15
  CLUS_2              0               20
  CLUS_3              2               41
  CLUS_4              0               28
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ARID1A MUTATED        1      0      2
  ARID1A WILD-TYPE     17     45     42
D18V12, multiclass
        clus
vv       ARID1A MUTATED ARID1A WILD-TYPE
  CLUS_1              1               17
  CLUS_2              0               45
  CLUS_3              2               42
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(19) Variable = GPR50 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GPR50 MUTATED        0      0      0
  GPR50 WILD-TYPE     21     17     10
D19V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  GPR50 MUTATED        0      0      0      0      0      0      0
  GPR50 WILD-TYPE      4      6      3     10     10      7      8
D19V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GPR50 MUTATED        0      2      1
  GPR50 WILD-TYPE    194    110    131
D19V3, multiclass
        clus
vv       GPR50 MUTATED GPR50 WILD-TYPE
  CLUS_1             0             194
  CLUS_2             2             110
  CLUS_3             1             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
  GPR50 MUTATED        1      2      0
  GPR50 WILD-TYPE    103     60     97
D19V4, multiclass
        clus
vv       GPR50 MUTATED GPR50 WILD-TYPE
  CLUS_1             1             103
  CLUS_2             2              60
  CLUS_3             0              97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  GPR50 MUTATED        0      0      0      2      0      1
  GPR50 WILD-TYPE     97     57     67     65     72     40
D19V5, multiclass
        clus
vv       GPR50 MUTATED GPR50 WILD-TYPE
  CLUS_1             0              97
  CLUS_2             0              57
  CLUS_3             0              67
  CLUS_4             2              65
  CLUS_5             0              72
  CLUS_6             1              40
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GPR50 MUTATED        0      2      1
  GPR50 WILD-TYPE    107    176    115
D19V6, multiclass
        clus
vv       GPR50 MUTATED GPR50 WILD-TYPE
  CLUS_1             0             107
  CLUS_2             2             176
  CLUS_3             1             115
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GPR50 MUTATED        1      1      1
  GPR50 WILD-TYPE     86    180    170
D19V7, multiclass
        clus
vv       GPR50 MUTATED GPR50 WILD-TYPE
  CLUS_1             1              86
  CLUS_2             1             180
  CLUS_3             1             170
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  GPR50 MUTATED        0      0      1      1      0      1
  GPR50 WILD-TYPE    102     25    150    115     30     14
D19V8, multiclass
        clus
vv       GPR50 MUTATED GPR50 WILD-TYPE
  CLUS_1             0             102
  CLUS_2             0              25
  CLUS_3             1             150
  CLUS_4             1             115
  CLUS_5             0              30
  CLUS_6             1              14
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GPR50 MUTATED        2      0      1
  GPR50 WILD-TYPE     99    175    154
D19V9, multiclass
        clus
vv       GPR50 MUTATED GPR50 WILD-TYPE
  CLUS_1             2              99
  CLUS_2             0             175
  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 CLUS_4
  GPR50 MUTATED        2      1      0      0
  GPR50 WILD-TYPE    116    114    163     35
D19V10, multiclass
        clus
vv       GPR50 MUTATED GPR50 WILD-TYPE
  CLUS_1             2             116
  CLUS_2             1             114
  CLUS_3             0             163
  CLUS_4             0              35
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GPR50 MUTATED        0      0      0      0
  GPR50 WILD-TYPE     16     20     43     28
D19V11, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GPR50 MUTATED        0      0      0
  GPR50 WILD-TYPE     18     45     44
D19V12, multiclass

Clustering(20) Variable = PCK1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PCK1 MUTATED        1      0      0
  PCK1 WILD-TYPE     20     17     10
D20V1, multiclass
[1] "Remove cluster labels:" "PCK1 MUTATED"          
clus
  PCK1 MUTATED PCK1 WILD-TYPE 
             1             47 
    TCGA-A3-3311     TCGA-A3-3316     TCGA-A3-3317     TCGA-A3-3322 
"PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" 
    TCGA-A3-3323     TCGA-A3-3331     TCGA-A3-3347     TCGA-A3-3349 
"PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" 
    TCGA-A3-3362     TCGA-A3-3363     TCGA-A3-3365     TCGA-A3-3374 
"PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" 
    TCGA-A3-3380     TCGA-A3-3383     TCGA-AK-3427     TCGA-AK-3440 
"PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" 
    TCGA-AK-3443     TCGA-AK-3453     TCGA-AK-3455     TCGA-AK-3456 
"PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" 
    TCGA-AK-3465     TCGA-AS-3777     TCGA-AS-3778     TCGA-B2-3923 
"PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" 
    TCGA-B2-3924     TCGA-B2-4098     TCGA-B2-4099     TCGA-B8-4143 
"PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" 
    TCGA-B8-4148     TCGA-B8-4151     TCGA-B8-4154     TCGA-B8-4619 
"PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" 
    TCGA-B8-4620     TCGA-BP-4161     TCGA-BP-4162     TCGA-BP-4163 
"PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" 
    TCGA-BP-4164     TCGA-BP-4167     TCGA-CJ-4634     TCGA-CJ-4636 
"PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" 
    TCGA-CJ-4637     TCGA-CJ-4638     TCGA-CJ-4639     TCGA-CJ-4640 
"PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" 
    TCGA-CJ-4641     TCGA-CJ-4643     TCGA-CJ-4644 
"PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  PCK1 MUTATED        1      0      0      0      0      0      0
  PCK1 WILD-TYPE      3      6      3     10     10      7      8
D20V2, multiclass
[1] "Remove cluster labels:" "PCK1 MUTATED"          
clus
  PCK1 MUTATED PCK1 WILD-TYPE 
             1             47 
    TCGA-A3-3311     TCGA-A3-3316     TCGA-A3-3317     TCGA-A3-3322 
"PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" 
    TCGA-A3-3323     TCGA-A3-3331     TCGA-A3-3347     TCGA-A3-3349 
"PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" 
    TCGA-A3-3362     TCGA-A3-3363     TCGA-A3-3365     TCGA-A3-3374 
"PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" 
    TCGA-A3-3380     TCGA-A3-3383     TCGA-AK-3427     TCGA-AK-3440 
"PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" 
    TCGA-AK-3443     TCGA-AK-3453     TCGA-AK-3455     TCGA-AK-3456 
"PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" 
    TCGA-AK-3465     TCGA-AS-3777     TCGA-AS-3778     TCGA-B2-3923 
"PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" 
    TCGA-B2-3924     TCGA-B2-4098     TCGA-B2-4099     TCGA-B8-4143 
"PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" 
    TCGA-B8-4148     TCGA-B8-4151     TCGA-B8-4154     TCGA-B8-4619 
"PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" 
    TCGA-B8-4620     TCGA-BP-4161     TCGA-BP-4162     TCGA-BP-4163 
"PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" 
    TCGA-BP-4164     TCGA-BP-4167     TCGA-CJ-4634     TCGA-CJ-4636 
"PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" 
    TCGA-CJ-4637     TCGA-CJ-4638     TCGA-CJ-4639     TCGA-CJ-4640 
"PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" 
    TCGA-CJ-4641     TCGA-CJ-4643     TCGA-CJ-4644 
"PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PCK1 MUTATED        4      0      1
  PCK1 WILD-TYPE    190    112    131
D20V3, multiclass
        clus
vv       PCK1 MUTATED PCK1 WILD-TYPE
  CLUS_1            4            190
  CLUS_2            0            112
  CLUS_3            1            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
  PCK1 MUTATED        1      0      2
  PCK1 WILD-TYPE    103     62     95
D20V4, multiclass
        clus
vv       PCK1 MUTATED PCK1 WILD-TYPE
  CLUS_1            1            103
  CLUS_2            0             62
  CLUS_3            2             95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PCK1 MUTATED        1      0      1      1      1      0
  PCK1 WILD-TYPE     96     57     66     66     71     41
D20V5, multiclass
        clus
vv       PCK1 MUTATED PCK1 WILD-TYPE
  CLUS_1            1             96
  CLUS_2            0             57
  CLUS_3            1             66
  CLUS_4            1             66
  CLUS_5            1             71
  CLUS_6            0             41
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PCK1 MUTATED        1      1      2
  PCK1 WILD-TYPE    106    177    114
D20V6, multiclass
        clus
vv       PCK1 MUTATED PCK1 WILD-TYPE
  CLUS_1            1            106
  CLUS_2            1            177
  CLUS_3            2            114
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PCK1 MUTATED        0      3      2
  PCK1 WILD-TYPE     87    178    169
D20V7, multiclass
        clus
vv       PCK1 MUTATED PCK1 WILD-TYPE
  CLUS_1            0             87
  CLUS_2            3            178
  CLUS_3            2            169
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PCK1 MUTATED        0      0      3      2      0      0
  PCK1 WILD-TYPE    102     25    148    114     30     15
D20V8, multiclass
        clus
vv       PCK1 MUTATED PCK1 WILD-TYPE
  CLUS_1            0            102
  CLUS_2            0             25
  CLUS_3            3            148
  CLUS_4            2            114
  CLUS_5            0             30
  CLUS_6            0             15
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PCK1 MUTATED        2      2      1
  PCK1 WILD-TYPE     99    173    154
D20V9, multiclass
        clus
vv       PCK1 MUTATED PCK1 WILD-TYPE
  CLUS_1            2             99
  CLUS_2            2            173
  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 CLUS_4
  PCK1 MUTATED        3      0      2      0
  PCK1 WILD-TYPE    115    115    161     35
D20V10, multiclass
        clus
vv       PCK1 MUTATED PCK1 WILD-TYPE
  CLUS_1            3            115
  CLUS_2            0            115
  CLUS_3            2            161
  CLUS_4            0             35
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PCK1 MUTATED        0      0      0      0
  PCK1 WILD-TYPE     16     20     43     28
D20V11, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PCK1 MUTATED        0      0      0
  PCK1 WILD-TYPE     18     45     44
D20V12, multiclass

Clustering(21) Variable = DPCR1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DPCR1 MUTATED        0      0      0
  DPCR1 WILD-TYPE     21     17     10
D21V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  DPCR1 MUTATED        0      0      0      0      0      0      0
  DPCR1 WILD-TYPE      4      6      3     10     10      7      8
D21V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DPCR1 MUTATED        1      3      2
  DPCR1 WILD-TYPE    193    109    130
D21V3, multiclass
        clus
vv       DPCR1 MUTATED DPCR1 WILD-TYPE
  CLUS_1             1             193
  CLUS_2             3             109
  CLUS_3             2             130
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DPCR1 MUTATED        1      2      3
  DPCR1 WILD-TYPE    103     60     94
D21V4, multiclass
        clus
vv       DPCR1 MUTATED DPCR1 WILD-TYPE
  CLUS_1             1             103
  CLUS_2             2              60
  CLUS_3             3              94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  DPCR1 MUTATED        0      2      2      0      1      1
  DPCR1 WILD-TYPE     97     55     65     67     71     40
D21V5, multiclass
        clus
vv       DPCR1 MUTATED DPCR1 WILD-TYPE
  CLUS_1             0              97
  CLUS_2             2              55
  CLUS_3             2              65
  CLUS_4             0              67
  CLUS_5             1              71
  CLUS_6             1              40
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DPCR1 MUTATED        1      3      2
  DPCR1 WILD-TYPE    106    175    114
D21V6, multiclass
        clus
vv       DPCR1 MUTATED DPCR1 WILD-TYPE
  CLUS_1             1             106
  CLUS_2             3             175
  CLUS_3             2             114
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DPCR1 MUTATED        3      1      2
  DPCR1 WILD-TYPE     84    180    169
D21V7, multiclass
        clus
vv       DPCR1 MUTATED DPCR1 WILD-TYPE
  CLUS_1             3              84
  CLUS_2             1             180
  CLUS_3             2             169
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  DPCR1 MUTATED        1      1      0      2      1      1
  DPCR1 WILD-TYPE    101     24    151    114     29     14
D21V8, multiclass
        clus
vv       DPCR1 MUTATED DPCR1 WILD-TYPE
  CLUS_1             1             101
  CLUS_2             1              24
  CLUS_3             0             151
  CLUS_4             2             114
  CLUS_5             1              29
  CLUS_6             1              14
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DPCR1 MUTATED        2      2      2
  DPCR1 WILD-TYPE     99    173    153
D21V9, multiclass
        clus
vv       DPCR1 MUTATED DPCR1 WILD-TYPE
  CLUS_1             2              99
  CLUS_2             2             173
  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 CLUS_4
  DPCR1 MUTATED        2      2      2      0
  DPCR1 WILD-TYPE    116    113    161     35
D21V10, multiclass
        clus
vv       DPCR1 MUTATED DPCR1 WILD-TYPE
  CLUS_1             2             116
  CLUS_2             2             113
  CLUS_3             2             161
  CLUS_4             0              35
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DPCR1 MUTATED        0      1      1      0
  DPCR1 WILD-TYPE     16     19     42     28
D21V11, multiclass
[1] "Remove cluster labels:" "DPCR1 MUTATED"         
clus
  DPCR1 MUTATED DPCR1 WILD-TYPE 
              2             105 
     TCGA-A3-3317      TCGA-A3-3358      TCGA-A3-3387      TCGA-AK-3440 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-AK-3458      TCGA-AK-3465      TCGA-B0-4700      TCGA-B0-4706 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-B0-4710      TCGA-B0-4712      TCGA-B0-4810      TCGA-B0-4811 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-B0-4836      TCGA-B0-4837      TCGA-B0-4852      TCGA-B0-5085 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-B0-5088      TCGA-B0-5399      TCGA-B0-5691      TCGA-B0-5692 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-B0-5693      TCGA-B0-5694      TCGA-B0-5695      TCGA-B0-5696 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-B0-5699      TCGA-B0-5702      TCGA-B0-5705      TCGA-B0-5709 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-B2-3923      TCGA-B2-3924      TCGA-B2-5633      TCGA-B2-5635 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-B4-5377      TCGA-B4-5836      TCGA-B8-4621      TCGA-B8-5545 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-B8-5550      TCGA-B8-5551      TCGA-B8-5552      TCGA-B8-5553 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-BP-4173      TCGA-BP-4340      TCGA-BP-4761      TCGA-BP-4770 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-BP-4787      TCGA-BP-4789      TCGA-BP-4790      TCGA-BP-4804 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-BP-4807      TCGA-BP-4961      TCGA-BP-4967      TCGA-BP-4968 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-BP-4970      TCGA-BP-4974      TCGA-BP-4976      TCGA-BP-4981 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-BP-4982      TCGA-BP-4985      TCGA-BP-4988      TCGA-BP-4989 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-BP-4992      TCGA-BP-4995      TCGA-BP-4998      TCGA-BP-5001 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-BP-5008      TCGA-BP-5009      TCGA-CJ-4870      TCGA-CJ-4875 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-CJ-4876      TCGA-CJ-4878      TCGA-CJ-4881      TCGA-CJ-4887 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-CJ-4889      TCGA-CJ-4890      TCGA-CJ-4895      TCGA-CJ-4900 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-CJ-5671      TCGA-CJ-5675      TCGA-CJ-5676      TCGA-CJ-5681 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-CJ-5683      TCGA-CJ-5686      TCGA-CJ-6031      TCGA-CJ-6032 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-CW-5585      TCGA-CW-6087      TCGA-CZ-4854      TCGA-CZ-4857 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-CZ-4858      TCGA-CZ-5453      TCGA-CZ-5454      TCGA-CZ-5455 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-CZ-5457      TCGA-CZ-5459      TCGA-CZ-5462      TCGA-CZ-5463 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-CZ-5466      TCGA-CZ-5467      TCGA-CZ-5469      TCGA-CZ-5470 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-CZ-5989      TCGA-DV-5565      TCGA-DV-5566      TCGA-DV-5569 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-EU-5904 
"DPCR1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DPCR1 MUTATED        0      2      0
  DPCR1 WILD-TYPE     18     43     44
D21V12, multiclass
[1] "Remove cluster labels:" "DPCR1 MUTATED"         
clus
  DPCR1 MUTATED DPCR1 WILD-TYPE 
              2             105 
     TCGA-A3-3317      TCGA-A3-3358      TCGA-A3-3387      TCGA-AK-3440 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-AK-3458      TCGA-AK-3465      TCGA-B0-4700      TCGA-B0-4706 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-B0-4710      TCGA-B0-4712      TCGA-B0-4810      TCGA-B0-4811 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-B0-4836      TCGA-B0-4837      TCGA-B0-4852      TCGA-B0-5085 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-B0-5088      TCGA-B0-5399      TCGA-B0-5691      TCGA-B0-5692 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-B0-5693      TCGA-B0-5694      TCGA-B0-5695      TCGA-B0-5696 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-B0-5699      TCGA-B0-5702      TCGA-B0-5705      TCGA-B0-5709 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-B2-3923      TCGA-B2-3924      TCGA-B2-5633      TCGA-B2-5635 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-B4-5377      TCGA-B4-5836      TCGA-B8-4621      TCGA-B8-5545 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-B8-5550      TCGA-B8-5551      TCGA-B8-5552      TCGA-B8-5553 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-BP-4173      TCGA-BP-4340      TCGA-BP-4761      TCGA-BP-4770 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-BP-4787      TCGA-BP-4789      TCGA-BP-4790      TCGA-BP-4804 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-BP-4807      TCGA-BP-4961      TCGA-BP-4967      TCGA-BP-4968 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-BP-4970      TCGA-BP-4974      TCGA-BP-4976      TCGA-BP-4981 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-BP-4982      TCGA-BP-4985      TCGA-BP-4988      TCGA-BP-4989 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-BP-4992      TCGA-BP-4995      TCGA-BP-4998      TCGA-BP-5001 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-BP-5008      TCGA-BP-5009      TCGA-CJ-4870      TCGA-CJ-4875 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-CJ-4876      TCGA-CJ-4878      TCGA-CJ-4881      TCGA-CJ-4887 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-CJ-4889      TCGA-CJ-4890      TCGA-CJ-4895      TCGA-CJ-4900 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-CJ-5671      TCGA-CJ-5675      TCGA-CJ-5676      TCGA-CJ-5681 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-CJ-5683      TCGA-CJ-5686      TCGA-CJ-6031      TCGA-CJ-6032 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-CW-5585      TCGA-CW-6087      TCGA-CZ-4854      TCGA-CZ-4857 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-CZ-4858      TCGA-CZ-5453      TCGA-CZ-5454      TCGA-CZ-5455 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-CZ-5457      TCGA-CZ-5459      TCGA-CZ-5462      TCGA-CZ-5463 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-CZ-5466      TCGA-CZ-5467      TCGA-CZ-5469      TCGA-CZ-5470 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-CZ-5989      TCGA-DV-5565      TCGA-DV-5566      TCGA-DV-5569 
"DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" "DPCR1 WILD-TYPE" 
     TCGA-EU-5904 
"DPCR1 WILD-TYPE" 

Clustering(22) Variable = NFAT5 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NFAT5 MUTATED        0      0      0
  NFAT5 WILD-TYPE     21     17     10
D22V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  NFAT5 MUTATED        0      0      0      0      0      0      0
  NFAT5 WILD-TYPE      4      6      3     10     10      7      8
D22V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NFAT5 MUTATED        2      3      1
  NFAT5 WILD-TYPE    192    109    131
D22V3, multiclass
        clus
vv       NFAT5 MUTATED NFAT5 WILD-TYPE
  CLUS_1             2             192
  CLUS_2             3             109
  CLUS_3             1             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
  NFAT5 MUTATED        2      1      3
  NFAT5 WILD-TYPE    102     61     94
D22V4, multiclass
        clus
vv       NFAT5 MUTATED NFAT5 WILD-TYPE
  CLUS_1             2             102
  CLUS_2             1              61
  CLUS_3             3              94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  NFAT5 MUTATED        0      2      1      0      1      1
  NFAT5 WILD-TYPE     97     55     66     67     71     40
D22V5, multiclass
        clus
vv       NFAT5 MUTATED NFAT5 WILD-TYPE
  CLUS_1             0              97
  CLUS_2             2              55
  CLUS_3             1              66
  CLUS_4             0              67
  CLUS_5             1              71
  CLUS_6             1              40
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NFAT5 MUTATED        0      3      2
  NFAT5 WILD-TYPE    107    175    114
D22V6, multiclass
        clus
vv       NFAT5 MUTATED NFAT5 WILD-TYPE
  CLUS_1             0             107
  CLUS_2             3             175
  CLUS_3             2             114
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NFAT5 MUTATED        1      1      4
  NFAT5 WILD-TYPE     86    180    167
D22V7, multiclass
        clus
vv       NFAT5 MUTATED NFAT5 WILD-TYPE
  CLUS_1             1              86
  CLUS_2             1             180
  CLUS_3             4             167
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  NFAT5 MUTATED        4      0      1      1      0      0
  NFAT5 WILD-TYPE     98     25    150    115     30     15
D22V8, multiclass
        clus
vv       NFAT5 MUTATED NFAT5 WILD-TYPE
  CLUS_1             4              98
  CLUS_2             0              25
  CLUS_3             1             150
  CLUS_4             1             115
  CLUS_5             0              30
  CLUS_6             0              15
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NFAT5 MUTATED        1      1      4
  NFAT5 WILD-TYPE    100    174    151
D22V9, multiclass
        clus
vv       NFAT5 MUTATED NFAT5 WILD-TYPE
  CLUS_1             1             100
  CLUS_2             1             174
  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 CLUS_4
  NFAT5 MUTATED        0      1      3      2
  NFAT5 WILD-TYPE    118    114    160     33
D22V10, multiclass
        clus
vv       NFAT5 MUTATED NFAT5 WILD-TYPE
  CLUS_1             0             118
  CLUS_2             1             114
  CLUS_3             3             160
  CLUS_4             2              33
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NFAT5 MUTATED        0      0      0      1
  NFAT5 WILD-TYPE     16     20     43     27
D22V11, multiclass
[1] "Remove cluster labels:" "NFAT5 MUTATED"         
clus
  NFAT5 MUTATED NFAT5 WILD-TYPE 
              1             106 
     TCGA-A3-3317      TCGA-A3-3358      TCGA-A3-3387      TCGA-AK-3440 
"NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" 
     TCGA-AK-3458      TCGA-AK-3465      TCGA-B0-4700      TCGA-B0-4706 
"NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" 
     TCGA-B0-4710      TCGA-B0-4712      TCGA-B0-4810      TCGA-B0-4811 
"NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" 
     TCGA-B0-4836      TCGA-B0-4837      TCGA-B0-4852      TCGA-B0-5080 
"NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" 
     TCGA-B0-5085      TCGA-B0-5088      TCGA-B0-5399      TCGA-B0-5691 
"NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" 
     TCGA-B0-5692      TCGA-B0-5693      TCGA-B0-5694      TCGA-B0-5695 
"NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" 
     TCGA-B0-5696      TCGA-B0-5699      TCGA-B0-5702      TCGA-B0-5705 
"NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" 
     TCGA-B0-5709      TCGA-B2-3923      TCGA-B2-3924      TCGA-B2-5635 
"NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" 
     TCGA-B4-5377      TCGA-B4-5836      TCGA-B8-4621      TCGA-B8-5545 
"NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" 
     TCGA-B8-5550      TCGA-B8-5551      TCGA-B8-5552      TCGA-B8-5553 
"NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" 
     TCGA-BP-4173      TCGA-BP-4340      TCGA-BP-4761      TCGA-BP-4770 
"NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" 
     TCGA-BP-4787      TCGA-BP-4789      TCGA-BP-4790      TCGA-BP-4804 
"NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" 
     TCGA-BP-4807      TCGA-BP-4961      TCGA-BP-4967      TCGA-BP-4968 
"NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" 
     TCGA-BP-4970      TCGA-BP-4974      TCGA-BP-4976      TCGA-BP-4981 
"NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" 
     TCGA-BP-4982      TCGA-BP-4985      TCGA-BP-4988      TCGA-BP-4989 
"NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" 
     TCGA-BP-4992      TCGA-BP-4995      TCGA-BP-4998      TCGA-BP-5001 
"NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" 
     TCGA-BP-5008      TCGA-BP-5009      TCGA-CJ-4870      TCGA-CJ-4875 
"NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" 
     TCGA-CJ-4876      TCGA-CJ-4878      TCGA-CJ-4881      TCGA-CJ-4887 
"NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" 
     TCGA-CJ-4889      TCGA-CJ-4890      TCGA-CJ-4895      TCGA-CJ-4900 
"NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" 
     TCGA-CJ-5671      TCGA-CJ-5675      TCGA-CJ-5676      TCGA-CJ-5681 
"NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" 
     TCGA-CJ-5683      TCGA-CJ-5686      TCGA-CJ-6031      TCGA-CJ-6032 
"NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" 
     TCGA-CW-5585      TCGA-CW-5589      TCGA-CW-6087      TCGA-CZ-4854 
"NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" 
     TCGA-CZ-4857      TCGA-CZ-4858      TCGA-CZ-5453      TCGA-CZ-5454 
"NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" 
     TCGA-CZ-5455      TCGA-CZ-5457      TCGA-CZ-5459      TCGA-CZ-5462 
"NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" 
     TCGA-CZ-5463      TCGA-CZ-5466      TCGA-CZ-5467      TCGA-CZ-5469 
"NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" 
     TCGA-CZ-5470      TCGA-CZ-5989      TCGA-DV-5565      TCGA-DV-5566 
"NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" 
     TCGA-DV-5569      TCGA-EU-5904 
"NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NFAT5 MUTATED        1      0      0
  NFAT5 WILD-TYPE     17     45     44
D22V12, multiclass
[1] "Remove cluster labels:" "NFAT5 MUTATED"         
clus
  NFAT5 MUTATED NFAT5 WILD-TYPE 
              1             106 
     TCGA-A3-3317      TCGA-A3-3358      TCGA-A3-3387      TCGA-AK-3440 
"NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" 
     TCGA-AK-3458      TCGA-AK-3465      TCGA-B0-4700      TCGA-B0-4706 
"NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" 
     TCGA-B0-4710      TCGA-B0-4712      TCGA-B0-4810      TCGA-B0-4811 
"NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" 
     TCGA-B0-4836      TCGA-B0-4837      TCGA-B0-4852      TCGA-B0-5080 
"NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" 
     TCGA-B0-5085      TCGA-B0-5088      TCGA-B0-5399      TCGA-B0-5691 
"NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" 
     TCGA-B0-5692      TCGA-B0-5693      TCGA-B0-5694      TCGA-B0-5695 
"NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" 
     TCGA-B0-5696      TCGA-B0-5699      TCGA-B0-5702      TCGA-B0-5705 
"NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" 
     TCGA-B0-5709      TCGA-B2-3923      TCGA-B2-3924      TCGA-B2-5635 
"NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" 
     TCGA-B4-5377      TCGA-B4-5836      TCGA-B8-4621      TCGA-B8-5545 
"NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" 
     TCGA-B8-5550      TCGA-B8-5551      TCGA-B8-5552      TCGA-B8-5553 
"NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" 
     TCGA-BP-4173      TCGA-BP-4340      TCGA-BP-4761      TCGA-BP-4770 
"NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" 
     TCGA-BP-4787      TCGA-BP-4789      TCGA-BP-4790      TCGA-BP-4804 
"NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" 
     TCGA-BP-4807      TCGA-BP-4961      TCGA-BP-4967      TCGA-BP-4968 
"NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" 
     TCGA-BP-4970      TCGA-BP-4974      TCGA-BP-4976      TCGA-BP-4981 
"NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" 
     TCGA-BP-4982      TCGA-BP-4985      TCGA-BP-4988      TCGA-BP-4989 
"NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" 
     TCGA-BP-4992      TCGA-BP-4995      TCGA-BP-4998      TCGA-BP-5001 
"NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" 
     TCGA-BP-5008      TCGA-BP-5009      TCGA-CJ-4870      TCGA-CJ-4875 
"NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" 
     TCGA-CJ-4876      TCGA-CJ-4878      TCGA-CJ-4881      TCGA-CJ-4887 
"NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" 
     TCGA-CJ-4889      TCGA-CJ-4890      TCGA-CJ-4895      TCGA-CJ-4900 
"NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" 
     TCGA-CJ-5671      TCGA-CJ-5675      TCGA-CJ-5676      TCGA-CJ-5681 
"NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" 
     TCGA-CJ-5683      TCGA-CJ-5686      TCGA-CJ-6031      TCGA-CJ-6032 
"NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" 
     TCGA-CW-5585      TCGA-CW-5589      TCGA-CW-6087      TCGA-CZ-4854 
"NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" 
     TCGA-CZ-4857      TCGA-CZ-4858      TCGA-CZ-5453      TCGA-CZ-5454 
"NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" 
     TCGA-CZ-5455      TCGA-CZ-5457      TCGA-CZ-5459      TCGA-CZ-5462 
"NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" 
     TCGA-CZ-5463      TCGA-CZ-5466      TCGA-CZ-5467      TCGA-CZ-5469 
"NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" 
     TCGA-CZ-5470      TCGA-CZ-5989      TCGA-DV-5565      TCGA-DV-5566 
"NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" 
     TCGA-DV-5569      TCGA-EU-5904 
"NFAT5 WILD-TYPE" "NFAT5 WILD-TYPE" 

Clustering(23) Variable = EGFR MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  EGFR MUTATED        0      0      0
  EGFR WILD-TYPE     21     17     10
D23V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  EGFR MUTATED        0      0      0      0      0      0      0
  EGFR WILD-TYPE      4      6      3     10     10      7      8
D23V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  EGFR MUTATED        4      2      1
  EGFR WILD-TYPE    190    110    131
D23V3, multiclass
        clus
vv       EGFR MUTATED EGFR WILD-TYPE
  CLUS_1            4            190
  CLUS_2            2            110
  CLUS_3            1            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
  EGFR MUTATED        2      0      2
  EGFR WILD-TYPE    102     62     95
D23V4, multiclass
        clus
vv       EGFR MUTATED EGFR WILD-TYPE
  CLUS_1            2            102
  CLUS_2            0             62
  CLUS_3            2             95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  EGFR MUTATED        2      2      0      1      1      1
  EGFR WILD-TYPE     95     55     67     66     71     40
D23V5, multiclass
        clus
vv       EGFR MUTATED EGFR WILD-TYPE
  CLUS_1            2             95
  CLUS_2            2             55
  CLUS_3            0             67
  CLUS_4            1             66
  CLUS_5            1             71
  CLUS_6            1             40
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  EGFR MUTATED        3      2      2
  EGFR WILD-TYPE    104    176    114
D23V6, multiclass
        clus
vv       EGFR MUTATED EGFR WILD-TYPE
  CLUS_1            3            104
  CLUS_2            2            176
  CLUS_3            2            114
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  EGFR MUTATED        0      3      4
  EGFR WILD-TYPE     87    178    167
D23V7, multiclass
        clus
vv       EGFR MUTATED EGFR WILD-TYPE
  CLUS_1            0             87
  CLUS_2            3            178
  CLUS_3            4            167
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  EGFR MUTATED        1      0      3      3      0      0
  EGFR WILD-TYPE    101     25    148    113     30     15
D23V8, multiclass
        clus
vv       EGFR MUTATED EGFR WILD-TYPE
  CLUS_1            1            101
  CLUS_2            0             25
  CLUS_3            3            148
  CLUS_4            3            113
  CLUS_5            0             30
  CLUS_6            0             15
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  EGFR MUTATED        1      3      2
  EGFR WILD-TYPE    100    172    153
D23V9, multiclass
        clus
vv       EGFR MUTATED EGFR WILD-TYPE
  CLUS_1            1            100
  CLUS_2            3            172
  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 CLUS_4
  EGFR MUTATED        0      1      3      2
  EGFR WILD-TYPE    118    114    160     33
D23V10, multiclass
        clus
vv       EGFR MUTATED EGFR WILD-TYPE
  CLUS_1            0            118
  CLUS_2            1            114
  CLUS_3            3            160
  CLUS_4            2             33
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  EGFR MUTATED        0      0      0      0
  EGFR WILD-TYPE     16     20     43     28
D23V11, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  EGFR MUTATED        0      0      0
  EGFR WILD-TYPE     18     45     44
D23V12, multiclass

Clustering(24) Variable = TRIM6 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TRIM6 MUTATED        0      0      0
  TRIM6 WILD-TYPE     21     17     10
D24V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  TRIM6 MUTATED        0      0      0      0      0      0      0
  TRIM6 WILD-TYPE      4      6      3     10     10      7      8
D24V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TRIM6 MUTATED        2      1      1
  TRIM6 WILD-TYPE    192    111    131
D24V3, multiclass
        clus
vv       TRIM6 MUTATED TRIM6 WILD-TYPE
  CLUS_1             2             192
  CLUS_2             1             111
  CLUS_3             1             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
  TRIM6 MUTATED        2      1      1
  TRIM6 WILD-TYPE    102     61     96
D24V4, multiclass
        clus
vv       TRIM6 MUTATED TRIM6 WILD-TYPE
  CLUS_1             2             102
  CLUS_2             1              61
  CLUS_3             1              96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TRIM6 MUTATED        2      1      0      1      0      0
  TRIM6 WILD-TYPE     95     56     67     66     72     41
D24V5, multiclass
        clus
vv       TRIM6 MUTATED TRIM6 WILD-TYPE
  CLUS_1             2              95
  CLUS_2             1              56
  CLUS_3             0              67
  CLUS_4             1              66
  CLUS_5             0              72
  CLUS_6             0              41
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TRIM6 MUTATED        1      0      3
  TRIM6 WILD-TYPE    106    178    113
D24V6, multiclass
        clus
vv       TRIM6 MUTATED TRIM6 WILD-TYPE
  CLUS_1             1             106
  CLUS_2             0             178
  CLUS_3             3             113
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TRIM6 MUTATED        1      2      2
  TRIM6 WILD-TYPE     86    179    169
D24V7, multiclass
        clus
vv       TRIM6 MUTATED TRIM6 WILD-TYPE
  CLUS_1             1              86
  CLUS_2             2             179
  CLUS_3             2             169
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TRIM6 MUTATED        0      0      2      1      1      1
  TRIM6 WILD-TYPE    102     25    149    115     29     14
D24V8, multiclass
        clus
vv       TRIM6 MUTATED TRIM6 WILD-TYPE
  CLUS_1             0             102
  CLUS_2             0              25
  CLUS_3             2             149
  CLUS_4             1             115
  CLUS_5             1              29
  CLUS_6             1              14
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TRIM6 MUTATED        0      2      3
  TRIM6 WILD-TYPE    101    173    152
D24V9, multiclass
        clus
vv       TRIM6 MUTATED TRIM6 WILD-TYPE
  CLUS_1             0             101
  CLUS_2             2             173
  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 CLUS_4
  TRIM6 MUTATED        1      3      1      0
  TRIM6 WILD-TYPE    117    112    162     35
D24V10, multiclass
        clus
vv       TRIM6 MUTATED TRIM6 WILD-TYPE
  CLUS_1             1             117
  CLUS_2             3             112
  CLUS_3             1             162
  CLUS_4             0              35
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TRIM6 MUTATED        0      0      0      1
  TRIM6 WILD-TYPE     16     20     43     27
D24V11, multiclass
[1] "Remove cluster labels:" "TRIM6 MUTATED"         
clus
  TRIM6 MUTATED TRIM6 WILD-TYPE 
              1             106 
     TCGA-A3-3317      TCGA-A3-3358      TCGA-A3-3387      TCGA-AK-3440 
"TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" 
     TCGA-AK-3458      TCGA-AK-3465      TCGA-B0-4700      TCGA-B0-4706 
"TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" 
     TCGA-B0-4710      TCGA-B0-4712      TCGA-B0-4810      TCGA-B0-4811 
"TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" 
     TCGA-B0-4836      TCGA-B0-4837      TCGA-B0-4852      TCGA-B0-5080 
"TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" 
     TCGA-B0-5085      TCGA-B0-5088      TCGA-B0-5399      TCGA-B0-5691 
"TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" 
     TCGA-B0-5692      TCGA-B0-5693      TCGA-B0-5694      TCGA-B0-5695 
"TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" 
     TCGA-B0-5696      TCGA-B0-5699      TCGA-B0-5702      TCGA-B0-5705 
"TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" 
     TCGA-B0-5709      TCGA-B2-3923      TCGA-B2-3924      TCGA-B2-5633 
"TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" 
     TCGA-B2-5635      TCGA-B4-5377      TCGA-B4-5836      TCGA-B8-4621 
"TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" 
     TCGA-B8-5545      TCGA-B8-5550      TCGA-B8-5551      TCGA-B8-5552 
"TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" 
     TCGA-B8-5553      TCGA-BP-4173      TCGA-BP-4340      TCGA-BP-4761 
"TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" 
     TCGA-BP-4770      TCGA-BP-4787      TCGA-BP-4789      TCGA-BP-4790 
"TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" 
     TCGA-BP-4804      TCGA-BP-4807      TCGA-BP-4961      TCGA-BP-4967 
"TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" 
     TCGA-BP-4968      TCGA-BP-4970      TCGA-BP-4974      TCGA-BP-4976 
"TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" 
     TCGA-BP-4981      TCGA-BP-4982      TCGA-BP-4985      TCGA-BP-4989 
"TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" 
     TCGA-BP-4992      TCGA-BP-4995      TCGA-BP-4998      TCGA-BP-5001 
"TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" 
     TCGA-BP-5008      TCGA-BP-5009      TCGA-CJ-4870      TCGA-CJ-4875 
"TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" 
     TCGA-CJ-4876      TCGA-CJ-4878      TCGA-CJ-4881      TCGA-CJ-4887 
"TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" 
     TCGA-CJ-4889      TCGA-CJ-4890      TCGA-CJ-4895      TCGA-CJ-4900 
"TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" 
     TCGA-CJ-5671      TCGA-CJ-5675      TCGA-CJ-5676      TCGA-CJ-5681 
"TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" 
     TCGA-CJ-5683      TCGA-CJ-5686      TCGA-CJ-6031      TCGA-CJ-6032 
"TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" 
     TCGA-CW-5585      TCGA-CW-5589      TCGA-CW-6087      TCGA-CZ-4854 
"TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" 
     TCGA-CZ-4857      TCGA-CZ-4858      TCGA-CZ-5453      TCGA-CZ-5454 
"TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" 
     TCGA-CZ-5455      TCGA-CZ-5457      TCGA-CZ-5459      TCGA-CZ-5462 
"TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" 
     TCGA-CZ-5463      TCGA-CZ-5466      TCGA-CZ-5467      TCGA-CZ-5469 
"TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" 
     TCGA-CZ-5470      TCGA-CZ-5989      TCGA-DV-5565      TCGA-DV-5566 
"TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" 
     TCGA-DV-5569      TCGA-EU-5904 
"TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TRIM6 MUTATED        0      1      0
  TRIM6 WILD-TYPE     18     44     44
D24V12, multiclass
[1] "Remove cluster labels:" "TRIM6 MUTATED"         
clus
  TRIM6 MUTATED TRIM6 WILD-TYPE 
              1             106 
     TCGA-A3-3317      TCGA-A3-3358      TCGA-A3-3387      TCGA-AK-3440 
"TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" 
     TCGA-AK-3458      TCGA-AK-3465      TCGA-B0-4700      TCGA-B0-4706 
"TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" 
     TCGA-B0-4710      TCGA-B0-4712      TCGA-B0-4810      TCGA-B0-4811 
"TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" 
     TCGA-B0-4836      TCGA-B0-4837      TCGA-B0-4852      TCGA-B0-5080 
"TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" 
     TCGA-B0-5085      TCGA-B0-5088      TCGA-B0-5399      TCGA-B0-5691 
"TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" 
     TCGA-B0-5692      TCGA-B0-5693      TCGA-B0-5694      TCGA-B0-5695 
"TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" 
     TCGA-B0-5696      TCGA-B0-5699      TCGA-B0-5702      TCGA-B0-5705 
"TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" 
     TCGA-B0-5709      TCGA-B2-3923      TCGA-B2-3924      TCGA-B2-5633 
"TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" 
     TCGA-B2-5635      TCGA-B4-5377      TCGA-B4-5836      TCGA-B8-4621 
"TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" 
     TCGA-B8-5545      TCGA-B8-5550      TCGA-B8-5551      TCGA-B8-5552 
"TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" 
     TCGA-B8-5553      TCGA-BP-4173      TCGA-BP-4340      TCGA-BP-4761 
"TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" 
     TCGA-BP-4770      TCGA-BP-4787      TCGA-BP-4789      TCGA-BP-4790 
"TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" 
     TCGA-BP-4804      TCGA-BP-4807      TCGA-BP-4961      TCGA-BP-4967 
"TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" 
     TCGA-BP-4968      TCGA-BP-4970      TCGA-BP-4974      TCGA-BP-4976 
"TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" 
     TCGA-BP-4981      TCGA-BP-4982      TCGA-BP-4985      TCGA-BP-4989 
"TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" 
     TCGA-BP-4992      TCGA-BP-4995      TCGA-BP-4998      TCGA-BP-5001 
"TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" 
     TCGA-BP-5008      TCGA-BP-5009      TCGA-CJ-4870      TCGA-CJ-4875 
"TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" 
     TCGA-CJ-4876      TCGA-CJ-4878      TCGA-CJ-4881      TCGA-CJ-4887 
"TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" 
     TCGA-CJ-4889      TCGA-CJ-4890      TCGA-CJ-4895      TCGA-CJ-4900 
"TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" 
     TCGA-CJ-5671      TCGA-CJ-5675      TCGA-CJ-5676      TCGA-CJ-5681 
"TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" 
     TCGA-CJ-5683      TCGA-CJ-5686      TCGA-CJ-6031      TCGA-CJ-6032 
"TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" 
     TCGA-CW-5585      TCGA-CW-5589      TCGA-CW-6087      TCGA-CZ-4854 
"TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" 
     TCGA-CZ-4857      TCGA-CZ-4858      TCGA-CZ-5453      TCGA-CZ-5454 
"TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" 
     TCGA-CZ-5455      TCGA-CZ-5457      TCGA-CZ-5459      TCGA-CZ-5462 
"TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" 
     TCGA-CZ-5463      TCGA-CZ-5466      TCGA-CZ-5467      TCGA-CZ-5469 
"TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" 
     TCGA-CZ-5470      TCGA-CZ-5989      TCGA-DV-5565      TCGA-DV-5566 
"TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" 
     TCGA-DV-5569      TCGA-EU-5904 
"TRIM6 WILD-TYPE" "TRIM6 WILD-TYPE" 

Clustering(25) Variable = RBMX MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RBMX MUTATED        1      0      0
  RBMX WILD-TYPE     20     17     10
D25V1, multiclass
[1] "Remove cluster labels:" "RBMX MUTATED"          
clus
  RBMX MUTATED RBMX WILD-TYPE 
             1             47 
    TCGA-A3-3311     TCGA-A3-3316     TCGA-A3-3317     TCGA-A3-3322 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-A3-3323     TCGA-A3-3326     TCGA-A3-3331     TCGA-A3-3347 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-A3-3349     TCGA-A3-3362     TCGA-A3-3363     TCGA-A3-3365 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-A3-3374     TCGA-A3-3380     TCGA-A3-3383     TCGA-AK-3427 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-AK-3440     TCGA-AK-3443     TCGA-AK-3453     TCGA-AK-3455 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-AK-3456     TCGA-AK-3465     TCGA-AS-3777     TCGA-B2-3923 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-B2-3924     TCGA-B2-4098     TCGA-B2-4099     TCGA-B8-4143 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-B8-4148     TCGA-B8-4151     TCGA-B8-4154     TCGA-B8-4619 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-B8-4620     TCGA-BP-4161     TCGA-BP-4162     TCGA-BP-4163 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-BP-4164     TCGA-BP-4167     TCGA-CJ-4634     TCGA-CJ-4636 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-CJ-4637     TCGA-CJ-4638     TCGA-CJ-4639     TCGA-CJ-4640 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-CJ-4641     TCGA-CJ-4643     TCGA-CJ-4644 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  RBMX MUTATED        0      0      0      0      0      1      0
  RBMX WILD-TYPE      4      6      3     10     10      6      8
D25V2, multiclass
[1] "Remove cluster labels:" "RBMX MUTATED"          
clus
  RBMX MUTATED RBMX WILD-TYPE 
             1             47 
    TCGA-A3-3311     TCGA-A3-3316     TCGA-A3-3317     TCGA-A3-3322 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-A3-3323     TCGA-A3-3326     TCGA-A3-3331     TCGA-A3-3347 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-A3-3349     TCGA-A3-3362     TCGA-A3-3363     TCGA-A3-3365 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-A3-3374     TCGA-A3-3380     TCGA-A3-3383     TCGA-AK-3427 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-AK-3440     TCGA-AK-3443     TCGA-AK-3453     TCGA-AK-3455 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-AK-3456     TCGA-AK-3465     TCGA-AS-3777     TCGA-B2-3923 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-B2-3924     TCGA-B2-4098     TCGA-B2-4099     TCGA-B8-4143 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-B8-4148     TCGA-B8-4151     TCGA-B8-4154     TCGA-B8-4619 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-B8-4620     TCGA-BP-4161     TCGA-BP-4162     TCGA-BP-4163 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-BP-4164     TCGA-BP-4167     TCGA-CJ-4634     TCGA-CJ-4636 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-CJ-4637     TCGA-CJ-4638     TCGA-CJ-4639     TCGA-CJ-4640 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-CJ-4641     TCGA-CJ-4643     TCGA-CJ-4644 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RBMX MUTATED        2      0      2
  RBMX WILD-TYPE    192    112    130
D25V3, multiclass
        clus
vv       RBMX MUTATED RBMX WILD-TYPE
  CLUS_1            2            192
  CLUS_2            0            112
  CLUS_3            2            130
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RBMX MUTATED        1      0      2
  RBMX WILD-TYPE    103     62     95
D25V4, multiclass
        clus
vv       RBMX MUTATED RBMX WILD-TYPE
  CLUS_1            1            103
  CLUS_2            0             62
  CLUS_3            2             95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  RBMX MUTATED        0      2      0      0      1      0
  RBMX WILD-TYPE     97     55     67     67     71     41
D25V5, multiclass
        clus
vv       RBMX MUTATED RBMX WILD-TYPE
  CLUS_1            0             97
  CLUS_2            2             55
  CLUS_3            0             67
  CLUS_4            0             67
  CLUS_5            1             71
  CLUS_6            0             41
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RBMX MUTATED        0      1      2
  RBMX WILD-TYPE    107    177    114
D25V6, multiclass
        clus
vv       RBMX MUTATED RBMX WILD-TYPE
  CLUS_1            0            107
  CLUS_2            1            177
  CLUS_3            2            114
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RBMX MUTATED        0      1      3
  RBMX WILD-TYPE     87    180    168
D25V7, multiclass
        clus
vv       RBMX MUTATED RBMX WILD-TYPE
  CLUS_1            0             87
  CLUS_2            1            180
  CLUS_3            3            168
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  RBMX MUTATED        2      0      0      2      0      0
  RBMX WILD-TYPE    100     25    151    114     30     15
D25V8, multiclass
        clus
vv       RBMX MUTATED RBMX WILD-TYPE
  CLUS_1            2            100
  CLUS_2            0             25
  CLUS_3            0            151
  CLUS_4            2            114
  CLUS_5            0             30
  CLUS_6            0             15
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RBMX MUTATED        1      0      2
  RBMX WILD-TYPE    100    175    153
D25V9, multiclass
        clus
vv       RBMX MUTATED RBMX WILD-TYPE
  CLUS_1            1            100
  CLUS_2            0            175
  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 CLUS_4
  RBMX MUTATED        1      1      0      1
  RBMX WILD-TYPE    117    114    163     34
D25V10, multiclass
        clus
vv       RBMX MUTATED RBMX WILD-TYPE
  CLUS_1            1            117
  CLUS_2            1            114
  CLUS_3            0            163
  CLUS_4            1             34
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RBMX MUTATED        0      0      0      1
  RBMX WILD-TYPE     16     20     43     27
D25V11, multiclass
[1] "Remove cluster labels:" "RBMX MUTATED"          
clus
  RBMX MUTATED RBMX WILD-TYPE 
             1            106 
    TCGA-A3-3317     TCGA-A3-3358     TCGA-A3-3387     TCGA-AK-3440 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-AK-3458     TCGA-AK-3465     TCGA-B0-4700     TCGA-B0-4706 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-B0-4710     TCGA-B0-4810     TCGA-B0-4811     TCGA-B0-4836 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-B0-4837     TCGA-B0-4852     TCGA-B0-5080     TCGA-B0-5085 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-B0-5088     TCGA-B0-5399     TCGA-B0-5691     TCGA-B0-5692 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-B0-5693     TCGA-B0-5694     TCGA-B0-5695     TCGA-B0-5696 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-B0-5699     TCGA-B0-5702     TCGA-B0-5705     TCGA-B0-5709 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-B2-3923     TCGA-B2-3924     TCGA-B2-5633     TCGA-B2-5635 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-B4-5377     TCGA-B4-5836     TCGA-B8-4621     TCGA-B8-5545 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-B8-5550     TCGA-B8-5551     TCGA-B8-5552     TCGA-B8-5553 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-BP-4173     TCGA-BP-4340     TCGA-BP-4761     TCGA-BP-4770 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-BP-4787     TCGA-BP-4789     TCGA-BP-4790     TCGA-BP-4804 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-BP-4807     TCGA-BP-4961     TCGA-BP-4967     TCGA-BP-4968 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-BP-4970     TCGA-BP-4974     TCGA-BP-4976     TCGA-BP-4981 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-BP-4982     TCGA-BP-4985     TCGA-BP-4988     TCGA-BP-4989 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-BP-4992     TCGA-BP-4995     TCGA-BP-4998     TCGA-BP-5001 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-BP-5008     TCGA-BP-5009     TCGA-CJ-4870     TCGA-CJ-4875 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-CJ-4876     TCGA-CJ-4878     TCGA-CJ-4881     TCGA-CJ-4887 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-CJ-4889     TCGA-CJ-4890     TCGA-CJ-4895     TCGA-CJ-4900 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-CJ-5671     TCGA-CJ-5675     TCGA-CJ-5676     TCGA-CJ-5681 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-CJ-5683     TCGA-CJ-5686     TCGA-CJ-6031     TCGA-CJ-6032 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-CW-5585     TCGA-CW-5589     TCGA-CW-6087     TCGA-CZ-4854 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-CZ-4857     TCGA-CZ-4858     TCGA-CZ-5453     TCGA-CZ-5454 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-CZ-5455     TCGA-CZ-5457     TCGA-CZ-5459     TCGA-CZ-5462 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-CZ-5463     TCGA-CZ-5466     TCGA-CZ-5467     TCGA-CZ-5469 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-CZ-5470     TCGA-CZ-5989     TCGA-DV-5565     TCGA-DV-5566 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-DV-5569     TCGA-EU-5904 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  RBMX MUTATED        0      1      0
  RBMX WILD-TYPE     18     44     44
D25V12, multiclass
[1] "Remove cluster labels:" "RBMX MUTATED"          
clus
  RBMX MUTATED RBMX WILD-TYPE 
             1            106 
    TCGA-A3-3317     TCGA-A3-3358     TCGA-A3-3387     TCGA-AK-3440 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-AK-3458     TCGA-AK-3465     TCGA-B0-4700     TCGA-B0-4706 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-B0-4710     TCGA-B0-4810     TCGA-B0-4811     TCGA-B0-4836 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-B0-4837     TCGA-B0-4852     TCGA-B0-5080     TCGA-B0-5085 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-B0-5088     TCGA-B0-5399     TCGA-B0-5691     TCGA-B0-5692 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-B0-5693     TCGA-B0-5694     TCGA-B0-5695     TCGA-B0-5696 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-B0-5699     TCGA-B0-5702     TCGA-B0-5705     TCGA-B0-5709 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-B2-3923     TCGA-B2-3924     TCGA-B2-5633     TCGA-B2-5635 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-B4-5377     TCGA-B4-5836     TCGA-B8-4621     TCGA-B8-5545 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-B8-5550     TCGA-B8-5551     TCGA-B8-5552     TCGA-B8-5553 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-BP-4173     TCGA-BP-4340     TCGA-BP-4761     TCGA-BP-4770 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-BP-4787     TCGA-BP-4789     TCGA-BP-4790     TCGA-BP-4804 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-BP-4807     TCGA-BP-4961     TCGA-BP-4967     TCGA-BP-4968 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-BP-4970     TCGA-BP-4974     TCGA-BP-4976     TCGA-BP-4981 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-BP-4982     TCGA-BP-4985     TCGA-BP-4988     TCGA-BP-4989 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-BP-4992     TCGA-BP-4995     TCGA-BP-4998     TCGA-BP-5001 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-BP-5008     TCGA-BP-5009     TCGA-CJ-4870     TCGA-CJ-4875 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-CJ-4876     TCGA-CJ-4878     TCGA-CJ-4881     TCGA-CJ-4887 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-CJ-4889     TCGA-CJ-4890     TCGA-CJ-4895     TCGA-CJ-4900 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-CJ-5671     TCGA-CJ-5675     TCGA-CJ-5676     TCGA-CJ-5681 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-CJ-5683     TCGA-CJ-5686     TCGA-CJ-6031     TCGA-CJ-6032 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-CW-5585     TCGA-CW-5589     TCGA-CW-6087     TCGA-CZ-4854 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-CZ-4857     TCGA-CZ-4858     TCGA-CZ-5453     TCGA-CZ-5454 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-CZ-5455     TCGA-CZ-5457     TCGA-CZ-5459     TCGA-CZ-5462 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-CZ-5463     TCGA-CZ-5466     TCGA-CZ-5467     TCGA-CZ-5469 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-CZ-5470     TCGA-CZ-5989     TCGA-DV-5565     TCGA-DV-5566 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" "RBMX WILD-TYPE" 
    TCGA-DV-5569     TCGA-EU-5904 
"RBMX WILD-TYPE" "RBMX WILD-TYPE" 

Clustering(26) Variable = GPR172B MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  GPR172B MUTATED        0      0      0
  GPR172B WILD-TYPE     21     17     10
D26V1, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  GPR172B MUTATED        0      0      0      0      0      0      0
  GPR172B WILD-TYPE      4      6      3     10     10      7      8
D26V2, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  GPR172B MUTATED        2      1      1
  GPR172B WILD-TYPE    192    111    131
D26V3, multiclass
        clus
vv       GPR172B MUTATED GPR172B WILD-TYPE
  CLUS_1               2               192
  CLUS_2               1               111
  CLUS_3               1               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
  GPR172B MUTATED        0      1      0
  GPR172B WILD-TYPE    104     61     97
D26V4, multiclass
[1] "Remove cluster labels:" "GPR172B MUTATED"       
clus
  GPR172B MUTATED GPR172B WILD-TYPE 
                1               262 
       TCGA-A3-3357        TCGA-A3-3358        TCGA-A3-3367        TCGA-A3-3370 
"GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" 
       TCGA-A3-3373        TCGA-A3-3376        TCGA-A3-3385        TCGA-A3-3387 
"GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" 
       TCGA-AK-3425        TCGA-AK-3428        TCGA-AK-3431        TCGA-AK-3434 
"GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" 
       TCGA-AK-3440        TCGA-AK-3445        TCGA-AK-3450        TCGA-AK-3453 
"GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" 
       TCGA-AK-3454        TCGA-AK-3458        TCGA-AK-3460        TCGA-AK-3461 
"GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" 
       TCGA-B0-4690        TCGA-B0-4691        TCGA-B0-4693        TCGA-B0-4694 
"GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" 
       TCGA-B0-4697        TCGA-B0-4700        TCGA-B0-4703        TCGA-B0-4706 
"GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" 
       TCGA-B0-4707        TCGA-B0-4710        TCGA-B0-4712        TCGA-B0-4713 
"GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" 
       TCGA-B0-4714        TCGA-B0-4718        TCGA-B0-4810        TCGA-B0-4811 
"GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" 
       TCGA-B0-4813        TCGA-B0-4814        TCGA-B0-4815        TCGA-B0-4816 
"GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" 
       TCGA-B0-4817        TCGA-B0-4818        TCGA-B0-4819        TCGA-B0-4822 
"GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" 
       TCGA-B0-4823        TCGA-B0-4824        TCGA-B0-4827        TCGA-B0-4828 
"GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" 
       TCGA-B0-4841        TCGA-B0-4842        TCGA-B0-4843        TCGA-B0-4844 
"GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" 
       TCGA-B0-4845        TCGA-B0-4846        TCGA-B0-4847        TCGA-B0-4848 
"GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" 
       TCGA-B0-4849        TCGA-B0-4852        TCGA-B0-4945        TCGA-B0-5080 
"GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" 
       TCGA-B0-5083        TCGA-B0-5092        TCGA-B0-5094        TCGA-B0-5095 
"GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" 
       TCGA-B0-5096        TCGA-B0-5097        TCGA-B0-5098        TCGA-B0-5099 
"GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" 
       TCGA-B0-5100        TCGA-B0-5102        TCGA-B0-5104        TCGA-B0-5106 
"GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" 
       TCGA-B0-5107        TCGA-B0-5108        TCGA-B0-5109        TCGA-B0-5110 
"GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" 
       TCGA-B0-5113        TCGA-B0-5115        TCGA-B0-5116        TCGA-B0-5117 
"GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" 
       TCGA-B0-5119        TCGA-B0-5120        TCGA-B0-5121        TCGA-B0-5399 
"GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" 
       TCGA-B0-5400        TCGA-B0-5402        TCGA-B0-5691        TCGA-B0-5692 
"GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" 
       TCGA-B0-5693        TCGA-B0-5694        TCGA-B0-5695        TCGA-B0-5696 
"GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" 
       TCGA-B0-5697        TCGA-B0-5698        TCGA-B0-5699        TCGA-B0-5701 
"GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" 
       TCGA-B0-5702        TCGA-B0-5703        TCGA-B0-5705        TCGA-B0-5706 
"GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" 
       TCGA-B0-5707        TCGA-B0-5709        TCGA-B0-5710        TCGA-B0-5711 
"GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" 
       TCGA-B0-5712        TCGA-B0-5713        TCGA-B0-5812        TCGA-B2-3924 
"GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" 
       TCGA-B2-4101        TCGA-B2-5633        TCGA-B2-5635        TCGA-B2-5641 
"GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" 
       TCGA-B4-5377        TCGA-B4-5832        TCGA-B4-5834        TCGA-B4-5835 
"GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" 
       TCGA-B4-5836        TCGA-B4-5838        TCGA-B4-5843        TCGA-B4-5844 
"GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" 
       TCGA-B8-4146        TCGA-B8-4153        TCGA-B8-4621        TCGA-B8-4622 
"GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" 
       TCGA-B8-5158        TCGA-B8-5159        TCGA-B8-5162        TCGA-B8-5163 
"GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" 
       TCGA-B8-5164        TCGA-B8-5165        TCGA-B8-5545        TCGA-B8-5546 
"GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" 
       TCGA-B8-5549        TCGA-B8-5550        TCGA-B8-5551        TCGA-B8-5552 
"GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" 
       TCGA-B8-5553        TCGA-BP-4177        TCGA-BP-4760        TCGA-BP-4770 
"GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" 
       TCGA-BP-4795        TCGA-BP-4801        TCGA-BP-4993        TCGA-BP-5010 
"GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" 
       TCGA-BP-5168        TCGA-BP-5169        TCGA-BP-5170        TCGA-BP-5173 
"GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" 
       TCGA-BP-5174        TCGA-BP-5175        TCGA-BP-5176        TCGA-BP-5177 
"GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" 
       TCGA-BP-5178        TCGA-BP-5180        TCGA-BP-5181        TCGA-BP-5182 
"GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" 
       TCGA-BP-5183        TCGA-BP-5184        TCGA-BP-5185        TCGA-BP-5186 
"GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" 
       TCGA-BP-5187        TCGA-BP-5189        TCGA-BP-5190        TCGA-BP-5191 
"GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" 
       TCGA-BP-5192        TCGA-BP-5194        TCGA-BP-5195        TCGA-BP-5196 
"GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" 
       TCGA-BP-5198        TCGA-BP-5199        TCGA-BP-5200        TCGA-BP-5201 
"GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" 
       TCGA-BP-5202        TCGA-CJ-4869        TCGA-CJ-4882        TCGA-CJ-4897 
"GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" 
       TCGA-CJ-4901        TCGA-CJ-4902        TCGA-CJ-4903        TCGA-CJ-4904 
"GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" 
       TCGA-CJ-4905        TCGA-CJ-4907        TCGA-CJ-4908        TCGA-CJ-4912 
"GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" 
       TCGA-CJ-4913        TCGA-CJ-4916        TCGA-CJ-4918        TCGA-CJ-4920 
"GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" 
       TCGA-CJ-4923        TCGA-CJ-5671        TCGA-CJ-5672        TCGA-CJ-5675 
"GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" 
       TCGA-CJ-5676        TCGA-CJ-5677        TCGA-CJ-5678        TCGA-CJ-5679 
"GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" 
       TCGA-CJ-5680        TCGA-CJ-5681        TCGA-CJ-5682        TCGA-CJ-5683 
"GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" 
       TCGA-CJ-5684        TCGA-CJ-5686        TCGA-CJ-6027        TCGA-CJ-6028 
"GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" 
       TCGA-CJ-6030        TCGA-CJ-6031        TCGA-CJ-6032        TCGA-CJ-6033 
"GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" 
       TCGA-CW-5580        TCGA-CW-5581        TCGA-CW-5583        TCGA-CW-5585 
"GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" 
       TCGA-CW-5588        TCGA-CW-5589        TCGA-CW-5591        TCGA-CW-6087 
"GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" 
       TCGA-CW-6090        TCGA-CW-6093        TCGA-CW-6097        TCGA-CZ-4853 
"GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" 
       TCGA-CZ-4856        TCGA-CZ-4859        TCGA-CZ-4863        TCGA-CZ-4865 
"GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" 
       TCGA-CZ-4866        TCGA-CZ-5451        TCGA-CZ-5452        TCGA-CZ-5453 
"GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" 
       TCGA-CZ-5454        TCGA-CZ-5455        TCGA-CZ-5456        TCGA-CZ-5457 
"GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" 
       TCGA-CZ-5458        TCGA-CZ-5459        TCGA-CZ-5460        TCGA-CZ-5461 
"GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" 
       TCGA-CZ-5462        TCGA-CZ-5463        TCGA-CZ-5465        TCGA-CZ-5466 
"GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" 
       TCGA-CZ-5467        TCGA-CZ-5468        TCGA-CZ-5469        TCGA-CZ-5470 
"GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" 
       TCGA-CZ-5982        TCGA-CZ-5984        TCGA-CZ-5985        TCGA-CZ-5986 
"GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" 
       TCGA-CZ-5987        TCGA-CZ-5988        TCGA-CZ-5989        TCGA-DV-5565 
"GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" 
       TCGA-DV-5566        TCGA-DV-5568        TCGA-DV-5569        TCGA-DV-5574 
"GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" 
       TCGA-DV-5575        TCGA-DV-5576        TCGA-EU-5904        TCGA-EU-5905 
"GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" 
       TCGA-EU-5906        TCGA-EU-5907 
"GPR172B WILD-TYPE" "GPR172B WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  GPR172B MUTATED        0      1      0      2      0      0
  GPR172B WILD-TYPE     97     56     67     65     72     41
D26V5, multiclass
        clus
vv       GPR172B MUTATED GPR172B WILD-TYPE
  CLUS_1               0                97
  CLUS_2               1                56
  CLUS_3               0                67
  CLUS_4               2                65
  CLUS_5               0                72
  CLUS_6               0                41
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  GPR172B MUTATED        0      2      1
  GPR172B WILD-TYPE    107    176    115
D26V6, multiclass
        clus
vv       GPR172B MUTATED GPR172B WILD-TYPE
  CLUS_1               0               107
  CLUS_2               2               176
  CLUS_3               1               115
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  GPR172B MUTATED        0      3      1
  GPR172B WILD-TYPE     87    178    170
D26V7, multiclass
        clus
vv       GPR172B MUTATED GPR172B WILD-TYPE
  CLUS_1               0                87
  CLUS_2               3               178
  CLUS_3               1               170
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  GPR172B MUTATED        1      0      2      1      0      0
  GPR172B WILD-TYPE    101     25    149    115     30     15
D26V8, multiclass
        clus
vv       GPR172B MUTATED GPR172B WILD-TYPE
  CLUS_1               1               101
  CLUS_2               0                25
  CLUS_3               2               149
  CLUS_4               1               115
  CLUS_5               0                30
  CLUS_6               0                15
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  GPR172B MUTATED        0      1      2
  GPR172B WILD-TYPE    101    174    153
D26V9, multiclass
        clus
vv       GPR172B MUTATED GPR172B WILD-TYPE
  CLUS_1               0               101
  CLUS_2               1               174
  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 CLUS_4
  GPR172B MUTATED        1      1      1      0
  GPR172B WILD-TYPE    117    114    162     35
D26V10, multiclass
        clus
vv       GPR172B MUTATED GPR172B WILD-TYPE
  CLUS_1               1               117
  CLUS_2               1               114
  CLUS_3               1               162
  CLUS_4               0                35
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GPR172B MUTATED        0      0      0      1
  GPR172B WILD-TYPE     16     20     43     27
D26V11, multiclass
[1] "Remove cluster labels:" "GPR172B MUTATED"       
clus
  GPR172B MUTATED GPR172B WILD-TYPE 
                1               106 
       TCGA-A3-3317        TCGA-A3-3358        TCGA-A3-3387        TCGA-AK-3440 
"GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" 
       TCGA-AK-3458        TCGA-AK-3465        TCGA-B0-4700        TCGA-B0-4706 
"GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" 
       TCGA-B0-4710        TCGA-B0-4712        TCGA-B0-4810        TCGA-B0-4811 
"GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" 
       TCGA-B0-4836        TCGA-B0-4837        TCGA-B0-4852        TCGA-B0-5080 
"GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" 
       TCGA-B0-5085        TCGA-B0-5088        TCGA-B0-5399        TCGA-B0-5691 
"GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" 
       TCGA-B0-5692        TCGA-B0-5693        TCGA-B0-5694        TCGA-B0-5695 
"GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" 
       TCGA-B0-5696        TCGA-B0-5699        TCGA-B0-5702        TCGA-B0-5705 
"GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" 
       TCGA-B0-5709        TCGA-B2-3923        TCGA-B2-3924        TCGA-B2-5633 
"GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" 
       TCGA-B2-5635        TCGA-B4-5377        TCGA-B4-5836        TCGA-B8-4621 
"GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" 
       TCGA-B8-5545        TCGA-B8-5550        TCGA-B8-5551        TCGA-B8-5552 
"GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" 
       TCGA-B8-5553        TCGA-BP-4173        TCGA-BP-4340        TCGA-BP-4770 
"GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" 
       TCGA-BP-4787        TCGA-BP-4789        TCGA-BP-4790        TCGA-BP-4804 
"GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" 
       TCGA-BP-4807        TCGA-BP-4961        TCGA-BP-4967        TCGA-BP-4968 
"GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" 
       TCGA-BP-4970        TCGA-BP-4974        TCGA-BP-4976        TCGA-BP-4981 
"GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" 
       TCGA-BP-4982        TCGA-BP-4985        TCGA-BP-4988        TCGA-BP-4989 
"GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" 
       TCGA-BP-4992        TCGA-BP-4995        TCGA-BP-4998        TCGA-BP-5001 
"GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" 
       TCGA-BP-5008        TCGA-BP-5009        TCGA-CJ-4870        TCGA-CJ-4875 
"GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" 
       TCGA-CJ-4876        TCGA-CJ-4878        TCGA-CJ-4881        TCGA-CJ-4887 
"GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" 
       TCGA-CJ-4889        TCGA-CJ-4890        TCGA-CJ-4895        TCGA-CJ-4900 
"GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" 
       TCGA-CJ-5671        TCGA-CJ-5675        TCGA-CJ-5676        TCGA-CJ-5681 
"GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" 
       TCGA-CJ-5683        TCGA-CJ-5686        TCGA-CJ-6031        TCGA-CJ-6032 
"GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" 
       TCGA-CW-5585        TCGA-CW-5589        TCGA-CW-6087        TCGA-CZ-4854 
"GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" 
       TCGA-CZ-4857        TCGA-CZ-4858        TCGA-CZ-5453        TCGA-CZ-5454 
"GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" 
       TCGA-CZ-5455        TCGA-CZ-5457        TCGA-CZ-5459        TCGA-CZ-5462 
"GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" 
       TCGA-CZ-5463        TCGA-CZ-5466        TCGA-CZ-5467        TCGA-CZ-5469 
"GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" 
       TCGA-CZ-5470        TCGA-CZ-5989        TCGA-DV-5565        TCGA-DV-5566 
"GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" 
       TCGA-DV-5569        TCGA-EU-5904 
"GPR172B WILD-TYPE" "GPR172B WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  GPR172B MUTATED        0      1      0
  GPR172B WILD-TYPE     18     44     44
D26V12, multiclass
[1] "Remove cluster labels:" "GPR172B MUTATED"       
clus
  GPR172B MUTATED GPR172B WILD-TYPE 
                1               106 
       TCGA-A3-3317        TCGA-A3-3358        TCGA-A3-3387        TCGA-AK-3440 
"GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" 
       TCGA-AK-3458        TCGA-AK-3465        TCGA-B0-4700        TCGA-B0-4706 
"GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" 
       TCGA-B0-4710        TCGA-B0-4712        TCGA-B0-4810        TCGA-B0-4811 
"GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" 
       TCGA-B0-4836        TCGA-B0-4837        TCGA-B0-4852        TCGA-B0-5080 
"GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" 
       TCGA-B0-5085        TCGA-B0-5088        TCGA-B0-5399        TCGA-B0-5691 
"GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" 
       TCGA-B0-5692        TCGA-B0-5693        TCGA-B0-5694        TCGA-B0-5695 
"GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" 
       TCGA-B0-5696        TCGA-B0-5699        TCGA-B0-5702        TCGA-B0-5705 
"GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" 
       TCGA-B0-5709        TCGA-B2-3923        TCGA-B2-3924        TCGA-B2-5633 
"GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" 
       TCGA-B2-5635        TCGA-B4-5377        TCGA-B4-5836        TCGA-B8-4621 
"GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" 
       TCGA-B8-5545        TCGA-B8-5550        TCGA-B8-5551        TCGA-B8-5552 
"GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" 
       TCGA-B8-5553        TCGA-BP-4173        TCGA-BP-4340        TCGA-BP-4770 
"GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" 
       TCGA-BP-4787        TCGA-BP-4789        TCGA-BP-4790        TCGA-BP-4804 
"GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" 
       TCGA-BP-4807        TCGA-BP-4961        TCGA-BP-4967        TCGA-BP-4968 
"GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" 
       TCGA-BP-4970        TCGA-BP-4974        TCGA-BP-4976        TCGA-BP-4981 
"GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" 
       TCGA-BP-4982        TCGA-BP-4985        TCGA-BP-4988        TCGA-BP-4989 
"GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" 
       TCGA-BP-4992        TCGA-BP-4995        TCGA-BP-4998        TCGA-BP-5001 
"GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" 
       TCGA-BP-5008        TCGA-BP-5009        TCGA-CJ-4870        TCGA-CJ-4875 
"GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" 
       TCGA-CJ-4876        TCGA-CJ-4878        TCGA-CJ-4881        TCGA-CJ-4887 
"GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" 
       TCGA-CJ-4889        TCGA-CJ-4890        TCGA-CJ-4895        TCGA-CJ-4900 
"GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" 
       TCGA-CJ-5671        TCGA-CJ-5675        TCGA-CJ-5676        TCGA-CJ-5681 
"GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" 
       TCGA-CJ-5683        TCGA-CJ-5686        TCGA-CJ-6031        TCGA-CJ-6032 
"GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" 
       TCGA-CW-5585        TCGA-CW-5589        TCGA-CW-6087        TCGA-CZ-4854 
"GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" 
       TCGA-CZ-4857        TCGA-CZ-4858        TCGA-CZ-5453        TCGA-CZ-5454 
"GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" 
       TCGA-CZ-5455        TCGA-CZ-5457        TCGA-CZ-5459        TCGA-CZ-5462 
"GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" 
       TCGA-CZ-5463        TCGA-CZ-5466        TCGA-CZ-5467        TCGA-CZ-5469 
"GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" 
       TCGA-CZ-5470        TCGA-CZ-5989        TCGA-DV-5565        TCGA-DV-5566 
"GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" "GPR172B WILD-TYPE" 
       TCGA-DV-5569        TCGA-EU-5904 
"GPR172B WILD-TYPE" "GPR172B WILD-TYPE" 

Clustering(27) Variable = FGFR3 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FGFR3 MUTATED        0      0      0
  FGFR3 WILD-TYPE     21     17     10
D27V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  FGFR3 MUTATED        0      0      0      0      0      0      0
  FGFR3 WILD-TYPE      4      6      3     10     10      7      8
D27V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FGFR3 MUTATED        2      0      2
  FGFR3 WILD-TYPE    192    112    130
D27V3, multiclass
        clus
vv       FGFR3 MUTATED FGFR3 WILD-TYPE
  CLUS_1             2             192
  CLUS_2             0             112
  CLUS_3             2             130
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FGFR3 MUTATED        1      1      2
  FGFR3 WILD-TYPE    103     61     95
D27V4, multiclass
        clus
vv       FGFR3 MUTATED FGFR3 WILD-TYPE
  CLUS_1             1             103
  CLUS_2             1              61
  CLUS_3             2              95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  FGFR3 MUTATED        1      0      0      1      1      0
  FGFR3 WILD-TYPE     96     57     67     66     71     41
D27V5, multiclass
        clus
vv       FGFR3 MUTATED FGFR3 WILD-TYPE
  CLUS_1             1              96
  CLUS_2             0              57
  CLUS_3             0              67
  CLUS_4             1              66
  CLUS_5             1              71
  CLUS_6             0              41
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FGFR3 MUTATED        1      1      1
  FGFR3 WILD-TYPE    106    177    115
D27V6, multiclass
        clus
vv       FGFR3 MUTATED FGFR3 WILD-TYPE
  CLUS_1             1             106
  CLUS_2             1             177
  CLUS_3             1             115
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FGFR3 MUTATED        1      2      1
  FGFR3 WILD-TYPE     86    179    170
D27V7, multiclass
        clus
vv       FGFR3 MUTATED FGFR3 WILD-TYPE
  CLUS_1             1              86
  CLUS_2             2             179
  CLUS_3             1             170
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  FGFR3 MUTATED        2      0      0      2      0      0
  FGFR3 WILD-TYPE    100     25    151    114     30     15
D27V8, multiclass
        clus
vv       FGFR3 MUTATED FGFR3 WILD-TYPE
  CLUS_1             2             100
  CLUS_2             0              25
  CLUS_3             0             151
  CLUS_4             2             114
  CLUS_5             0              30
  CLUS_6             0              15
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FGFR3 MUTATED        1      1      2
  FGFR3 WILD-TYPE    100    174    153
D27V9, multiclass
        clus
vv       FGFR3 MUTATED FGFR3 WILD-TYPE
  CLUS_1             1             100
  CLUS_2             1             174
  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 CLUS_4
  FGFR3 MUTATED        3      0      1      0
  FGFR3 WILD-TYPE    115    115    162     35
D27V10, multiclass
        clus
vv       FGFR3 MUTATED FGFR3 WILD-TYPE
  CLUS_1             3             115
  CLUS_2             0             115
  CLUS_3             1             162
  CLUS_4             0              35
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FGFR3 MUTATED        0      0      0      0
  FGFR3 WILD-TYPE     16     20     43     28
D27V11, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FGFR3 MUTATED        0      0      0
  FGFR3 WILD-TYPE     18     45     44
D27V12, multiclass

Clustering(28) Variable = ARAP3 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ARAP3 MUTATED        0      1      0
  ARAP3 WILD-TYPE     21     16     10
D28V1, multiclass
[1] "Remove cluster labels:" "ARAP3 MUTATED"         
clus
  ARAP3 MUTATED ARAP3 WILD-TYPE 
              1              47 
     TCGA-A3-3311      TCGA-A3-3316      TCGA-A3-3317      TCGA-A3-3322 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-A3-3326      TCGA-A3-3331      TCGA-A3-3347      TCGA-A3-3349 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-A3-3362      TCGA-A3-3363      TCGA-A3-3365      TCGA-A3-3374 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-A3-3380      TCGA-A3-3383      TCGA-AK-3427      TCGA-AK-3440 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-AK-3443      TCGA-AK-3453      TCGA-AK-3455      TCGA-AK-3456 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-AK-3465      TCGA-AS-3777      TCGA-AS-3778      TCGA-B2-3923 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-B2-3924      TCGA-B2-4098      TCGA-B2-4099      TCGA-B8-4143 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-B8-4148      TCGA-B8-4151      TCGA-B8-4154      TCGA-B8-4619 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-B8-4620      TCGA-BP-4161      TCGA-BP-4162      TCGA-BP-4163 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-BP-4164      TCGA-BP-4167      TCGA-CJ-4634      TCGA-CJ-4636 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-CJ-4637      TCGA-CJ-4638      TCGA-CJ-4639      TCGA-CJ-4640 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-CJ-4641      TCGA-CJ-4643      TCGA-CJ-4644 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  ARAP3 MUTATED        0      1      0      0      0      0      0
  ARAP3 WILD-TYPE      4      5      3     10     10      7      8
D28V2, multiclass
[1] "Remove cluster labels:" "ARAP3 MUTATED"         
clus
  ARAP3 MUTATED ARAP3 WILD-TYPE 
              1              47 
     TCGA-A3-3311      TCGA-A3-3316      TCGA-A3-3317      TCGA-A3-3322 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-A3-3326      TCGA-A3-3331      TCGA-A3-3347      TCGA-A3-3349 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-A3-3362      TCGA-A3-3363      TCGA-A3-3365      TCGA-A3-3374 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-A3-3380      TCGA-A3-3383      TCGA-AK-3427      TCGA-AK-3440 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-AK-3443      TCGA-AK-3453      TCGA-AK-3455      TCGA-AK-3456 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-AK-3465      TCGA-AS-3777      TCGA-AS-3778      TCGA-B2-3923 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-B2-3924      TCGA-B2-4098      TCGA-B2-4099      TCGA-B8-4143 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-B8-4148      TCGA-B8-4151      TCGA-B8-4154      TCGA-B8-4619 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-B8-4620      TCGA-BP-4161      TCGA-BP-4162      TCGA-BP-4163 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-BP-4164      TCGA-BP-4167      TCGA-CJ-4634      TCGA-CJ-4636 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-CJ-4637      TCGA-CJ-4638      TCGA-CJ-4639      TCGA-CJ-4640 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-CJ-4641      TCGA-CJ-4643      TCGA-CJ-4644 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ARAP3 MUTATED        2      1      0
  ARAP3 WILD-TYPE    192    111    132
D28V3, multiclass
        clus
vv       ARAP3 MUTATED ARAP3 WILD-TYPE
  CLUS_1             2             192
  CLUS_2             1             111
  CLUS_3             0             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
  ARAP3 MUTATED        0      1      0
  ARAP3 WILD-TYPE    104     61     97
D28V4, multiclass
[1] "Remove cluster labels:" "ARAP3 MUTATED"         
clus
  ARAP3 MUTATED ARAP3 WILD-TYPE 
              1             262 
     TCGA-A3-3357      TCGA-A3-3358      TCGA-A3-3367      TCGA-A3-3370 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-A3-3373      TCGA-A3-3376      TCGA-A3-3385      TCGA-A3-3387 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-AK-3425      TCGA-AK-3428      TCGA-AK-3431      TCGA-AK-3434 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-AK-3440      TCGA-AK-3445      TCGA-AK-3450      TCGA-AK-3453 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-AK-3454      TCGA-AK-3458      TCGA-AK-3460      TCGA-AK-3461 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-B0-4690      TCGA-B0-4691      TCGA-B0-4693      TCGA-B0-4694 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-B0-4697      TCGA-B0-4700      TCGA-B0-4703      TCGA-B0-4706 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-B0-4707      TCGA-B0-4710      TCGA-B0-4712      TCGA-B0-4713 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-B0-4714      TCGA-B0-4718      TCGA-B0-4810      TCGA-B0-4811 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-B0-4813      TCGA-B0-4814      TCGA-B0-4815      TCGA-B0-4816 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-B0-4817      TCGA-B0-4818      TCGA-B0-4822      TCGA-B0-4823 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-B0-4824      TCGA-B0-4827      TCGA-B0-4828      TCGA-B0-4841 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-B0-4842      TCGA-B0-4843      TCGA-B0-4844      TCGA-B0-4845 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-B0-4846      TCGA-B0-4847      TCGA-B0-4848      TCGA-B0-4849 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-B0-4852      TCGA-B0-4945      TCGA-B0-5080      TCGA-B0-5083 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-B0-5092      TCGA-B0-5094      TCGA-B0-5095      TCGA-B0-5096 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-B0-5097      TCGA-B0-5098      TCGA-B0-5099      TCGA-B0-5100 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-B0-5102      TCGA-B0-5104      TCGA-B0-5106      TCGA-B0-5107 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-B0-5108      TCGA-B0-5109      TCGA-B0-5110      TCGA-B0-5113 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-B0-5115      TCGA-B0-5116      TCGA-B0-5117      TCGA-B0-5119 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-B0-5120      TCGA-B0-5121      TCGA-B0-5399      TCGA-B0-5400 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-B0-5402      TCGA-B0-5691      TCGA-B0-5692      TCGA-B0-5693 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-B0-5694      TCGA-B0-5695      TCGA-B0-5696      TCGA-B0-5697 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-B0-5698      TCGA-B0-5699      TCGA-B0-5701      TCGA-B0-5702 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-B0-5703      TCGA-B0-5705      TCGA-B0-5706      TCGA-B0-5707 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-B0-5709      TCGA-B0-5710      TCGA-B0-5711      TCGA-B0-5712 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-B0-5713      TCGA-B0-5812      TCGA-B2-3924      TCGA-B2-4101 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-B2-5633      TCGA-B2-5635      TCGA-B2-5641      TCGA-B4-5377 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-B4-5832      TCGA-B4-5834      TCGA-B4-5835      TCGA-B4-5836 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-B4-5838      TCGA-B4-5843      TCGA-B4-5844      TCGA-B8-4146 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-B8-4153      TCGA-B8-4621      TCGA-B8-4622      TCGA-B8-5158 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-B8-5159      TCGA-B8-5162      TCGA-B8-5163      TCGA-B8-5164 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-B8-5165      TCGA-B8-5545      TCGA-B8-5546      TCGA-B8-5549 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-B8-5550      TCGA-B8-5551      TCGA-B8-5552      TCGA-B8-5553 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-BP-4177      TCGA-BP-4760      TCGA-BP-4770      TCGA-BP-4782 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-BP-4795      TCGA-BP-4801      TCGA-BP-4993      TCGA-BP-5010 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-BP-5168      TCGA-BP-5169      TCGA-BP-5170      TCGA-BP-5173 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-BP-5174      TCGA-BP-5175      TCGA-BP-5176      TCGA-BP-5177 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-BP-5178      TCGA-BP-5180      TCGA-BP-5181      TCGA-BP-5182 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-BP-5183      TCGA-BP-5184      TCGA-BP-5185      TCGA-BP-5186 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-BP-5187      TCGA-BP-5189      TCGA-BP-5190      TCGA-BP-5191 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-BP-5192      TCGA-BP-5194      TCGA-BP-5195      TCGA-BP-5196 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-BP-5198      TCGA-BP-5199      TCGA-BP-5200      TCGA-BP-5201 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-BP-5202      TCGA-CJ-4869      TCGA-CJ-4882      TCGA-CJ-4897 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-CJ-4901      TCGA-CJ-4902      TCGA-CJ-4903      TCGA-CJ-4904 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-CJ-4905      TCGA-CJ-4907      TCGA-CJ-4908      TCGA-CJ-4912 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-CJ-4913      TCGA-CJ-4916      TCGA-CJ-4918      TCGA-CJ-4920 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-CJ-4923      TCGA-CJ-5671      TCGA-CJ-5672      TCGA-CJ-5675 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-CJ-5676      TCGA-CJ-5677      TCGA-CJ-5678      TCGA-CJ-5679 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-CJ-5680      TCGA-CJ-5681      TCGA-CJ-5682      TCGA-CJ-5683 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-CJ-5684      TCGA-CJ-5686      TCGA-CJ-6027      TCGA-CJ-6028 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-CJ-6030      TCGA-CJ-6031      TCGA-CJ-6032      TCGA-CJ-6033 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-CW-5580      TCGA-CW-5581      TCGA-CW-5583      TCGA-CW-5585 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-CW-5588      TCGA-CW-5589      TCGA-CW-5591      TCGA-CW-6087 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-CW-6090      TCGA-CW-6093      TCGA-CW-6097      TCGA-CZ-4853 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-CZ-4856      TCGA-CZ-4859      TCGA-CZ-4863      TCGA-CZ-4865 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-CZ-4866      TCGA-CZ-5451      TCGA-CZ-5452      TCGA-CZ-5453 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-CZ-5454      TCGA-CZ-5455      TCGA-CZ-5456      TCGA-CZ-5457 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-CZ-5458      TCGA-CZ-5459      TCGA-CZ-5460      TCGA-CZ-5461 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-CZ-5462      TCGA-CZ-5463      TCGA-CZ-5465      TCGA-CZ-5466 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-CZ-5467      TCGA-CZ-5468      TCGA-CZ-5469      TCGA-CZ-5470 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-CZ-5982      TCGA-CZ-5984      TCGA-CZ-5985      TCGA-CZ-5986 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-CZ-5987      TCGA-CZ-5988      TCGA-CZ-5989      TCGA-DV-5565 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-DV-5566      TCGA-DV-5568      TCGA-DV-5569      TCGA-DV-5574 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-DV-5575      TCGA-DV-5576      TCGA-EU-5904      TCGA-EU-5905 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-EU-5906      TCGA-EU-5907 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ARAP3 MUTATED        1      0      1      0      1      0
  ARAP3 WILD-TYPE     96     57     66     67     71     41
D28V5, multiclass
        clus
vv       ARAP3 MUTATED ARAP3 WILD-TYPE
  CLUS_1             1              96
  CLUS_2             0              57
  CLUS_3             1              66
  CLUS_4             0              67
  CLUS_5             1              71
  CLUS_6             0              41
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ARAP3 MUTATED        1      1      1
  ARAP3 WILD-TYPE    106    177    115
D28V6, multiclass
        clus
vv       ARAP3 MUTATED ARAP3 WILD-TYPE
  CLUS_1             1             106
  CLUS_2             1             177
  CLUS_3             1             115
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ARAP3 MUTATED        0      1      2
  ARAP3 WILD-TYPE     87    180    169
D28V7, multiclass
        clus
vv       ARAP3 MUTATED ARAP3 WILD-TYPE
  CLUS_1             0              87
  CLUS_2             1             180
  CLUS_3             2             169
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ARAP3 MUTATED        1      0      1      1      0      0
  ARAP3 WILD-TYPE    101     25    150    115     30     15
D28V8, multiclass
        clus
vv       ARAP3 MUTATED ARAP3 WILD-TYPE
  CLUS_1             1             101
  CLUS_2             0              25
  CLUS_3             1             150
  CLUS_4             1             115
  CLUS_5             0              30
  CLUS_6             0              15
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ARAP3 MUTATED        0      2      1
  ARAP3 WILD-TYPE    101    173    154
D28V9, multiclass
        clus
vv       ARAP3 MUTATED ARAP3 WILD-TYPE
  CLUS_1             0             101
  CLUS_2             2             173
  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 CLUS_4
  ARAP3 MUTATED        1      0      2      0
  ARAP3 WILD-TYPE    117    115    161     35
D28V10, multiclass
        clus
vv       ARAP3 MUTATED ARAP3 WILD-TYPE
  CLUS_1             1             117
  CLUS_2             0             115
  CLUS_3             2             161
  CLUS_4             0              35
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ARAP3 MUTATED        1      0      0      0
  ARAP3 WILD-TYPE     15     20     43     28
D28V11, multiclass
[1] "Remove cluster labels:" "ARAP3 MUTATED"         
clus
  ARAP3 MUTATED ARAP3 WILD-TYPE 
              1             106 
     TCGA-A3-3317      TCGA-A3-3358      TCGA-A3-3387      TCGA-AK-3440 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-AK-3458      TCGA-AK-3465      TCGA-B0-4700      TCGA-B0-4706 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-B0-4710      TCGA-B0-4712      TCGA-B0-4810      TCGA-B0-4811 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-B0-4836      TCGA-B0-4837      TCGA-B0-4852      TCGA-B0-5080 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-B0-5085      TCGA-B0-5088      TCGA-B0-5399      TCGA-B0-5691 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-B0-5692      TCGA-B0-5693      TCGA-B0-5694      TCGA-B0-5695 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-B0-5696      TCGA-B0-5699      TCGA-B0-5702      TCGA-B0-5705 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-B0-5709      TCGA-B2-3923      TCGA-B2-3924      TCGA-B2-5633 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-B2-5635      TCGA-B4-5377      TCGA-B4-5836      TCGA-B8-4621 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-B8-5545      TCGA-B8-5550      TCGA-B8-5551      TCGA-B8-5552 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-B8-5553      TCGA-BP-4173      TCGA-BP-4340      TCGA-BP-4761 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-BP-4770      TCGA-BP-4787      TCGA-BP-4789      TCGA-BP-4790 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-BP-4804      TCGA-BP-4807      TCGA-BP-4961      TCGA-BP-4967 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-BP-4968      TCGA-BP-4970      TCGA-BP-4974      TCGA-BP-4976 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-BP-4981      TCGA-BP-4982      TCGA-BP-4985      TCGA-BP-4988 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-BP-4989      TCGA-BP-4992      TCGA-BP-4995      TCGA-BP-4998 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-BP-5001      TCGA-BP-5008      TCGA-BP-5009      TCGA-CJ-4875 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-CJ-4876      TCGA-CJ-4878      TCGA-CJ-4881      TCGA-CJ-4887 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-CJ-4889      TCGA-CJ-4890      TCGA-CJ-4895      TCGA-CJ-4900 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-CJ-5671      TCGA-CJ-5675      TCGA-CJ-5676      TCGA-CJ-5681 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-CJ-5683      TCGA-CJ-5686      TCGA-CJ-6031      TCGA-CJ-6032 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-CW-5585      TCGA-CW-5589      TCGA-CW-6087      TCGA-CZ-4854 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-CZ-4857      TCGA-CZ-4858      TCGA-CZ-5453      TCGA-CZ-5454 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-CZ-5455      TCGA-CZ-5457      TCGA-CZ-5459      TCGA-CZ-5462 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-CZ-5463      TCGA-CZ-5466      TCGA-CZ-5467      TCGA-CZ-5469 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-CZ-5470      TCGA-CZ-5989      TCGA-DV-5565      TCGA-DV-5566 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-DV-5569      TCGA-EU-5904 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ARAP3 MUTATED        1      0      0
  ARAP3 WILD-TYPE     17     45     44
D28V12, multiclass
[1] "Remove cluster labels:" "ARAP3 MUTATED"         
clus
  ARAP3 MUTATED ARAP3 WILD-TYPE 
              1             106 
     TCGA-A3-3317      TCGA-A3-3358      TCGA-A3-3387      TCGA-AK-3440 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-AK-3458      TCGA-AK-3465      TCGA-B0-4700      TCGA-B0-4706 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-B0-4710      TCGA-B0-4712      TCGA-B0-4810      TCGA-B0-4811 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-B0-4836      TCGA-B0-4837      TCGA-B0-4852      TCGA-B0-5080 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-B0-5085      TCGA-B0-5088      TCGA-B0-5399      TCGA-B0-5691 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-B0-5692      TCGA-B0-5693      TCGA-B0-5694      TCGA-B0-5695 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-B0-5696      TCGA-B0-5699      TCGA-B0-5702      TCGA-B0-5705 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-B0-5709      TCGA-B2-3923      TCGA-B2-3924      TCGA-B2-5633 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-B2-5635      TCGA-B4-5377      TCGA-B4-5836      TCGA-B8-4621 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-B8-5545      TCGA-B8-5550      TCGA-B8-5551      TCGA-B8-5552 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-B8-5553      TCGA-BP-4173      TCGA-BP-4340      TCGA-BP-4761 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-BP-4770      TCGA-BP-4787      TCGA-BP-4789      TCGA-BP-4790 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-BP-4804      TCGA-BP-4807      TCGA-BP-4961      TCGA-BP-4967 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-BP-4968      TCGA-BP-4970      TCGA-BP-4974      TCGA-BP-4976 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-BP-4981      TCGA-BP-4982      TCGA-BP-4985      TCGA-BP-4988 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-BP-4989      TCGA-BP-4992      TCGA-BP-4995      TCGA-BP-4998 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-BP-5001      TCGA-BP-5008      TCGA-BP-5009      TCGA-CJ-4875 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-CJ-4876      TCGA-CJ-4878      TCGA-CJ-4881      TCGA-CJ-4887 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-CJ-4889      TCGA-CJ-4890      TCGA-CJ-4895      TCGA-CJ-4900 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-CJ-5671      TCGA-CJ-5675      TCGA-CJ-5676      TCGA-CJ-5681 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-CJ-5683      TCGA-CJ-5686      TCGA-CJ-6031      TCGA-CJ-6032 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-CW-5585      TCGA-CW-5589      TCGA-CW-6087      TCGA-CZ-4854 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-CZ-4857      TCGA-CZ-4858      TCGA-CZ-5453      TCGA-CZ-5454 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-CZ-5455      TCGA-CZ-5457      TCGA-CZ-5459      TCGA-CZ-5462 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-CZ-5463      TCGA-CZ-5466      TCGA-CZ-5467      TCGA-CZ-5469 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-CZ-5470      TCGA-CZ-5989      TCGA-DV-5565      TCGA-DV-5566 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-DV-5569      TCGA-EU-5904 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 

Clustering(29) Variable = OPTC MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  OPTC MUTATED        0      1      0
  OPTC WILD-TYPE     21     16     10
D29V1, multiclass
[1] "Remove cluster labels:" "OPTC MUTATED"          
clus
  OPTC MUTATED OPTC WILD-TYPE 
             1             47 
    TCGA-A3-3316     TCGA-A3-3317     TCGA-A3-3322     TCGA-A3-3323 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-A3-3326     TCGA-A3-3331     TCGA-A3-3347     TCGA-A3-3349 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-A3-3362     TCGA-A3-3363     TCGA-A3-3365     TCGA-A3-3374 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-A3-3380     TCGA-A3-3383     TCGA-AK-3427     TCGA-AK-3440 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-AK-3443     TCGA-AK-3453     TCGA-AK-3455     TCGA-AK-3456 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-AK-3465     TCGA-AS-3777     TCGA-AS-3778     TCGA-B2-3923 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-B2-3924     TCGA-B2-4098     TCGA-B2-4099     TCGA-B8-4143 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-B8-4148     TCGA-B8-4151     TCGA-B8-4154     TCGA-B8-4619 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-B8-4620     TCGA-BP-4161     TCGA-BP-4162     TCGA-BP-4163 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-BP-4164     TCGA-BP-4167     TCGA-CJ-4634     TCGA-CJ-4636 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-CJ-4637     TCGA-CJ-4638     TCGA-CJ-4639     TCGA-CJ-4640 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-CJ-4641     TCGA-CJ-4643     TCGA-CJ-4644 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  OPTC MUTATED        0      1      0      0      0      0      0
  OPTC WILD-TYPE      4      5      3     10     10      7      8
D29V2, multiclass
[1] "Remove cluster labels:" "OPTC MUTATED"          
clus
  OPTC MUTATED OPTC WILD-TYPE 
             1             47 
    TCGA-A3-3316     TCGA-A3-3317     TCGA-A3-3322     TCGA-A3-3323 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-A3-3326     TCGA-A3-3331     TCGA-A3-3347     TCGA-A3-3349 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-A3-3362     TCGA-A3-3363     TCGA-A3-3365     TCGA-A3-3374 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-A3-3380     TCGA-A3-3383     TCGA-AK-3427     TCGA-AK-3440 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-AK-3443     TCGA-AK-3453     TCGA-AK-3455     TCGA-AK-3456 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-AK-3465     TCGA-AS-3777     TCGA-AS-3778     TCGA-B2-3923 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-B2-3924     TCGA-B2-4098     TCGA-B2-4099     TCGA-B8-4143 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-B8-4148     TCGA-B8-4151     TCGA-B8-4154     TCGA-B8-4619 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-B8-4620     TCGA-BP-4161     TCGA-BP-4162     TCGA-BP-4163 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-BP-4164     TCGA-BP-4167     TCGA-CJ-4634     TCGA-CJ-4636 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-CJ-4637     TCGA-CJ-4638     TCGA-CJ-4639     TCGA-CJ-4640 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-CJ-4641     TCGA-CJ-4643     TCGA-CJ-4644 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  OPTC MUTATED        1      2      1
  OPTC WILD-TYPE    193    110    131
D29V3, multiclass
        clus
vv       OPTC MUTATED OPTC WILD-TYPE
  CLUS_1            1            193
  CLUS_2            2            110
  CLUS_3            1            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
  OPTC MUTATED        0      2      1
  OPTC WILD-TYPE    104     60     96
D29V4, multiclass
        clus
vv       OPTC MUTATED OPTC WILD-TYPE
  CLUS_1            0            104
  CLUS_2            2             60
  CLUS_3            1             96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  OPTC MUTATED        0      0      1      1      0      0
  OPTC WILD-TYPE     97     57     66     66     72     41
D29V5, multiclass
[1] "Remove cluster labels:" "OPTC MUTATED"          
clus
  OPTC MUTATED OPTC WILD-TYPE 
             2            399 
    TCGA-A3-3316     TCGA-A3-3317     TCGA-A3-3322     TCGA-A3-3323 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-A3-3326     TCGA-A3-3331     TCGA-A3-3347     TCGA-A3-3349 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-A3-3357     TCGA-A3-3362     TCGA-A3-3363     TCGA-A3-3365 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-A3-3367     TCGA-A3-3370     TCGA-A3-3373     TCGA-A3-3374 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-A3-3376     TCGA-A3-3380     TCGA-A3-3383     TCGA-A3-3385 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-A3-3387     TCGA-AK-3427     TCGA-AK-3428     TCGA-AK-3434 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-AK-3436     TCGA-AK-3451     TCGA-AK-3456     TCGA-B0-4690 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-B0-4691     TCGA-B0-4693     TCGA-B0-4694     TCGA-B0-4697 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-B0-4700     TCGA-B0-4703     TCGA-B0-4706     TCGA-B0-4707 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-B0-4710     TCGA-B0-4712     TCGA-B0-4713     TCGA-B0-4714 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-B0-4718     TCGA-B0-4810     TCGA-B0-4811     TCGA-B0-4813 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-B0-4814     TCGA-B0-4815     TCGA-B0-4816     TCGA-B0-4817 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-B0-4818     TCGA-B0-4819     TCGA-B0-4822     TCGA-B0-4823 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-B0-4824     TCGA-B0-4827     TCGA-B0-4828     TCGA-B0-4833 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-B0-4836     TCGA-B0-4837     TCGA-B0-4838     TCGA-B0-4839 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-B0-4841     TCGA-B0-4842     TCGA-B0-4843     TCGA-B0-4844 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-B0-4845     TCGA-B0-4846     TCGA-B0-4847     TCGA-B0-4848 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-B0-4849     TCGA-B0-4852     TCGA-B0-4945     TCGA-B0-5075 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-B0-5077     TCGA-B0-5080     TCGA-B0-5081     TCGA-B0-5084 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-B0-5085     TCGA-B0-5088     TCGA-B0-5092     TCGA-B0-5094 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-B0-5095     TCGA-B0-5096     TCGA-B0-5097     TCGA-B0-5098 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-B0-5099     TCGA-B0-5100     TCGA-B0-5102     TCGA-B0-5104 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-B0-5106     TCGA-B0-5107     TCGA-B0-5108     TCGA-B0-5109 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-B0-5110     TCGA-B0-5113     TCGA-B0-5115     TCGA-B0-5116 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-B0-5117     TCGA-B0-5119     TCGA-B0-5120     TCGA-B0-5121 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-B0-5399     TCGA-B0-5400     TCGA-B0-5402     TCGA-B0-5691 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-B0-5692     TCGA-B0-5693     TCGA-B0-5694     TCGA-B0-5695 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-B0-5696     TCGA-B0-5697     TCGA-B0-5698     TCGA-B0-5699 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-B0-5701     TCGA-B0-5702     TCGA-B0-5703     TCGA-B0-5705 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-B0-5706     TCGA-B0-5707     TCGA-B0-5709     TCGA-B0-5710 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-B0-5711     TCGA-B0-5712     TCGA-B0-5713     TCGA-B0-5812 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-B2-3923     TCGA-B2-3924     TCGA-B2-4098     TCGA-B2-4099 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-B2-4101     TCGA-B2-5633     TCGA-B2-5635     TCGA-B2-5641 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-B4-5377     TCGA-B4-5832     TCGA-B4-5834     TCGA-B4-5835 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-B4-5836     TCGA-B4-5838     TCGA-B4-5843     TCGA-B4-5844 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-B8-4143     TCGA-B8-4146     TCGA-B8-4153     TCGA-B8-4620 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-B8-4621     TCGA-B8-4622     TCGA-B8-5158     TCGA-B8-5159 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-B8-5162     TCGA-B8-5163     TCGA-B8-5164     TCGA-B8-5165 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-B8-5545     TCGA-B8-5546     TCGA-B8-5549     TCGA-B8-5550 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-B8-5551     TCGA-B8-5552     TCGA-B8-5553     TCGA-BP-4158 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-BP-4161     TCGA-BP-4164     TCGA-BP-4165     TCGA-BP-4169 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-BP-4170     TCGA-BP-4173     TCGA-BP-4174     TCGA-BP-4326 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-BP-4329     TCGA-BP-4330     TCGA-BP-4331     TCGA-BP-4337 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-BP-4338     TCGA-BP-4341     TCGA-BP-4342     TCGA-BP-4343 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-BP-4345     TCGA-BP-4346     TCGA-BP-4347     TCGA-BP-4349 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-BP-4351     TCGA-BP-4352     TCGA-BP-4354     TCGA-BP-4355 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-BP-4756     TCGA-BP-4758     TCGA-BP-4759     TCGA-BP-4760 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-BP-4761     TCGA-BP-4762     TCGA-BP-4763     TCGA-BP-4765 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-BP-4766     TCGA-BP-4768     TCGA-BP-4770     TCGA-BP-4771 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-BP-4774     TCGA-BP-4775     TCGA-BP-4777     TCGA-BP-4781 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-BP-4787     TCGA-BP-4789     TCGA-BP-4790     TCGA-BP-4797 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-BP-4798     TCGA-BP-4799     TCGA-BP-4801     TCGA-BP-4803 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-BP-4804     TCGA-BP-4807     TCGA-BP-4960     TCGA-BP-4961 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-BP-4962     TCGA-BP-4963     TCGA-BP-4964     TCGA-BP-4965 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-BP-4967     TCGA-BP-4968     TCGA-BP-4970     TCGA-BP-4971 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-BP-4972     TCGA-BP-4973     TCGA-BP-4974     TCGA-BP-4975 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-BP-4976     TCGA-BP-4977     TCGA-BP-4981     TCGA-BP-4982 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-BP-4983     TCGA-BP-4985     TCGA-BP-4986     TCGA-BP-4987 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-BP-4988     TCGA-BP-4989     TCGA-BP-4991     TCGA-BP-4992 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-BP-4993     TCGA-BP-4994     TCGA-BP-4995     TCGA-BP-4998 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-BP-4999     TCGA-BP-5000     TCGA-BP-5001     TCGA-BP-5004 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-BP-5006     TCGA-BP-5007     TCGA-BP-5008     TCGA-BP-5009 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-BP-5010     TCGA-BP-5168     TCGA-BP-5169     TCGA-BP-5170 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-BP-5173     TCGA-BP-5174     TCGA-BP-5175     TCGA-BP-5176 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-BP-5177     TCGA-BP-5178     TCGA-BP-5180     TCGA-BP-5181 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-BP-5182     TCGA-BP-5183     TCGA-BP-5184     TCGA-BP-5185 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-BP-5186     TCGA-BP-5187     TCGA-BP-5189     TCGA-BP-5190 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-BP-5191     TCGA-BP-5192     TCGA-BP-5194     TCGA-BP-5195 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-BP-5196     TCGA-BP-5198     TCGA-BP-5199     TCGA-BP-5200 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-BP-5201     TCGA-BP-5202     TCGA-CJ-4634     TCGA-CJ-4635 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-CJ-4638     TCGA-CJ-4640     TCGA-CJ-4868     TCGA-CJ-4869 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-CJ-4870     TCGA-CJ-4871     TCGA-CJ-4872     TCGA-CJ-4873 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-CJ-4874     TCGA-CJ-4875     TCGA-CJ-4876     TCGA-CJ-4878 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-CJ-4881     TCGA-CJ-4882     TCGA-CJ-4884     TCGA-CJ-4885 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-CJ-4886     TCGA-CJ-4887     TCGA-CJ-4888     TCGA-CJ-4889 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-CJ-4890     TCGA-CJ-4891     TCGA-CJ-4892     TCGA-CJ-4893 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-CJ-4894     TCGA-CJ-4895     TCGA-CJ-4897     TCGA-CJ-4899 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-CJ-4900     TCGA-CJ-4902     TCGA-CJ-4903     TCGA-CJ-4904 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-CJ-4905     TCGA-CJ-4907     TCGA-CJ-4908     TCGA-CJ-4912 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-CJ-4913     TCGA-CJ-4916     TCGA-CJ-4918     TCGA-CJ-4920 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-CJ-4923     TCGA-CJ-5671     TCGA-CJ-5672     TCGA-CJ-5675 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-CJ-5676     TCGA-CJ-5677     TCGA-CJ-5678     TCGA-CJ-5679 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-CJ-5680     TCGA-CJ-5681     TCGA-CJ-5682     TCGA-CJ-5683 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-CJ-5684     TCGA-CJ-5686     TCGA-CJ-6027     TCGA-CJ-6028 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-CJ-6030     TCGA-CJ-6031     TCGA-CJ-6032     TCGA-CJ-6033 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-CW-5580     TCGA-CW-5581     TCGA-CW-5583     TCGA-CW-5585 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-CW-5588     TCGA-CW-5589     TCGA-CW-5591     TCGA-CW-6087 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-CW-6090     TCGA-CW-6093     TCGA-CW-6097     TCGA-CZ-4853 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-CZ-4854     TCGA-CZ-4856     TCGA-CZ-4857     TCGA-CZ-4858 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-CZ-4859     TCGA-CZ-4861     TCGA-CZ-4862     TCGA-CZ-4863 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-CZ-4865     TCGA-CZ-4866     TCGA-CZ-5451     TCGA-CZ-5452 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-CZ-5453     TCGA-CZ-5454     TCGA-CZ-5455     TCGA-CZ-5456 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-CZ-5457     TCGA-CZ-5458     TCGA-CZ-5459     TCGA-CZ-5460 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-CZ-5461     TCGA-CZ-5462     TCGA-CZ-5463     TCGA-CZ-5465 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-CZ-5466     TCGA-CZ-5467     TCGA-CZ-5468     TCGA-CZ-5469 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-CZ-5470     TCGA-CZ-5982     TCGA-CZ-5984     TCGA-CZ-5985 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-CZ-5986     TCGA-CZ-5987     TCGA-CZ-5988     TCGA-CZ-5989 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-DV-5565     TCGA-DV-5566     TCGA-DV-5568     TCGA-DV-5569 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-DV-5574     TCGA-DV-5575     TCGA-DV-5576     TCGA-EU-5904 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-EU-5905     TCGA-EU-5906     TCGA-EU-5907 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  OPTC MUTATED        0      2      0
  OPTC WILD-TYPE    107    176    116
D29V6, multiclass
[1] "Remove cluster labels:" "OPTC MUTATED"          
clus
  OPTC MUTATED OPTC WILD-TYPE 
             2            399 
    TCGA-A3-3316     TCGA-A3-3317     TCGA-A3-3322     TCGA-A3-3323 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-A3-3326     TCGA-A3-3331     TCGA-A3-3347     TCGA-A3-3349 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-A3-3357     TCGA-A3-3362     TCGA-A3-3363     TCGA-A3-3365 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-A3-3367     TCGA-A3-3370     TCGA-A3-3373     TCGA-A3-3374 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-A3-3376     TCGA-A3-3380     TCGA-A3-3383     TCGA-A3-3385 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-A3-3387     TCGA-AK-3427     TCGA-AK-3428     TCGA-AK-3434 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-AK-3436     TCGA-AK-3451     TCGA-AK-3456     TCGA-B0-4690 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-B0-4691     TCGA-B0-4693     TCGA-B0-4694     TCGA-B0-4697 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-B0-4700     TCGA-B0-4703     TCGA-B0-4706     TCGA-B0-4707 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-B0-4710     TCGA-B0-4712     TCGA-B0-4713     TCGA-B0-4714 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-B0-4718     TCGA-B0-4810     TCGA-B0-4811     TCGA-B0-4813 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-B0-4814     TCGA-B0-4815     TCGA-B0-4816     TCGA-B0-4817 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-B0-4818     TCGA-B0-4819     TCGA-B0-4822     TCGA-B0-4823 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-B0-4824     TCGA-B0-4827     TCGA-B0-4828     TCGA-B0-4833 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-B0-4836     TCGA-B0-4837     TCGA-B0-4838     TCGA-B0-4839 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-B0-4841     TCGA-B0-4842     TCGA-B0-4843     TCGA-B0-4844 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-B0-4845     TCGA-B0-4846     TCGA-B0-4847     TCGA-B0-4848 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-B0-4849     TCGA-B0-4852     TCGA-B0-4945     TCGA-B0-5075 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-B0-5077     TCGA-B0-5080     TCGA-B0-5081     TCGA-B0-5084 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-B0-5085     TCGA-B0-5088     TCGA-B0-5092     TCGA-B0-5094 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-B0-5095     TCGA-B0-5096     TCGA-B0-5097     TCGA-B0-5098 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-B0-5099     TCGA-B0-5100     TCGA-B0-5102     TCGA-B0-5104 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-B0-5106     TCGA-B0-5107     TCGA-B0-5108     TCGA-B0-5109 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-B0-5110     TCGA-B0-5113     TCGA-B0-5115     TCGA-B0-5116 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-B0-5117     TCGA-B0-5119     TCGA-B0-5120     TCGA-B0-5121 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-B0-5399     TCGA-B0-5400     TCGA-B0-5402     TCGA-B0-5691 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-B0-5692     TCGA-B0-5693     TCGA-B0-5694     TCGA-B0-5695 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-B0-5696     TCGA-B0-5697     TCGA-B0-5698     TCGA-B0-5699 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-B0-5701     TCGA-B0-5702     TCGA-B0-5703     TCGA-B0-5705 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-B0-5706     TCGA-B0-5707     TCGA-B0-5709     TCGA-B0-5710 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-B0-5711     TCGA-B0-5712     TCGA-B0-5713     TCGA-B0-5812 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-B2-3923     TCGA-B2-3924     TCGA-B2-4098     TCGA-B2-4099 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-B2-4101     TCGA-B2-5633     TCGA-B2-5635     TCGA-B2-5641 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-B4-5377     TCGA-B4-5832     TCGA-B4-5834     TCGA-B4-5835 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-B4-5836     TCGA-B4-5838     TCGA-B4-5843     TCGA-B4-5844 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-B8-4143     TCGA-B8-4146     TCGA-B8-4153     TCGA-B8-4620 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-B8-4621     TCGA-B8-4622     TCGA-B8-5158     TCGA-B8-5159 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-B8-5162     TCGA-B8-5163     TCGA-B8-5164     TCGA-B8-5165 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-B8-5545     TCGA-B8-5546     TCGA-B8-5549     TCGA-B8-5550 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-B8-5551     TCGA-B8-5552     TCGA-B8-5553     TCGA-BP-4158 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-BP-4161     TCGA-BP-4164     TCGA-BP-4165     TCGA-BP-4169 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-BP-4170     TCGA-BP-4173     TCGA-BP-4174     TCGA-BP-4326 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-BP-4329     TCGA-BP-4330     TCGA-BP-4331     TCGA-BP-4337 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-BP-4338     TCGA-BP-4341     TCGA-BP-4342     TCGA-BP-4343 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-BP-4345     TCGA-BP-4346     TCGA-BP-4347     TCGA-BP-4349 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-BP-4351     TCGA-BP-4352     TCGA-BP-4354     TCGA-BP-4355 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-BP-4756     TCGA-BP-4758     TCGA-BP-4759     TCGA-BP-4760 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-BP-4761     TCGA-BP-4762     TCGA-BP-4763     TCGA-BP-4765 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-BP-4766     TCGA-BP-4768     TCGA-BP-4770     TCGA-BP-4771 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-BP-4774     TCGA-BP-4775     TCGA-BP-4777     TCGA-BP-4781 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-BP-4787     TCGA-BP-4789     TCGA-BP-4790     TCGA-BP-4797 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-BP-4798     TCGA-BP-4799     TCGA-BP-4801     TCGA-BP-4803 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-BP-4804     TCGA-BP-4807     TCGA-BP-4960     TCGA-BP-4961 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-BP-4962     TCGA-BP-4963     TCGA-BP-4964     TCGA-BP-4965 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-BP-4967     TCGA-BP-4968     TCGA-BP-4970     TCGA-BP-4971 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-BP-4972     TCGA-BP-4973     TCGA-BP-4974     TCGA-BP-4975 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-BP-4976     TCGA-BP-4977     TCGA-BP-4981     TCGA-BP-4982 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-BP-4983     TCGA-BP-4985     TCGA-BP-4986     TCGA-BP-4987 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-BP-4988     TCGA-BP-4989     TCGA-BP-4991     TCGA-BP-4992 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-BP-4993     TCGA-BP-4994     TCGA-BP-4995     TCGA-BP-4998 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-BP-4999     TCGA-BP-5000     TCGA-BP-5001     TCGA-BP-5004 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-BP-5006     TCGA-BP-5007     TCGA-BP-5008     TCGA-BP-5009 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-BP-5010     TCGA-BP-5168     TCGA-BP-5169     TCGA-BP-5170 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-BP-5173     TCGA-BP-5174     TCGA-BP-5175     TCGA-BP-5176 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-BP-5177     TCGA-BP-5178     TCGA-BP-5180     TCGA-BP-5181 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-BP-5182     TCGA-BP-5183     TCGA-BP-5184     TCGA-BP-5185 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-BP-5186     TCGA-BP-5187     TCGA-BP-5189     TCGA-BP-5190 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-BP-5191     TCGA-BP-5192     TCGA-BP-5194     TCGA-BP-5195 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-BP-5196     TCGA-BP-5198     TCGA-BP-5199     TCGA-BP-5200 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-BP-5201     TCGA-BP-5202     TCGA-CJ-4634     TCGA-CJ-4635 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-CJ-4638     TCGA-CJ-4640     TCGA-CJ-4868     TCGA-CJ-4869 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-CJ-4870     TCGA-CJ-4871     TCGA-CJ-4872     TCGA-CJ-4873 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-CJ-4874     TCGA-CJ-4875     TCGA-CJ-4876     TCGA-CJ-4878 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-CJ-4881     TCGA-CJ-4882     TCGA-CJ-4884     TCGA-CJ-4885 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-CJ-4886     TCGA-CJ-4887     TCGA-CJ-4888     TCGA-CJ-4889 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-CJ-4890     TCGA-CJ-4891     TCGA-CJ-4892     TCGA-CJ-4893 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-CJ-4894     TCGA-CJ-4895     TCGA-CJ-4897     TCGA-CJ-4899 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-CJ-4900     TCGA-CJ-4902     TCGA-CJ-4903     TCGA-CJ-4904 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-CJ-4905     TCGA-CJ-4907     TCGA-CJ-4908     TCGA-CJ-4912 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-CJ-4913     TCGA-CJ-4916     TCGA-CJ-4918     TCGA-CJ-4920 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-CJ-4923     TCGA-CJ-5671     TCGA-CJ-5672     TCGA-CJ-5675 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-CJ-5676     TCGA-CJ-5677     TCGA-CJ-5678     TCGA-CJ-5679 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-CJ-5680     TCGA-CJ-5681     TCGA-CJ-5682     TCGA-CJ-5683 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-CJ-5684     TCGA-CJ-5686     TCGA-CJ-6027     TCGA-CJ-6028 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-CJ-6030     TCGA-CJ-6031     TCGA-CJ-6032     TCGA-CJ-6033 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-CW-5580     TCGA-CW-5581     TCGA-CW-5583     TCGA-CW-5585 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-CW-5588     TCGA-CW-5589     TCGA-CW-5591     TCGA-CW-6087 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-CW-6090     TCGA-CW-6093     TCGA-CW-6097     TCGA-CZ-4853 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-CZ-4854     TCGA-CZ-4856     TCGA-CZ-4857     TCGA-CZ-4858 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-CZ-4859     TCGA-CZ-4861     TCGA-CZ-4862     TCGA-CZ-4863 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-CZ-4865     TCGA-CZ-4866     TCGA-CZ-5451     TCGA-CZ-5452 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-CZ-5453     TCGA-CZ-5454     TCGA-CZ-5455     TCGA-CZ-5456 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-CZ-5457     TCGA-CZ-5458     TCGA-CZ-5459     TCGA-CZ-5460 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-CZ-5461     TCGA-CZ-5462     TCGA-CZ-5463     TCGA-CZ-5465 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-CZ-5466     TCGA-CZ-5467     TCGA-CZ-5468     TCGA-CZ-5469 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-CZ-5470     TCGA-CZ-5982     TCGA-CZ-5984     TCGA-CZ-5985 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-CZ-5986     TCGA-CZ-5987     TCGA-CZ-5988     TCGA-CZ-5989 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-DV-5565     TCGA-DV-5566     TCGA-DV-5568     TCGA-DV-5569 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-DV-5574     TCGA-DV-5575     TCGA-DV-5576     TCGA-EU-5904 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
    TCGA-EU-5905     TCGA-EU-5906     TCGA-EU-5907 
"OPTC WILD-TYPE" "OPTC WILD-TYPE" "OPTC WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  OPTC MUTATED        1      2      1
  OPTC WILD-TYPE     86    179    170
D29V7, multiclass
        clus
vv       OPTC MUTATED OPTC WILD-TYPE
  CLUS_1            1             86
  CLUS_2            2            179
  CLUS_3            1            170
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  OPTC MUTATED        2      0      0      1      0      1
  OPTC WILD-TYPE    100     25    151    115     30     14
D29V8, multiclass
        clus
vv       OPTC MUTATED OPTC WILD-TYPE
  CLUS_1            2            100
  CLUS_2            0             25
  CLUS_3            0            151
  CLUS_4            1            115
  CLUS_5            0             30
  CLUS_6            1             14
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  OPTC MUTATED        1      1      2
  OPTC WILD-TYPE    100    174    153
D29V9, multiclass
        clus
vv       OPTC MUTATED OPTC WILD-TYPE
  CLUS_1            1            100
  CLUS_2            1            174
  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 CLUS_4
  OPTC MUTATED        3      0      1      0
  OPTC WILD-TYPE    115    115    162     35
D29V10, multiclass
        clus
vv       OPTC MUTATED OPTC WILD-TYPE
  CLUS_1            3            115
  CLUS_2            0            115
  CLUS_3            1            162
  CLUS_4            0             35
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  OPTC MUTATED        0      0      0      0
  OPTC WILD-TYPE     16     20     43     28
D29V11, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  OPTC MUTATED        0      0      0
  OPTC WILD-TYPE     18     45     44
D29V12, multiclass

Clustering(30) Variable = GOLGA5 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GOLGA5 MUTATED        0      1      0
  GOLGA5 WILD-TYPE     21     16     10
D30V1, multiclass
[1] "Remove cluster labels:" "GOLGA5 MUTATED"        
clus
  GOLGA5 MUTATED GOLGA5 WILD-TYPE 
               1               47 
      TCGA-A3-3311       TCGA-A3-3316       TCGA-A3-3317       TCGA-A3-3322 
"GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" 
      TCGA-A3-3326       TCGA-A3-3331       TCGA-A3-3347       TCGA-A3-3349 
"GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" 
      TCGA-A3-3362       TCGA-A3-3363       TCGA-A3-3365       TCGA-A3-3374 
"GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" 
      TCGA-A3-3380       TCGA-A3-3383       TCGA-AK-3427       TCGA-AK-3440 
"GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" 
      TCGA-AK-3443       TCGA-AK-3453       TCGA-AK-3455       TCGA-AK-3456 
"GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" 
      TCGA-AK-3465       TCGA-AS-3777       TCGA-AS-3778       TCGA-B2-3923 
"GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" 
      TCGA-B2-3924       TCGA-B2-4098       TCGA-B2-4099       TCGA-B8-4143 
"GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" 
      TCGA-B8-4148       TCGA-B8-4151       TCGA-B8-4154       TCGA-B8-4619 
"GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" 
      TCGA-B8-4620       TCGA-BP-4161       TCGA-BP-4162       TCGA-BP-4163 
"GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" 
      TCGA-BP-4164       TCGA-BP-4167       TCGA-CJ-4634       TCGA-CJ-4636 
"GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" 
      TCGA-CJ-4637       TCGA-CJ-4638       TCGA-CJ-4639       TCGA-CJ-4640 
"GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" 
      TCGA-CJ-4641       TCGA-CJ-4643       TCGA-CJ-4644 
"GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  GOLGA5 MUTATED        0      1      0      0      0      0      0
  GOLGA5 WILD-TYPE      4      5      3     10     10      7      8
D30V2, multiclass
[1] "Remove cluster labels:" "GOLGA5 MUTATED"        
clus
  GOLGA5 MUTATED GOLGA5 WILD-TYPE 
               1               47 
      TCGA-A3-3311       TCGA-A3-3316       TCGA-A3-3317       TCGA-A3-3322 
"GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" 
      TCGA-A3-3326       TCGA-A3-3331       TCGA-A3-3347       TCGA-A3-3349 
"GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" 
      TCGA-A3-3362       TCGA-A3-3363       TCGA-A3-3365       TCGA-A3-3374 
"GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" 
      TCGA-A3-3380       TCGA-A3-3383       TCGA-AK-3427       TCGA-AK-3440 
"GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" 
      TCGA-AK-3443       TCGA-AK-3453       TCGA-AK-3455       TCGA-AK-3456 
"GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" 
      TCGA-AK-3465       TCGA-AS-3777       TCGA-AS-3778       TCGA-B2-3923 
"GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" 
      TCGA-B2-3924       TCGA-B2-4098       TCGA-B2-4099       TCGA-B8-4143 
"GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" 
      TCGA-B8-4148       TCGA-B8-4151       TCGA-B8-4154       TCGA-B8-4619 
"GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" 
      TCGA-B8-4620       TCGA-BP-4161       TCGA-BP-4162       TCGA-BP-4163 
"GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" 
      TCGA-BP-4164       TCGA-BP-4167       TCGA-CJ-4634       TCGA-CJ-4636 
"GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" 
      TCGA-CJ-4637       TCGA-CJ-4638       TCGA-CJ-4639       TCGA-CJ-4640 
"GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" 
      TCGA-CJ-4641       TCGA-CJ-4643       TCGA-CJ-4644 
"GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GOLGA5 MUTATED        5      0      0
  GOLGA5 WILD-TYPE    189    112    132
D30V3, multiclass
        clus
vv       GOLGA5 MUTATED GOLGA5 WILD-TYPE
  CLUS_1              5              189
  CLUS_2              0              112
  CLUS_3              0              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
  GOLGA5 MUTATED        1      0      0
  GOLGA5 WILD-TYPE    103     62     97
D30V4, multiclass
[1] "Remove cluster labels:" "GOLGA5 MUTATED"        
clus
  GOLGA5 MUTATED GOLGA5 WILD-TYPE 
               1              262 
      TCGA-A3-3357       TCGA-A3-3358       TCGA-A3-3367       TCGA-A3-3370 
"GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" 
      TCGA-A3-3373       TCGA-A3-3376       TCGA-A3-3385       TCGA-A3-3387 
"GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" 
      TCGA-AK-3425       TCGA-AK-3428       TCGA-AK-3431       TCGA-AK-3434 
"GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" 
      TCGA-AK-3440       TCGA-AK-3445       TCGA-AK-3450       TCGA-AK-3453 
"GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" 
      TCGA-AK-3454       TCGA-AK-3458       TCGA-AK-3460       TCGA-AK-3461 
"GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" 
      TCGA-B0-4690       TCGA-B0-4691       TCGA-B0-4693       TCGA-B0-4694 
"GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" 
      TCGA-B0-4697       TCGA-B0-4700       TCGA-B0-4703       TCGA-B0-4706 
"GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" 
      TCGA-B0-4707       TCGA-B0-4710       TCGA-B0-4712       TCGA-B0-4713 
"GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" 
      TCGA-B0-4714       TCGA-B0-4718       TCGA-B0-4810       TCGA-B0-4811 
"GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" 
      TCGA-B0-4813       TCGA-B0-4814       TCGA-B0-4815       TCGA-B0-4816 
"GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" 
      TCGA-B0-4817       TCGA-B0-4818       TCGA-B0-4819       TCGA-B0-4822 
"GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" 
      TCGA-B0-4823       TCGA-B0-4824       TCGA-B0-4827       TCGA-B0-4828 
"GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" 
      TCGA-B0-4841       TCGA-B0-4842       TCGA-B0-4843       TCGA-B0-4844 
"GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" 
      TCGA-B0-4845       TCGA-B0-4846       TCGA-B0-4847       TCGA-B0-4848 
"GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" 
      TCGA-B0-4849       TCGA-B0-4852       TCGA-B0-4945       TCGA-B0-5080 
"GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" 
      TCGA-B0-5083       TCGA-B0-5092       TCGA-B0-5094       TCGA-B0-5095 
"GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" 
      TCGA-B0-5096       TCGA-B0-5097       TCGA-B0-5098       TCGA-B0-5099 
"GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" 
      TCGA-B0-5100       TCGA-B0-5102       TCGA-B0-5104       TCGA-B0-5106 
"GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" 
      TCGA-B0-5107       TCGA-B0-5108       TCGA-B0-5109       TCGA-B0-5110 
"GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" 
      TCGA-B0-5113       TCGA-B0-5115       TCGA-B0-5116       TCGA-B0-5117 
"GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" 
      TCGA-B0-5119       TCGA-B0-5120       TCGA-B0-5121       TCGA-B0-5399 
"GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" 
      TCGA-B0-5400       TCGA-B0-5402       TCGA-B0-5691       TCGA-B0-5692 
"GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" 
      TCGA-B0-5693       TCGA-B0-5694       TCGA-B0-5695       TCGA-B0-5696 
"GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" 
      TCGA-B0-5697       TCGA-B0-5698       TCGA-B0-5699       TCGA-B0-5701 
"GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" 
      TCGA-B0-5702       TCGA-B0-5703       TCGA-B0-5705       TCGA-B0-5706 
"GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" 
      TCGA-B0-5707       TCGA-B0-5709       TCGA-B0-5710       TCGA-B0-5711 
"GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" 
      TCGA-B0-5712       TCGA-B0-5713       TCGA-B0-5812       TCGA-B2-3924 
"GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" 
      TCGA-B2-4101       TCGA-B2-5633       TCGA-B2-5635       TCGA-B2-5641 
"GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" 
      TCGA-B4-5377       TCGA-B4-5832       TCGA-B4-5834       TCGA-B4-5835 
"GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" 
      TCGA-B4-5836       TCGA-B4-5838       TCGA-B4-5843       TCGA-B4-5844 
"GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" 
      TCGA-B8-4146       TCGA-B8-4153       TCGA-B8-4621       TCGA-B8-4622 
"GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" 
      TCGA-B8-5158       TCGA-B8-5159       TCGA-B8-5162       TCGA-B8-5163 
"GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" 
      TCGA-B8-5164       TCGA-B8-5165       TCGA-B8-5545       TCGA-B8-5546 
"GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" 
      TCGA-B8-5549       TCGA-B8-5550       TCGA-B8-5551       TCGA-B8-5552 
"GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" 
      TCGA-B8-5553       TCGA-BP-4177       TCGA-BP-4760       TCGA-BP-4770 
"GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" 
      TCGA-BP-4782       TCGA-BP-4795       TCGA-BP-4801       TCGA-BP-4993 
"GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" 
      TCGA-BP-5010       TCGA-BP-5168       TCGA-BP-5169       TCGA-BP-5170 
"GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" 
      TCGA-BP-5173       TCGA-BP-5174       TCGA-BP-5175       TCGA-BP-5176 
"GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" 
      TCGA-BP-5177       TCGA-BP-5178       TCGA-BP-5180       TCGA-BP-5181 
"GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" 
      TCGA-BP-5182       TCGA-BP-5183       TCGA-BP-5184       TCGA-BP-5185 
"GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" 
      TCGA-BP-5186       TCGA-BP-5187       TCGA-BP-5189       TCGA-BP-5190 
"GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" 
      TCGA-BP-5191       TCGA-BP-5192       TCGA-BP-5194       TCGA-BP-5195 
"GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" 
      TCGA-BP-5196       TCGA-BP-5198       TCGA-BP-5200       TCGA-BP-5201 
"GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" 
      TCGA-BP-5202       TCGA-CJ-4869       TCGA-CJ-4882       TCGA-CJ-4897 
"GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" 
      TCGA-CJ-4901       TCGA-CJ-4902       TCGA-CJ-4903       TCGA-CJ-4904 
"GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" 
      TCGA-CJ-4905       TCGA-CJ-4907       TCGA-CJ-4908       TCGA-CJ-4912 
"GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" 
      TCGA-CJ-4913       TCGA-CJ-4916       TCGA-CJ-4918       TCGA-CJ-4920 
"GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" 
      TCGA-CJ-4923       TCGA-CJ-5671       TCGA-CJ-5672       TCGA-CJ-5675 
"GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" 
      TCGA-CJ-5676       TCGA-CJ-5677       TCGA-CJ-5678       TCGA-CJ-5679 
"GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" 
      TCGA-CJ-5680       TCGA-CJ-5681       TCGA-CJ-5682       TCGA-CJ-5683 
"GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" 
      TCGA-CJ-5684       TCGA-CJ-5686       TCGA-CJ-6027       TCGA-CJ-6028 
"GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" 
      TCGA-CJ-6030       TCGA-CJ-6031       TCGA-CJ-6032       TCGA-CJ-6033 
"GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" 
      TCGA-CW-5580       TCGA-CW-5581       TCGA-CW-5583       TCGA-CW-5585 
"GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" 
      TCGA-CW-5588       TCGA-CW-5589       TCGA-CW-5591       TCGA-CW-6087 
"GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" 
      TCGA-CW-6090       TCGA-CW-6093       TCGA-CW-6097       TCGA-CZ-4853 
"GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" 
      TCGA-CZ-4856       TCGA-CZ-4859       TCGA-CZ-4863       TCGA-CZ-4865 
"GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" 
      TCGA-CZ-4866       TCGA-CZ-5451       TCGA-CZ-5452       TCGA-CZ-5453 
"GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" 
      TCGA-CZ-5454       TCGA-CZ-5455       TCGA-CZ-5456       TCGA-CZ-5457 
"GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" 
      TCGA-CZ-5458       TCGA-CZ-5459       TCGA-CZ-5460       TCGA-CZ-5461 
"GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" 
      TCGA-CZ-5462       TCGA-CZ-5463       TCGA-CZ-5465       TCGA-CZ-5466 
"GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" 
      TCGA-CZ-5467       TCGA-CZ-5468       TCGA-CZ-5469       TCGA-CZ-5470 
"GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" 
      TCGA-CZ-5982       TCGA-CZ-5984       TCGA-CZ-5985       TCGA-CZ-5986 
"GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" 
      TCGA-CZ-5987       TCGA-CZ-5988       TCGA-CZ-5989       TCGA-DV-5565 
"GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" 
      TCGA-DV-5566       TCGA-DV-5568       TCGA-DV-5569       TCGA-DV-5574 
"GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" 
      TCGA-DV-5575       TCGA-DV-5576       TCGA-EU-5904       TCGA-EU-5905 
"GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" 
      TCGA-EU-5906       TCGA-EU-5907 
"GOLGA5 WILD-TYPE" "GOLGA5 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  GOLGA5 MUTATED        0      0      2      2      1      0
  GOLGA5 WILD-TYPE     97     57     65     65     71     41
D30V5, multiclass
        clus
vv       GOLGA5 MUTATED GOLGA5 WILD-TYPE
  CLUS_1              0               97
  CLUS_2              0               57
  CLUS_3              2               65
  CLUS_4              2               65
  CLUS_5              1               71
  CLUS_6              0               41
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GOLGA5 MUTATED        2      2      1
  GOLGA5 WILD-TYPE    105    176    115
D30V6, multiclass
        clus
vv       GOLGA5 MUTATED GOLGA5 WILD-TYPE
  CLUS_1              2              105
  CLUS_2              2              176
  CLUS_3              1              115
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GOLGA5 MUTATED        1      1      3
  GOLGA5 WILD-TYPE     86    180    168
D30V7, multiclass
        clus
vv       GOLGA5 MUTATED GOLGA5 WILD-TYPE
  CLUS_1              1               86
  CLUS_2              1              180
  CLUS_3              3              168
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  GOLGA5 MUTATED        2      0      1      1      1      0
  GOLGA5 WILD-TYPE    100     25    150    115     29     15
D30V8, multiclass
        clus
vv       GOLGA5 MUTATED GOLGA5 WILD-TYPE
  CLUS_1              2              100
  CLUS_2              0               25
  CLUS_3              1              150
  CLUS_4              1              115
  CLUS_5              1               29
  CLUS_6              0               15
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GOLGA5 MUTATED        1      2      2
  GOLGA5 WILD-TYPE    100    173    153
D30V9, multiclass
        clus
vv       GOLGA5 MUTATED GOLGA5 WILD-TYPE
  CLUS_1              1              100
  CLUS_2              2              173
  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 CLUS_4
  GOLGA5 MUTATED        0      2      3      0
  GOLGA5 WILD-TYPE    118    113    160     35
D30V10, multiclass
        clus
vv       GOLGA5 MUTATED GOLGA5 WILD-TYPE
  CLUS_1              0              118
  CLUS_2              2              113
  CLUS_3              3              160
  CLUS_4              0               35
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GOLGA5 MUTATED        0      0      0      0
  GOLGA5 WILD-TYPE     16     20     43     28
D30V11, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  GOLGA5 MUTATED        0      0      0
  GOLGA5 WILD-TYPE     18     45     44
D30V12, multiclass
