[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/22555002/KIRC-TP.transferedmergedcluster.txt"
[1] "dfn:"
[1] "/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_Correlate_Genomic_Events_Preprocess/KIRC-TP/22815440/transformed.cor.cli.txt"

nPatients in clinical file=537, in cluster file=476, common to both=436
[1]  25 436
[1] "SETD2 MUTATION ANALYSIS"
[1] 3
  SETD2 MUTATED SETD2 WILD-TYPE 
             43             393 
  SETD2 MUTATED SETD2 WILD-TYPE 
             43             393 
[1] "PBRM1 MUTATION ANALYSIS"
[1] 3
  PBRM1 MUTATED PBRM1 WILD-TYPE 
            131             305 
  PBRM1 MUTATED PBRM1 WILD-TYPE 
            131             305 
[1] "KDM5C MUTATION ANALYSIS"
[1] 3
  KDM5C MUTATED KDM5C WILD-TYPE 
             25             411 
  KDM5C MUTATED KDM5C WILD-TYPE 
             25             411 
[1] "VHL MUTATION ANALYSIS"
[1] 3
  VHL MUTATED VHL WILD-TYPE 
          192           244 
  VHL MUTATED VHL WILD-TYPE 
          192           244 
[1] "MTOR MUTATION ANALYSIS"
[1] 3
  MTOR MUTATED MTOR WILD-TYPE 
            28            408 
  MTOR MUTATED MTOR WILD-TYPE 
            28            408 
[1] "TP53 MUTATION ANALYSIS"
[1] 3
  TP53 MUTATED TP53 WILD-TYPE 
             9            427 
  TP53 MUTATED TP53 WILD-TYPE 
             9            427 
[1] "PTEN MUTATION ANALYSIS"
[1] 3
  PTEN MUTATED PTEN WILD-TYPE 
            15            421 
  PTEN MUTATED PTEN WILD-TYPE 
            15            421 
[1] "NEFH MUTATION ANALYSIS"
[1] 3
  NEFH MUTATED NEFH WILD-TYPE 
             6            430 
  NEFH MUTATED NEFH WILD-TYPE 
             6            430 
[1] "NF2 MUTATION ANALYSIS"
[1] 3
  NF2 MUTATED NF2 WILD-TYPE 
            6           430 
  NF2 MUTATED NF2 WILD-TYPE 
            6           430 
[1] "ATM MUTATION ANALYSIS"
[1] 3
  ATM MUTATED ATM WILD-TYPE 
           12           424 
  ATM MUTATED ATM WILD-TYPE 
           12           424 
[1] "NUDT11 MUTATION ANALYSIS"
[1] 3
  NUDT11 MUTATED NUDT11 WILD-TYPE 
               4              432 
  NUDT11 MUTATED NUDT11 WILD-TYPE 
               4              432 
[1] "PIK3CA MUTATION ANALYSIS"
[1] 3
  PIK3CA MUTATED PIK3CA WILD-TYPE 
              10              426 
  PIK3CA MUTATED PIK3CA WILD-TYPE 
              10              426 
[1] "GPR50 MUTATION ANALYSIS"
[1] 3
  GPR50 MUTATED GPR50 WILD-TYPE 
              3             433 
  GPR50 MUTATED GPR50 WILD-TYPE 
              3             433 
[1] "TFDP2 MUTATION ANALYSIS"
[1] 3
  TFDP2 MUTATED TFDP2 WILD-TYPE 
              4             432 
  TFDP2 MUTATED TFDP2 WILD-TYPE 
              4             432 
[1] "FAM200A MUTATION ANALYSIS"
[1] 3
  FAM200A MUTATED FAM200A WILD-TYPE 
                4               432 
  FAM200A MUTATED FAM200A WILD-TYPE 
                4               432 
[1] "DPCR1 MUTATION ANALYSIS"
[1] 3
  DPCR1 MUTATED DPCR1 WILD-TYPE 
              6             430 
  DPCR1 MUTATED DPCR1 WILD-TYPE 
              6             430 
[1] "EGFR MUTATION ANALYSIS"
[1] 3
  EGFR MUTATED EGFR WILD-TYPE 
             6            430 
  EGFR MUTATED EGFR WILD-TYPE 
             6            430 
[1] "SH3KBP1 MUTATION ANALYSIS"
[1] 3
  SH3KBP1 MUTATED SH3KBP1 WILD-TYPE 
                3               433 
  SH3KBP1 MUTATED SH3KBP1 WILD-TYPE 
                3               433 
[1] "EMG1 MUTATION ANALYSIS"
[1] 3
  EMG1 MUTATED EMG1 WILD-TYPE 
             4            432 
  EMG1 MUTATED EMG1 WILD-TYPE 
             4            432 
[1] "ARID1A MUTATION ANALYSIS"
[1] 3
  ARID1A MUTATED ARID1A WILD-TYPE 
              10              426 
  ARID1A MUTATED ARID1A WILD-TYPE 
              10              426 
[1] "ARAP3 MUTATION ANALYSIS"
[1] 3
  ARAP3 MUTATED ARAP3 WILD-TYPE 
              3             433 
  ARAP3 MUTATED ARAP3 WILD-TYPE 
              3             433 
[1] "SLC16A9 MUTATION ANALYSIS"
[1] 3
  SLC16A9 MUTATED SLC16A9 WILD-TYPE 
                4               432 
  SLC16A9 MUTATED SLC16A9 WILD-TYPE 
                4               432 
[1] "PCK1 MUTATION ANALYSIS"
[1] 3
  PCK1 MUTATED PCK1 WILD-TYPE 
             4            432 
  PCK1 MUTATED PCK1 WILD-TYPE 
             4            432 
[1] "CUL9 MUTATION ANALYSIS"
[1] 3
  CUL9 MUTATED CUL9 WILD-TYPE 
             7            429 
  CUL9 MUTATED CUL9 WILD-TYPE 
             7            429 
[1] "ZDHHC1 MUTATION ANALYSIS"
[1] 3
  ZDHHC1 MUTATED ZDHHC1 WILD-TYPE 
               4              432 
  ZDHHC1 MUTATED ZDHHC1 WILD-TYPE 
               4              432 
[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 436 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=6,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 4:'METHLYATION_CNMF':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 5:'RPPA_CNMF':	nDistinctValues=6,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 6:'RPPA_CHIERARCHICAL':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 7:'MRNASEQ_CNMF':	nDistinctValues=5,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 8:'MRNASEQ_CHIERARCHICAL':	nDistinctValues=6,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 9:'MIRSEQ_CNMF':	nDistinctValues=5,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 10:'MIRSEQ_CHIERARCHICAL':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 11:'MIRSEQ_MATURE_CNMF':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 12:'MIRSEQ_MATURE_CHIERARCHICAL':	nDistinctValues=4,	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 436 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=6, binary=FALSE, numeric=FALSE
METHLYATION_CNMF, nv=4, binary=FALSE, numeric=FALSE
RPPA_CNMF, nv=6, binary=FALSE, numeric=FALSE
RPPA_CHIERARCHICAL, nv=4, binary=FALSE, numeric=FALSE
MRNASEQ_CNMF, nv=5, binary=FALSE, numeric=FALSE
MRNASEQ_CHIERARCHICAL, nv=6, binary=FALSE, numeric=FALSE
MIRSEQ_CNMF, nv=5, binary=FALSE, numeric=FALSE
MIRSEQ_CHIERARCHICAL, nv=3, binary=FALSE, numeric=FALSE
MIRSEQ_MATURE_CNMF, nv=4, binary=FALSE, numeric=FALSE
MIRSEQ_MATURE_CHIERARCHICAL, nv=4, binary=FALSE, numeric=FALSE

Clustering(1) Variable = SETD2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SETD2 MUTATED        1      2      0
  SETD2 WILD-TYPE     16     14     10
D1V1, multiclass
        clus
vv       SETD2 MUTATED SETD2 WILD-TYPE
  CLUS_1             1              16
  CLUS_2             2              14
  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        0      2      0      0      1      0      0
  SETD2 WILD-TYPE      3      3      3     10      9      4      8
D1V2, multiclass
        clus
vv       SETD2 MUTATED SETD2 WILD-TYPE
  CLUS_1             0               3
  CLUS_2             2               3
  CLUS_3             0               3
  CLUS_4             0              10
  CLUS_5             1               9
  CLUS_6             0               4
  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 CLUS_4 CLUS_5 CLUS_6
  SETD2 MUTATED        6      8     12      7      7      3
  SETD2 WILD-TYPE     43     60    118     56     62     51
D1V3, multiclass
        clus
vv       SETD2 MUTATED SETD2 WILD-TYPE
  CLUS_1             6              43
  CLUS_2             8              60
  CLUS_3            12             118
  CLUS_4             7              56
  CLUS_5             7              62
  CLUS_6             3              51
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SETD2 MUTATED        2      4     19      5
  SETD2 WILD-TYPE     55     55     64     59
D1V4, multiclass
        clus
vv       SETD2 MUTATED SETD2 WILD-TYPE
  CLUS_1             2              55
  CLUS_2             4              55
  CLUS_3            19              64
  CLUS_4             5              59
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SETD2 MUTATED        5      8     10     10      6      1
  SETD2 WILD-TYPE     64     66     68     59     72     28
D1V5, multiclass
        clus
vv       SETD2 MUTATED SETD2 WILD-TYPE
  CLUS_1             5              64
  CLUS_2             8              66
  CLUS_3            10              68
  CLUS_4            10              59
  CLUS_5             6              72
  CLUS_6             1              28
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SETD2 MUTATED        7     16      9      8
  SETD2 WILD-TYPE    102     79     63    113
D1V6, multiclass
        clus
vv       SETD2 MUTATED SETD2 WILD-TYPE
  CLUS_1             7             102
  CLUS_2            16              79
  CLUS_3             9              63
  CLUS_4             8             113
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SETD2 MUTATED        3     10      9     15      6
  SETD2 WILD-TYPE     57    127     63    120     24
D1V7, multiclass
        clus
vv       SETD2 MUTATED SETD2 WILD-TYPE
  CLUS_1             3              57
  CLUS_2            10             127
  CLUS_3             9              63
  CLUS_4            15             120
  CLUS_5             6              24
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- 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       18      3     10     12      0      0
  SETD2 WILD-TYPE     81     22    140    103     30     15
D1V8, multiclass
        clus
vv       SETD2 MUTATED SETD2 WILD-TYPE
  CLUS_1            18              81
  CLUS_2             3              22
  CLUS_3            10             140
  CLUS_4            12             103
  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 CLUS_4 CLUS_5
  SETD2 MUTATED        3      2     16     12      8
  SETD2 WILD-TYPE     68     47    143     92     36
D1V9, multiclass
        clus
vv       SETD2 MUTATED SETD2 WILD-TYPE
  CLUS_1             3              68
  CLUS_2             2              47
  CLUS_3            16             143
  CLUS_4            12              92
  CLUS_5             8              36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SETD2 MUTATED       11     17     13
  SETD2 WILD-TYPE    135    156     95
D1V10, multiclass
        clus
vv       SETD2 MUTATED SETD2 WILD-TYPE
  CLUS_1            11             135
  CLUS_2            17             156
  CLUS_3            13              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
  SETD2 MUTATED        0      3      7      3
  SETD2 WILD-TYPE     17     17     32     28
D1V11, multiclass
        clus
vv       SETD2 MUTATED SETD2 WILD-TYPE
  CLUS_1             0              17
  CLUS_2             3              17
  CLUS_3             7              32
  CLUS_4             3              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 CLUS_4
  SETD2 MUTATED        0      7      6      0
  SETD2 WILD-TYPE     18     37     20     19
D1V12, multiclass
        clus
vv       SETD2 MUTATED SETD2 WILD-TYPE
  CLUS_1             0              18
  CLUS_2             7              37
  CLUS_3             6              20
  CLUS_4             0              19
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(2) Variable = PBRM1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PBRM1 MUTATED        9      3      1
  PBRM1 WILD-TYPE      8     13      9
D2V1, multiclass
        clus
vv       PBRM1 MUTATED PBRM1 WILD-TYPE
  CLUS_1             9               8
  CLUS_2             3              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
  PBRM1 MUTATED        2      3      0      0      4      3      1
  PBRM1 WILD-TYPE      1      2      3     10      6      1      7
D2V2, multiclass
        clus
vv       PBRM1 MUTATED PBRM1 WILD-TYPE
  CLUS_1             2               1
  CLUS_2             3               2
  CLUS_3             0               3
  CLUS_4             0              10
  CLUS_5             4               6
  CLUS_6             3               1
  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 CLUS_4 CLUS_5 CLUS_6
  PBRM1 MUTATED       18     12     38     26     25     12
  PBRM1 WILD-TYPE     31     56     92     37     44     42
D2V3, multiclass
        clus
vv       PBRM1 MUTATED PBRM1 WILD-TYPE
  CLUS_1            18              31
  CLUS_2            12              56
  CLUS_3            38              92
  CLUS_4            26              37
  CLUS_5            25              44
  CLUS_6            12              42
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger 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        8     12     35     36
  PBRM1 WILD-TYPE     49     47     48     28
D2V4, multiclass
        clus
vv       PBRM1 MUTATED PBRM1 WILD-TYPE
  CLUS_1             8              49
  CLUS_2            12              47
  CLUS_3            35              48
  CLUS_4            36              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 CLUS_4 CLUS_5 CLUS_6
  PBRM1 MUTATED       19     36     20     23     19      5
  PBRM1 WILD-TYPE     50     38     58     46     59     24
D2V5, multiclass
        clus
vv       PBRM1 MUTATED PBRM1 WILD-TYPE
  CLUS_1            19              50
  CLUS_2            36              38
  CLUS_3            20              58
  CLUS_4            23              46
  CLUS_5            19              59
  CLUS_6             5              24
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PBRM1 MUTATED       30     33     17     42
  PBRM1 WILD-TYPE     79     62     55     79
D2V6, multiclass
        clus
vv       PBRM1 MUTATED PBRM1 WILD-TYPE
  CLUS_1            30              79
  CLUS_2            33              62
  CLUS_3            17              55
  CLUS_4            42              79
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PBRM1 MUTATED        5     50     25     34     16
  PBRM1 WILD-TYPE     55     87     47    101     14
D2V7, multiclass
        clus
vv       PBRM1 MUTATED PBRM1 WILD-TYPE
  CLUS_1             5              55
  CLUS_2            50              87
  CLUS_3            25              47
  CLUS_4            34             101
  CLUS_5            16              14
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- 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       39      5     57     26      2      1
  PBRM1 WILD-TYPE     60     20     93     89     28     14
D2V8, multiclass
        clus
vv       PBRM1 MUTATED PBRM1 WILD-TYPE
  CLUS_1            39              60
  CLUS_2             5              20
  CLUS_3            57              93
  CLUS_4            26              89
  CLUS_5             2              28
  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 CLUS_4 CLUS_5
  PBRM1 MUTATED       18      6     65     24     14
  PBRM1 WILD-TYPE     53     43     94     80     30
D2V9, multiclass
        clus
vv       PBRM1 MUTATED PBRM1 WILD-TYPE
  CLUS_1            18              53
  CLUS_2             6              43
  CLUS_3            65              94
  CLUS_4            24              80
  CLUS_5            14              30
[1] 5 2
[1] TRUE
[1] "dimension of contingency table 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       29     67     31
  PBRM1 WILD-TYPE    117    106     77
D2V10, multiclass
        clus
vv       PBRM1 MUTATED PBRM1 WILD-TYPE
  CLUS_1            29             117
  CLUS_2            67             106
  CLUS_3            31              77
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PBRM1 MUTATED        4      1     21      6
  PBRM1 WILD-TYPE     13     19     18     25
D2V11, multiclass
        clus
vv       PBRM1 MUTATED PBRM1 WILD-TYPE
  CLUS_1             4              13
  CLUS_2             1              19
  CLUS_3            21              18
  CLUS_4             6              25
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PBRM1 MUTATED        4      8      7     13
  PBRM1 WILD-TYPE     14     36     19      6
D2V12, multiclass
        clus
vv       PBRM1 MUTATED PBRM1 WILD-TYPE
  CLUS_1             4              14
  CLUS_2             8              36
  CLUS_3             7              19
  CLUS_4            13               6
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(3) Variable = KDM5C MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KDM5C MUTATED        1      0      0
  KDM5C WILD-TYPE     16     16     10
D3V1, multiclass
[1] "Remove cluster labels:" "KDM5C MUTATED"         
clus
  KDM5C MUTATED KDM5C WILD-TYPE 
              1              42 
     TCGA-A3-3311      TCGA-A3-3313      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-A3-3374      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-B2-3923      TCGA-B2-3924 
"KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" 
     TCGA-B2-4098      TCGA-B2-4099      TCGA-B8-4143      TCGA-B8-4148 
"KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" 
     TCGA-B8-4151      TCGA-B8-4154      TCGA-B8-4619      TCGA-B8-4620 
"KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" 
     TCGA-BP-4161      TCGA-BP-4162      TCGA-BP-4163      TCGA-BP-4164 
"KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" 
     TCGA-BP-4167      TCGA-CJ-4634      TCGA-CJ-4636      TCGA-CJ-4637 
"KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" 
     TCGA-CJ-4638      TCGA-CJ-4639      TCGA-CJ-4640      TCGA-CJ-4641 
"KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" 
     TCGA-CJ-4643      TCGA-CJ-4644 
"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      3      5      3     10      9      4      8
D3V2, multiclass
[1] "Remove cluster labels:" "KDM5C MUTATED"         
clus
  KDM5C MUTATED KDM5C WILD-TYPE 
              1              42 
     TCGA-A3-3311      TCGA-A3-3313      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-A3-3374      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-B2-3923      TCGA-B2-3924 
"KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" 
     TCGA-B2-4098      TCGA-B2-4099      TCGA-B8-4143      TCGA-B8-4148 
"KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" 
     TCGA-B8-4151      TCGA-B8-4154      TCGA-B8-4619      TCGA-B8-4620 
"KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" 
     TCGA-BP-4161      TCGA-BP-4162      TCGA-BP-4163      TCGA-BP-4164 
"KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" 
     TCGA-BP-4167      TCGA-CJ-4634      TCGA-CJ-4636      TCGA-CJ-4637 
"KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" 
     TCGA-CJ-4638      TCGA-CJ-4639      TCGA-CJ-4640      TCGA-CJ-4641 
"KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" "KDM5C WILD-TYPE" 
     TCGA-CJ-4643      TCGA-CJ-4644 
"KDM5C WILD-TYPE" "KDM5C WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  KDM5C MUTATED        5      1     10      0      5      4
  KDM5C WILD-TYPE     44     67    120     63     64     50
D3V3, multiclass
        clus
vv       KDM5C MUTATED KDM5C WILD-TYPE
  CLUS_1             5              44
  CLUS_2             1              67
  CLUS_3            10             120
  CLUS_4             0              63
  CLUS_5             5              64
  CLUS_6             4              50
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger 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        1      5      8      3
  KDM5C WILD-TYPE     56     54     75     61
D3V4, multiclass
        clus
vv       KDM5C MUTATED KDM5C WILD-TYPE
  CLUS_1             1              56
  CLUS_2             5              54
  CLUS_3             8              75
  CLUS_4             3              61
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  KDM5C MUTATED        2      3      7      6      2      2
  KDM5C WILD-TYPE     67     71     71     63     76     27
D3V5, multiclass
        clus
vv       KDM5C MUTATED KDM5C WILD-TYPE
  CLUS_1             2              67
  CLUS_2             3              71
  CLUS_3             7              71
  CLUS_4             6              63
  CLUS_5             2              76
  CLUS_6             2              27
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KDM5C MUTATED        2      7      5      8
  KDM5C WILD-TYPE    107     88     67    113
D3V6, multiclass
        clus
vv       KDM5C MUTATED KDM5C WILD-TYPE
  CLUS_1             2             107
  CLUS_2             7              88
  CLUS_3             5              67
  CLUS_4             8             113
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KDM5C MUTATED        0      5      5      9      5
  KDM5C WILD-TYPE     60    132     67    126     25
D3V7, multiclass
        clus
vv       KDM5C MUTATED KDM5C WILD-TYPE
  CLUS_1             0              60
  CLUS_2             5             132
  CLUS_3             5              67
  CLUS_4             9             126
  CLUS_5             5              25
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  KDM5C MUTATED       13      1      2      8      0      0
  KDM5C WILD-TYPE     86     24    148    107     30     15
D3V8, multiclass
        clus
vv       KDM5C MUTATED KDM5C WILD-TYPE
  CLUS_1            13              86
  CLUS_2             1              24
  CLUS_3             2             148
  CLUS_4             8             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 CLUS_4 CLUS_5
  KDM5C MUTATED        1      1      5     11      7
  KDM5C WILD-TYPE     70     48    154     93     37
D3V9, multiclass
        clus
vv       KDM5C MUTATED KDM5C WILD-TYPE
  CLUS_1             1              70
  CLUS_2             1              48
  CLUS_3             5             154
  CLUS_4            11              93
  CLUS_5             7              37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table 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        8      7     10
  KDM5C WILD-TYPE    138    166     98
D3V10, multiclass
        clus
vv       KDM5C MUTATED KDM5C WILD-TYPE
  CLUS_1             8             138
  CLUS_2             7             166
  CLUS_3            10              98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KDM5C MUTATED        0      0      2      1
  KDM5C WILD-TYPE     17     20     37     30
D3V11, multiclass
        clus
vv       KDM5C MUTATED KDM5C WILD-TYPE
  CLUS_1             0              17
  CLUS_2             0              20
  CLUS_3             2              37
  CLUS_4             1              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      2      0      1
  KDM5C WILD-TYPE     18     42     26     18
D3V12, multiclass
        clus
vv       KDM5C MUTATED KDM5C WILD-TYPE
  CLUS_1             0              18
  CLUS_2             2              42
  CLUS_3             0              26
  CLUS_4             1              18
[1] 4 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 = VHL MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  VHL MUTATED       10      4      1
  VHL WILD-TYPE      7     12      9
D4V1, multiclass
        clus
vv       VHL MUTATED VHL WILD-TYPE
  CLUS_1          10             7
  CLUS_2           4            12
  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        1      0      0      4      6      3      1
  VHL WILD-TYPE      2      5      3      6      4      1      7
D4V2, multiclass
        clus
vv       VHL MUTATED VHL WILD-TYPE
  CLUS_1           1             2
  CLUS_2           0             5
  CLUS_3           0             3
  CLUS_4           4             6
  CLUS_5           6             4
  CLUS_6           3             1
  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 CLUS_4 CLUS_5 CLUS_6
  VHL MUTATED       19     25     52     31     41     24
  VHL WILD-TYPE     30     43     78     32     28     30
D4V3, multiclass
        clus
vv       VHL MUTATED VHL WILD-TYPE
  CLUS_1          19            30
  CLUS_2          25            43
  CLUS_3          52            78
  CLUS_4          31            32
  CLUS_5          41            28
  CLUS_6          24            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 CLUS_4
  VHL MUTATED       27     20     43     30
  VHL WILD-TYPE     30     39     40     34
D4V4, multiclass
        clus
vv       VHL MUTATED VHL WILD-TYPE
  CLUS_1          27            30
  CLUS_2          20            39
  CLUS_3          43            40
  CLUS_4          30            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 CLUS_5 CLUS_6
  VHL MUTATED       27     43     31     23     41     13
  VHL WILD-TYPE     42     31     47     46     37     16
D4V5, multiclass
        clus
vv       VHL MUTATED VHL WILD-TYPE
  CLUS_1          27            42
  CLUS_2          43            31
  CLUS_3          31            47
  CLUS_4          23            46
  CLUS_5          41            37
  CLUS_6          13            16
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  VHL MUTATED       48     42     30     58
  VHL WILD-TYPE     61     53     42     63
D4V6, multiclass
        clus
vv       VHL MUTATED VHL WILD-TYPE
  CLUS_1          48            61
  CLUS_2          42            53
  CLUS_3          30            42
  CLUS_4          58            63
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  VHL MUTATED       12     75     37     54     14
  VHL WILD-TYPE     48     62     35     81     16
D4V7, multiclass
        clus
vv       VHL MUTATED VHL WILD-TYPE
  CLUS_1          12            48
  CLUS_2          75            62
  CLUS_3          37            35
  CLUS_4          54            81
  CLUS_5          14            16
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- 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       45      6     81     48     11      1
  VHL WILD-TYPE     54     19     69     67     19     14
D4V8, multiclass
        clus
vv       VHL MUTATED VHL WILD-TYPE
  CLUS_1          45            54
  CLUS_2           6            19
  CLUS_3          81            69
  CLUS_4          48            67
  CLUS_5          11            19
  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 CLUS_4 CLUS_5
  VHL MUTATED       33     22     76     36     21
  VHL WILD-TYPE     38     27     83     68     23
D4V9, multiclass
        clus
vv       VHL MUTATED VHL WILD-TYPE
  CLUS_1          33            38
  CLUS_2          22            27
  CLUS_3          76            83
  CLUS_4          36            68
  CLUS_5          21            23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table 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       60     91     37
  VHL WILD-TYPE     86     82     71
D4V10, multiclass
        clus
vv       VHL MUTATED VHL WILD-TYPE
  CLUS_1          60            86
  CLUS_2          91            82
  CLUS_3          37            71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger 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      8     17     17
  VHL WILD-TYPE     11     12     22     14
D4V11, multiclass
        clus
vv       VHL MUTATED VHL WILD-TYPE
  CLUS_1           6            11
  CLUS_2           8            12
  CLUS_3          17            22
  CLUS_4          17            14
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  VHL MUTATED        7     23     10      8
  VHL WILD-TYPE     11     21     16     11
D4V12, multiclass
        clus
vv       VHL MUTATED VHL WILD-TYPE
  CLUS_1           7            11
  CLUS_2          23            21
  CLUS_3          10            16
  CLUS_4           8            11
[1] 4 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 = MTOR MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MTOR MUTATED        1      1      0
  MTOR WILD-TYPE     16     15     10
D5V1, multiclass
[1] "Remove cluster labels:" "MTOR MUTATED"          
clus
  MTOR MUTATED MTOR WILD-TYPE 
             2             41 
    TCGA-A3-3311     TCGA-A3-3313     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-A3-3374     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-B2-3923     TCGA-B2-3924 
"MTOR WILD-TYPE" "MTOR WILD-TYPE" "MTOR WILD-TYPE" "MTOR WILD-TYPE" 
    TCGA-B2-4098     TCGA-B2-4099     TCGA-B8-4143     TCGA-B8-4148 
"MTOR WILD-TYPE" "MTOR WILD-TYPE" "MTOR WILD-TYPE" "MTOR WILD-TYPE" 
    TCGA-B8-4151     TCGA-B8-4154     TCGA-B8-4619     TCGA-B8-4620 
"MTOR WILD-TYPE" "MTOR WILD-TYPE" "MTOR WILD-TYPE" "MTOR WILD-TYPE" 
    TCGA-BP-4161     TCGA-BP-4162     TCGA-BP-4163     TCGA-BP-4164 
"MTOR WILD-TYPE" "MTOR WILD-TYPE" "MTOR WILD-TYPE" "MTOR WILD-TYPE" 
    TCGA-BP-4167     TCGA-CJ-4634     TCGA-CJ-4636     TCGA-CJ-4637 
"MTOR WILD-TYPE" "MTOR WILD-TYPE" "MTOR WILD-TYPE" "MTOR WILD-TYPE" 
    TCGA-CJ-4638     TCGA-CJ-4639     TCGA-CJ-4640     TCGA-CJ-4641 
"MTOR WILD-TYPE" "MTOR WILD-TYPE" "MTOR WILD-TYPE" "MTOR WILD-TYPE" 
    TCGA-CJ-4643 
"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      3      5      3      9      9      4      8
D5V2, multiclass
[1] "Remove cluster labels:" "MTOR MUTATED"          
clus
  MTOR MUTATED MTOR WILD-TYPE 
             2             41 
    TCGA-A3-3311     TCGA-A3-3313     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-A3-3374     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-B2-3923     TCGA-B2-3924 
"MTOR WILD-TYPE" "MTOR WILD-TYPE" "MTOR WILD-TYPE" "MTOR WILD-TYPE" 
    TCGA-B2-4098     TCGA-B2-4099     TCGA-B8-4143     TCGA-B8-4148 
"MTOR WILD-TYPE" "MTOR WILD-TYPE" "MTOR WILD-TYPE" "MTOR WILD-TYPE" 
    TCGA-B8-4151     TCGA-B8-4154     TCGA-B8-4619     TCGA-B8-4620 
"MTOR WILD-TYPE" "MTOR WILD-TYPE" "MTOR WILD-TYPE" "MTOR WILD-TYPE" 
    TCGA-BP-4161     TCGA-BP-4162     TCGA-BP-4163     TCGA-BP-4164 
"MTOR WILD-TYPE" "MTOR WILD-TYPE" "MTOR WILD-TYPE" "MTOR WILD-TYPE" 
    TCGA-BP-4167     TCGA-CJ-4634     TCGA-CJ-4636     TCGA-CJ-4637 
"MTOR WILD-TYPE" "MTOR WILD-TYPE" "MTOR WILD-TYPE" "MTOR WILD-TYPE" 
    TCGA-CJ-4638     TCGA-CJ-4639     TCGA-CJ-4640     TCGA-CJ-4641 
"MTOR WILD-TYPE" "MTOR WILD-TYPE" "MTOR WILD-TYPE" "MTOR WILD-TYPE" 
    TCGA-CJ-4643 
"MTOR WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MTOR MUTATED        3      1      9      5      6      4
  MTOR WILD-TYPE     46     67    121     58     63     50
D5V3, multiclass
        clus
vv       MTOR MUTATED MTOR WILD-TYPE
  CLUS_1            3             46
  CLUS_2            1             67
  CLUS_3            9            121
  CLUS_4            5             58
  CLUS_5            6             63
  CLUS_6            4             50
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger 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        3      3     11      6
  MTOR WILD-TYPE     54     56     72     58
D5V4, multiclass
        clus
vv       MTOR MUTATED MTOR WILD-TYPE
  CLUS_1            3             54
  CLUS_2            3             56
  CLUS_3           11             72
  CLUS_4            6             58
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- 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        2      6     10      7      1      0
  MTOR WILD-TYPE     67     68     68     62     77     29
D5V5, multiclass
        clus
vv       MTOR MUTATED MTOR WILD-TYPE
  CLUS_1            2             67
  CLUS_2            6             68
  CLUS_3           10             68
  CLUS_4            7             62
  CLUS_5            1             77
  CLUS_6            0             29
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger 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        3     14      3      6
  MTOR WILD-TYPE    106     81     69    115
D5V6, multiclass
        clus
vv       MTOR MUTATED MTOR WILD-TYPE
  CLUS_1            3            106
  CLUS_2           14             81
  CLUS_3            3             69
  CLUS_4            6            115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MTOR MUTATED        5     11      2     10      0
  MTOR WILD-TYPE     55    126     70    125     30
D5V7, multiclass
        clus
vv       MTOR MUTATED MTOR WILD-TYPE
  CLUS_1            5             55
  CLUS_2           11            126
  CLUS_3            2             70
  CLUS_4           10            125
  CLUS_5            0             30
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- 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     94     23    141    105     29     14
D5V8, multiclass
        clus
vv       MTOR MUTATED MTOR WILD-TYPE
  CLUS_1            5             94
  CLUS_2            2             23
  CLUS_3            9            141
  CLUS_4           10            105
  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 CLUS_4 CLUS_5
  MTOR MUTATED        5      4      9      7      3
  MTOR WILD-TYPE     66     45    150     97     41
D5V9, multiclass
        clus
vv       MTOR MUTATED MTOR WILD-TYPE
  CLUS_1            5             66
  CLUS_2            4             45
  CLUS_3            9            150
  CLUS_4            7             97
  CLUS_5            3             41
[1] 5 2
[1] TRUE
[1] "dimension of contingency table 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       11      7     10
  MTOR WILD-TYPE    135    166     98
D5V10, multiclass
        clus
vv       MTOR MUTATED MTOR WILD-TYPE
  CLUS_1           11            135
  CLUS_2            7            166
  CLUS_3           10             98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MTOR MUTATED        1      1      4      1
  MTOR WILD-TYPE     16     19     35     30
D5V11, multiclass
        clus
vv       MTOR MUTATED MTOR WILD-TYPE
  CLUS_1            1             16
  CLUS_2            1             19
  CLUS_3            4             35
  CLUS_4            1             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
  MTOR MUTATED        1      2      2      2
  MTOR WILD-TYPE     17     42     24     17
D5V12, multiclass
        clus
vv       MTOR MUTATED MTOR WILD-TYPE
  CLUS_1            1             17
  CLUS_2            2             42
  CLUS_3            2             24
  CLUS_4            2             17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(6) Variable = TP53 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TP53 MUTATED        0      0      1
  TP53 WILD-TYPE     17     16      9
D6V1, multiclass
[1] "Remove cluster labels:" "TP53 MUTATED"          
clus
  TP53 MUTATED TP53 WILD-TYPE 
             1             42 
    TCGA-A3-3311     TCGA-A3-3313     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-A3-3374     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-B2-3923     TCGA-B2-3924 
"TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-B2-4098     TCGA-B2-4099     TCGA-B8-4143     TCGA-B8-4148 
"TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-B8-4151     TCGA-B8-4154     TCGA-B8-4619     TCGA-B8-4620 
"TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-BP-4161     TCGA-BP-4162     TCGA-BP-4163     TCGA-BP-4164 
"TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-BP-4167     TCGA-CJ-4634     TCGA-CJ-4636     TCGA-CJ-4637 
"TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-CJ-4638     TCGA-CJ-4639     TCGA-CJ-4640     TCGA-CJ-4641 
"TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-CJ-4643     TCGA-CJ-4644 
"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      3      5      3     10     10      4      7
D6V2, multiclass
[1] "Remove cluster labels:" "TP53 MUTATED"          
clus
  TP53 MUTATED TP53 WILD-TYPE 
             1             42 
    TCGA-A3-3311     TCGA-A3-3313     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-A3-3374     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-B2-3923     TCGA-B2-3924 
"TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-B2-4098     TCGA-B2-4099     TCGA-B8-4143     TCGA-B8-4148 
"TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-B8-4151     TCGA-B8-4154     TCGA-B8-4619     TCGA-B8-4620 
"TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-BP-4161     TCGA-BP-4162     TCGA-BP-4163     TCGA-BP-4164 
"TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-BP-4167     TCGA-CJ-4634     TCGA-CJ-4636     TCGA-CJ-4637 
"TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-CJ-4638     TCGA-CJ-4639     TCGA-CJ-4640     TCGA-CJ-4641 
"TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" "TP53 WILD-TYPE" 
    TCGA-CJ-4643     TCGA-CJ-4644 
"TP53 WILD-TYPE" "TP53 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TP53 MUTATED        1      1      3      1      0      3
  TP53 WILD-TYPE     48     67    127     62     69     51
D6V3, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1            1             48
  CLUS_2            1             67
  CLUS_3            3            127
  CLUS_4            1             62
  CLUS_5            0             69
  CLUS_6            3             51
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TP53 MUTATED        3      3      2      0
  TP53 WILD-TYPE     54     56     81     64
D6V4, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1            3             54
  CLUS_2            3             56
  CLUS_3            2             81
  CLUS_4            0             64
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TP53 MUTATED        2      0      4      1      0      0
  TP53 WILD-TYPE     67     74     74     68     78     29
D6V5, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1            2             67
  CLUS_2            0             74
  CLUS_3            4             74
  CLUS_4            1             68
  CLUS_5            0             78
  CLUS_6            0             29
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger 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        0      1      3      3
  TP53 WILD-TYPE    109     94     69    118
D6V6, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1            0            109
  CLUS_2            1             94
  CLUS_3            3             69
  CLUS_4            3            118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TP53 MUTATED        3      1      1      3      1
  TP53 WILD-TYPE     57    136     71    132     29
D6V7, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1            3             57
  CLUS_2            1            136
  CLUS_3            1             71
  CLUS_4            3            132
  CLUS_5            1             29
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TP53 MUTATED        1      0      2      3      1      2
  TP53 WILD-TYPE     98     25    148    112     29     13
D6V8, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1            1             98
  CLUS_2            0             25
  CLUS_3            2            148
  CLUS_4            3            112
  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 CLUS_4 CLUS_5
  TP53 MUTATED        1      2      2      4      0
  TP53 WILD-TYPE     70     47    157    100     44
D6V9, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1            1             70
  CLUS_2            2             47
  CLUS_3            2            157
  CLUS_4            4            100
  CLUS_5            0             44
[1] 5 2
[1] TRUE
[1] "dimension of contingency table 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      4
  TP53 WILD-TYPE    143    171    104
D6V10, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1            3            143
  CLUS_2            2            171
  CLUS_3            4            104
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger 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      0
  TP53 WILD-TYPE     16     19     37     31
D6V11, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1            1             16
  CLUS_2            1             19
  CLUS_3            2             37
  CLUS_4            0             31
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger 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      0
  TP53 WILD-TYPE     17     43     24     19
D6V12, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1            1             17
  CLUS_2            1             43
  CLUS_3            2             24
  CLUS_4            0             19
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(7) Variable = PTEN MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PTEN MUTATED        0      1      1
  PTEN WILD-TYPE     17     15      9
D7V1, multiclass
[1] "Remove cluster labels:" "PTEN MUTATED"          
clus
  PTEN MUTATED PTEN WILD-TYPE 
             2             41 
    TCGA-A3-3311     TCGA-A3-3313     TCGA-A3-3317     TCGA-A3-3322 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-A3-3323     TCGA-A3-3326     TCGA-A3-3331     TCGA-A3-3347 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-A3-3349     TCGA-A3-3362     TCGA-A3-3374     TCGA-AK-3440 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-AK-3443     TCGA-AK-3453     TCGA-AK-3455     TCGA-AK-3456 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-AK-3465     TCGA-AS-3777     TCGA-B2-3923     TCGA-B2-3924 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-B2-4098     TCGA-B2-4099     TCGA-B8-4143     TCGA-B8-4148 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-B8-4151     TCGA-B8-4154     TCGA-B8-4619     TCGA-B8-4620 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-BP-4162     TCGA-BP-4163     TCGA-BP-4164     TCGA-BP-4167 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-CJ-4634     TCGA-CJ-4636     TCGA-CJ-4637     TCGA-CJ-4638 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-CJ-4639     TCGA-CJ-4640     TCGA-CJ-4641     TCGA-CJ-4643 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-CJ-4644 
"PTEN WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  PTEN MUTATED        0      1      0      0      0      0      1
  PTEN WILD-TYPE      3      4      3     10     10      4      7
D7V2, multiclass
[1] "Remove cluster labels:" "PTEN MUTATED"          
clus
  PTEN MUTATED PTEN WILD-TYPE 
             2             41 
    TCGA-A3-3311     TCGA-A3-3313     TCGA-A3-3317     TCGA-A3-3322 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-A3-3323     TCGA-A3-3326     TCGA-A3-3331     TCGA-A3-3347 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-A3-3349     TCGA-A3-3362     TCGA-A3-3374     TCGA-AK-3440 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-AK-3443     TCGA-AK-3453     TCGA-AK-3455     TCGA-AK-3456 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-AK-3465     TCGA-AS-3777     TCGA-B2-3923     TCGA-B2-3924 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-B2-4098     TCGA-B2-4099     TCGA-B8-4143     TCGA-B8-4148 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-B8-4151     TCGA-B8-4154     TCGA-B8-4619     TCGA-B8-4620 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-BP-4162     TCGA-BP-4163     TCGA-BP-4164     TCGA-BP-4167 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-CJ-4634     TCGA-CJ-4636     TCGA-CJ-4637     TCGA-CJ-4638 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-CJ-4639     TCGA-CJ-4640     TCGA-CJ-4641     TCGA-CJ-4643 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-CJ-4644 
"PTEN WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PTEN MUTATED        2      1      6      1      2      2
  PTEN WILD-TYPE     47     67    124     62     67     52
D7V3, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1            2             47
  CLUS_2            1             67
  CLUS_3            6            124
  CLUS_4            1             62
  CLUS_5            2             67
  CLUS_6            2             52
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger 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        1      4      4      0
  PTEN WILD-TYPE     56     55     79     64
D7V4, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1            1             56
  CLUS_2            4             55
  CLUS_3            4             79
  CLUS_4            0             64
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PTEN MUTATED        2      1      7      2      2      1
  PTEN WILD-TYPE     67     73     71     67     76     28
D7V5, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1            2             67
  CLUS_2            1             73
  CLUS_3            7             71
  CLUS_4            2             67
  CLUS_5            2             76
  CLUS_6            1             28
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PTEN MUTATED        1      8      4      2
  PTEN WILD-TYPE    108     87     68    119
D7V6, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1            1            108
  CLUS_2            8             87
  CLUS_3            4             68
  CLUS_4            2            119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PTEN MUTATED        2      0      6      6      1
  PTEN WILD-TYPE     58    137     66    129     29
D7V7, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1            2             58
  CLUS_2            0            137
  CLUS_3            6             66
  CLUS_4            6            129
  CLUS_5            1             29
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PTEN MUTATED        5      1      0      8      0      1
  PTEN WILD-TYPE     94     24    150    107     30     14
D7V8, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1            5             94
  CLUS_2            1             24
  CLUS_3            0            150
  CLUS_4            8            107
  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 CLUS_4 CLUS_5
  PTEN MUTATED        0      1      2      3      9
  PTEN WILD-TYPE     71     48    157    101     35
D7V9, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1            0             71
  CLUS_2            1             48
  CLUS_3            2            157
  CLUS_4            3            101
  CLUS_5            9             35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table 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        7      3      5
  PTEN WILD-TYPE    139    170    103
D7V10, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1            7            139
  CLUS_2            3            170
  CLUS_3            5            103
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger 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      2
  PTEN WILD-TYPE     17     20     39     29
D7V11, multiclass
[1] "Remove cluster labels:" "PTEN MUTATED"          
clus
  PTEN MUTATED PTEN WILD-TYPE 
             2            105 
    TCGA-A3-3317     TCGA-A3-3358     TCGA-A3-3387     TCGA-AK-3440 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-AK-3458     TCGA-AK-3465     TCGA-B0-4700     TCGA-B0-4706 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-B0-4710     TCGA-B0-4712     TCGA-B0-4811     TCGA-B0-4836 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-B0-4837     TCGA-B0-4852     TCGA-B0-5080     TCGA-B0-5085 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-B0-5088     TCGA-B0-5399     TCGA-B0-5691     TCGA-B0-5692 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-B0-5693     TCGA-B0-5694     TCGA-B0-5695     TCGA-B0-5696 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-B0-5699     TCGA-B0-5702     TCGA-B0-5705     TCGA-B0-5709 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-B2-3923     TCGA-B2-3924     TCGA-B2-5633     TCGA-B2-5635 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-B4-5377     TCGA-B4-5836     TCGA-B8-5545     TCGA-B8-5550 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-B8-5551     TCGA-B8-5552     TCGA-B8-5553     TCGA-BP-4173 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-BP-4340     TCGA-BP-4761     TCGA-BP-4770     TCGA-BP-4787 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-BP-4789     TCGA-BP-4790     TCGA-BP-4804     TCGA-BP-4807 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-BP-4961     TCGA-BP-4967     TCGA-BP-4968     TCGA-BP-4970 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-BP-4974     TCGA-BP-4976     TCGA-BP-4981     TCGA-BP-4982 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-BP-4985     TCGA-BP-4988     TCGA-BP-4989     TCGA-BP-4992 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-BP-4995     TCGA-BP-4998     TCGA-BP-5001     TCGA-BP-5008 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-BP-5009     TCGA-CJ-4870     TCGA-CJ-4875     TCGA-CJ-4876 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-CJ-4878     TCGA-CJ-4881     TCGA-CJ-4887     TCGA-CJ-4889 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-CJ-4890     TCGA-CJ-4895     TCGA-CJ-4900     TCGA-CJ-5671 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-CJ-5675     TCGA-CJ-5676     TCGA-CJ-5681     TCGA-CJ-5683 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-CJ-5686     TCGA-CJ-6031     TCGA-CJ-6032     TCGA-CW-5585 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-CW-5589     TCGA-CW-6087     TCGA-CZ-4854     TCGA-CZ-4857 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-CZ-4858     TCGA-CZ-5453     TCGA-CZ-5454     TCGA-CZ-5455 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-CZ-5457     TCGA-CZ-5459     TCGA-CZ-5462     TCGA-CZ-5463 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-CZ-5466     TCGA-CZ-5467     TCGA-CZ-5469     TCGA-CZ-5470 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-CZ-5989     TCGA-DV-5565     TCGA-DV-5566     TCGA-DV-5569 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-EU-5904 
"PTEN WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PTEN MUTATED        0      1      1      0
  PTEN WILD-TYPE     18     43     25     19
D7V12, multiclass
[1] "Remove cluster labels:" "PTEN MUTATED"          
clus
  PTEN MUTATED PTEN WILD-TYPE 
             2            105 
    TCGA-A3-3317     TCGA-A3-3358     TCGA-A3-3387     TCGA-AK-3440 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-AK-3458     TCGA-AK-3465     TCGA-B0-4700     TCGA-B0-4706 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-B0-4710     TCGA-B0-4712     TCGA-B0-4811     TCGA-B0-4836 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-B0-4837     TCGA-B0-4852     TCGA-B0-5080     TCGA-B0-5085 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-B0-5088     TCGA-B0-5399     TCGA-B0-5691     TCGA-B0-5692 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-B0-5693     TCGA-B0-5694     TCGA-B0-5695     TCGA-B0-5696 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-B0-5699     TCGA-B0-5702     TCGA-B0-5705     TCGA-B0-5709 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-B2-3923     TCGA-B2-3924     TCGA-B2-5633     TCGA-B2-5635 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-B4-5377     TCGA-B4-5836     TCGA-B8-5545     TCGA-B8-5550 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-B8-5551     TCGA-B8-5552     TCGA-B8-5553     TCGA-BP-4173 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-BP-4340     TCGA-BP-4761     TCGA-BP-4770     TCGA-BP-4787 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-BP-4789     TCGA-BP-4790     TCGA-BP-4804     TCGA-BP-4807 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-BP-4961     TCGA-BP-4967     TCGA-BP-4968     TCGA-BP-4970 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-BP-4974     TCGA-BP-4976     TCGA-BP-4981     TCGA-BP-4982 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-BP-4985     TCGA-BP-4988     TCGA-BP-4989     TCGA-BP-4992 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-BP-4995     TCGA-BP-4998     TCGA-BP-5001     TCGA-BP-5008 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-BP-5009     TCGA-CJ-4870     TCGA-CJ-4875     TCGA-CJ-4876 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-CJ-4878     TCGA-CJ-4881     TCGA-CJ-4887     TCGA-CJ-4889 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-CJ-4890     TCGA-CJ-4895     TCGA-CJ-4900     TCGA-CJ-5671 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-CJ-5675     TCGA-CJ-5676     TCGA-CJ-5681     TCGA-CJ-5683 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-CJ-5686     TCGA-CJ-6031     TCGA-CJ-6032     TCGA-CW-5585 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-CW-5589     TCGA-CW-6087     TCGA-CZ-4854     TCGA-CZ-4857 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-CZ-4858     TCGA-CZ-5453     TCGA-CZ-5454     TCGA-CZ-5455 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-CZ-5457     TCGA-CZ-5459     TCGA-CZ-5462     TCGA-CZ-5463 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-CZ-5466     TCGA-CZ-5467     TCGA-CZ-5469     TCGA-CZ-5470 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-CZ-5989     TCGA-DV-5565     TCGA-DV-5566     TCGA-DV-5569 
"PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" "PTEN WILD-TYPE" 
    TCGA-EU-5904 
"PTEN WILD-TYPE" 

Clustering(8) Variable = NEFH MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NEFH MUTATED        0      0      0
  NEFH WILD-TYPE     17     16     10
D8V1, 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      3      5      3     10     10      4      8
D8V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  NEFH MUTATED        1      0      1      1      2      1
  NEFH WILD-TYPE     48     68    129     62     67     53
D8V3, multiclass
        clus
vv       NEFH MUTATED NEFH WILD-TYPE
  CLUS_1            1             48
  CLUS_2            0             68
  CLUS_3            1            129
  CLUS_4            1             62
  CLUS_5            2             67
  CLUS_6            1             53
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger 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      0      3      1
  NEFH WILD-TYPE     56     59     80     63
D8V4, multiclass
        clus
vv       NEFH MUTATED NEFH WILD-TYPE
  CLUS_1            1             56
  CLUS_2            0             59
  CLUS_3            3             80
  CLUS_4            1             63
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  NEFH MUTATED        1      2      2      0      1      0
  NEFH WILD-TYPE     68     72     76     69     77     29
D8V5, multiclass
        clus
vv       NEFH MUTATED NEFH WILD-TYPE
  CLUS_1            1             68
  CLUS_2            2             72
  CLUS_3            2             76
  CLUS_4            0             69
  CLUS_5            1             77
  CLUS_6            0             29
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger 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        2      4      0      0
  NEFH WILD-TYPE    107     91     72    121
D8V6, multiclass
        clus
vv       NEFH MUTATED NEFH WILD-TYPE
  CLUS_1            2            107
  CLUS_2            4             91
  CLUS_3            0             72
  CLUS_4            0            121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NEFH MUTATED        3      0      0      1      2
  NEFH WILD-TYPE     57    137     72    134     28
D8V7, multiclass
        clus
vv       NEFH MUTATED NEFH WILD-TYPE
  CLUS_1            3             57
  CLUS_2            0            137
  CLUS_3            0             72
  CLUS_4            1            134
  CLUS_5            2             28
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- 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      2      0      1      1      0
  NEFH WILD-TYPE     97     23    150    114     29     15
D8V8, multiclass
        clus
vv       NEFH MUTATED NEFH WILD-TYPE
  CLUS_1            2             97
  CLUS_2            2             23
  CLUS_3            0            150
  CLUS_4            1            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 CLUS_4 CLUS_5
  NEFH MUTATED        1      1      3      1      0
  NEFH WILD-TYPE     70     48    156    103     44
D8V9, multiclass
        clus
vv       NEFH MUTATED NEFH WILD-TYPE
  CLUS_1            1             70
  CLUS_2            1             48
  CLUS_3            3            156
  CLUS_4            1            103
  CLUS_5            0             44
[1] 5 2
[1] TRUE
[1] "dimension of contingency table 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        1      2      3
  NEFH WILD-TYPE    145    171    105
D8V10, multiclass
        clus
vv       NEFH MUTATED NEFH WILD-TYPE
  CLUS_1            1            145
  CLUS_2            2            171
  CLUS_3            3            105
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger 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      2      1
  NEFH WILD-TYPE     17     20     37     30
D8V11, multiclass
        clus
vv       NEFH MUTATED NEFH WILD-TYPE
  CLUS_1            0             17
  CLUS_2            0             20
  CLUS_3            2             37
  CLUS_4            1             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
  NEFH MUTATED        0      0      1      2
  NEFH WILD-TYPE     18     44     25     17
D8V12, multiclass
        clus
vv       NEFH MUTATED NEFH WILD-TYPE
  CLUS_1            0             18
  CLUS_2            0             44
  CLUS_3            1             25
  CLUS_4            2             17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(9) Variable = NF2 MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  NF2 MUTATED        0      1      0
  NF2 WILD-TYPE     17     15     10
D9V1, multiclass
[1] "Remove cluster labels:" "NF2 MUTATED"           
clus
  NF2 MUTATED NF2 WILD-TYPE 
            1            42 
   TCGA-A3-3311    TCGA-A3-3313    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-A3-3374    TCGA-AK-3427    TCGA-AK-3440    TCGA-AK-3443    TCGA-AK-3453 
"NF2 WILD-TYPE" "NF2 WILD-TYPE" "NF2 WILD-TYPE" "NF2 WILD-TYPE" "NF2 WILD-TYPE" 
   TCGA-AK-3455    TCGA-AK-3456    TCGA-AK-3465    TCGA-AS-3777    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      3      5      3      9     10      4      8
D9V2, multiclass
[1] "Remove cluster labels:" "NF2 MUTATED"           
clus
  NF2 MUTATED NF2 WILD-TYPE 
            1            42 
   TCGA-A3-3311    TCGA-A3-3313    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-A3-3374    TCGA-AK-3427    TCGA-AK-3440    TCGA-AK-3443    TCGA-AK-3453 
"NF2 WILD-TYPE" "NF2 WILD-TYPE" "NF2 WILD-TYPE" "NF2 WILD-TYPE" "NF2 WILD-TYPE" 
   TCGA-AK-3455    TCGA-AK-3456    TCGA-AK-3465    TCGA-AS-3777    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
  NF2 MUTATED        0      0      4      0      2      0
  NF2 WILD-TYPE     49     68    126     63     67     54
D9V3, multiclass
        clus
vv       NF2 MUTATED NF2 WILD-TYPE
  CLUS_1           0            49
  CLUS_2           0            68
  CLUS_3           4           126
  CLUS_4           0            63
  CLUS_5           2            67
  CLUS_6           0            54
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger 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      1      2      0
  NF2 WILD-TYPE     57     58     81     64
D9V4, multiclass
        clus
vv       NF2 MUTATED NF2 WILD-TYPE
  CLUS_1           0            57
  CLUS_2           1            58
  CLUS_3           2            81
  CLUS_4           0            64
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  NF2 MUTATED        1      1      3      0      0      1
  NF2 WILD-TYPE     68     73     75     69     78     28
D9V5, multiclass
        clus
vv       NF2 MUTATED NF2 WILD-TYPE
  CLUS_1           1            68
  CLUS_2           1            73
  CLUS_3           3            75
  CLUS_4           0            69
  CLUS_5           0            78
  CLUS_6           1            28
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NF2 MUTATED        0      3      3      0
  NF2 WILD-TYPE    109     92     69    121
D9V6, multiclass
        clus
vv       NF2 MUTATED NF2 WILD-TYPE
  CLUS_1           0           109
  CLUS_2           3            92
  CLUS_3           3            69
  CLUS_4           0           121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NF2 MUTATED        2      1      0      3      0
  NF2 WILD-TYPE     58    136     72    132     30
D9V7, multiclass
        clus
vv       NF2 MUTATED NF2 WILD-TYPE
  CLUS_1           2            58
  CLUS_2           1           136
  CLUS_3           0            72
  CLUS_4           3           132
  CLUS_5           0            30
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- 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     99     25    149    111     29     15
D9V8, multiclass
        clus
vv       NF2 MUTATED NF2 WILD-TYPE
  CLUS_1           0            99
  CLUS_2           0            25
  CLUS_3           1           149
  CLUS_4           4           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 CLUS_4 CLUS_5
  NF2 MUTATED        1      1      1      3      0
  NF2 WILD-TYPE     70     48    158    101     44
D9V9, multiclass
        clus
vv       NF2 MUTATED NF2 WILD-TYPE
  CLUS_1           1            70
  CLUS_2           1            48
  CLUS_3           1           158
  CLUS_4           3           101
  CLUS_5           0            44
[1] 5 2
[1] TRUE
[1] "dimension of contingency table 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        4      1      1
  NF2 WILD-TYPE    142    172    107
D9V10, multiclass
        clus
vv       NF2 MUTATED NF2 WILD-TYPE
  CLUS_1           4           142
  CLUS_2           1           172
  CLUS_3           1           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
  NF2 MUTATED        0      0      0      0
  NF2 WILD-TYPE     17     20     39     31
D9V11, multiclass
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NF2 MUTATED        0      0      0      0
  NF2 WILD-TYPE     18     44     26     19
D9V12, multiclass

Clustering(10) Variable = ATM MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  ATM MUTATED        1      0      0
  ATM WILD-TYPE     16     16     10
D10V1, multiclass
[1] "Remove cluster labels:" "ATM MUTATED"           
clus
  ATM MUTATED ATM WILD-TYPE 
            1            42 
   TCGA-A3-3311    TCGA-A3-3313    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-A3-3374    TCGA-AK-3427    TCGA-AK-3440    TCGA-AK-3443    TCGA-AK-3453 
"ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" 
   TCGA-AK-3455    TCGA-AK-3456    TCGA-AK-3465    TCGA-AS-3777    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      3      5      3     10      9      4      8
D10V2, multiclass
[1] "Remove cluster labels:" "ATM MUTATED"           
clus
  ATM MUTATED ATM WILD-TYPE 
            1            42 
   TCGA-A3-3311    TCGA-A3-3313    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-A3-3374    TCGA-AK-3427    TCGA-AK-3440    TCGA-AK-3443    TCGA-AK-3453 
"ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" "ATM WILD-TYPE" 
   TCGA-AK-3455    TCGA-AK-3456    TCGA-AK-3465    TCGA-AS-3777    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
  ATM MUTATED        4      0      2      1      4      1
  ATM WILD-TYPE     45     68    128     62     65     53
D10V3, multiclass
        clus
vv       ATM MUTATED ATM WILD-TYPE
  CLUS_1           4            45
  CLUS_2           0            68
  CLUS_3           2           128
  CLUS_4           1            62
  CLUS_5           4            65
  CLUS_6           1            53
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger 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      1      2      5
  ATM WILD-TYPE     57     58     81     59
D10V4, multiclass
        clus
vv       ATM MUTATED ATM WILD-TYPE
  CLUS_1           0            57
  CLUS_2           1            58
  CLUS_3           2            81
  CLUS_4           5            59
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ATM MUTATED        2      2      2      1      3      1
  ATM WILD-TYPE     67     72     76     68     75     28
D10V5, multiclass
        clus
vv       ATM MUTATED ATM WILD-TYPE
  CLUS_1           2            67
  CLUS_2           2            72
  CLUS_3           2            76
  CLUS_4           1            68
  CLUS_5           3            75
  CLUS_6           1            28
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ATM MUTATED        4      2      2      3
  ATM WILD-TYPE    105     93     70    118
D10V6, multiclass
        clus
vv       ATM MUTATED ATM WILD-TYPE
  CLUS_1           4           105
  CLUS_2           2            93
  CLUS_3           2            70
  CLUS_4           3           118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ATM MUTATED        0      7      1      3      1
  ATM WILD-TYPE     60    130     71    132     29
D10V7, multiclass
        clus
vv       ATM MUTATED ATM WILD-TYPE
  CLUS_1           0            60
  CLUS_2           7           130
  CLUS_3           1            71
  CLUS_4           3           132
  CLUS_5           1            29
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ATM MUTATED        2      0      8      1      1      0
  ATM WILD-TYPE     97     25    142    114     29     15
D10V8, multiclass
        clus
vv       ATM MUTATED ATM WILD-TYPE
  CLUS_1           2            97
  CLUS_2           0            25
  CLUS_3           8           142
  CLUS_4           1           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 CLUS_4 CLUS_5
  ATM MUTATED        0      1      8      2      0
  ATM WILD-TYPE     71     48    151    102     44
D10V9, multiclass
        clus
vv       ATM MUTATED ATM WILD-TYPE
  CLUS_1           0            71
  CLUS_2           1            48
  CLUS_3           8           151
  CLUS_4           2           102
  CLUS_5           0            44
[1] 5 2
[1] TRUE
[1] "dimension of contingency table 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        1      5      5
  ATM WILD-TYPE    145    168    103
D10V10, multiclass
        clus
vv       ATM MUTATED ATM WILD-TYPE
  CLUS_1           1           145
  CLUS_2           5           168
  CLUS_3           5           103
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger 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      0      0      2
  ATM WILD-TYPE     17     20     39     29
D10V11, 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 CLUS_4
  ATM MUTATED        1      0      1      0
  ATM WILD-TYPE     17     44     25     19
D10V12, 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(11) Variable = NUDT11 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  NUDT11 MUTATED        0      0      0
  NUDT11 WILD-TYPE     17     16     10
D11V1, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  NUDT11 MUTATED        0      0      0      0      0      0      0
  NUDT11 WILD-TYPE      3      5      3     10     10      4      8
D11V2, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  NUDT11 MUTATED        0      0      1      0      3      0
  NUDT11 WILD-TYPE     49     68    129     63     66     54
D11V3, multiclass
        clus
vv       NUDT11 MUTATED NUDT11 WILD-TYPE
  CLUS_1              0               49
  CLUS_2              0               68
  CLUS_3              1              129
  CLUS_4              0               63
  CLUS_5              3               66
  CLUS_6              0               54
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NUDT11 MUTATED        0      1      2      1
  NUDT11 WILD-TYPE     57     58     81     63
D11V4, multiclass
        clus
vv       NUDT11 MUTATED NUDT11 WILD-TYPE
  CLUS_1              0               57
  CLUS_2              1               58
  CLUS_3              2               81
  CLUS_4              1               63
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  NUDT11 MUTATED        0      1      1      1      0      1
  NUDT11 WILD-TYPE     69     73     77     68     78     28
D11V5, multiclass
        clus
vv       NUDT11 MUTATED NUDT11 WILD-TYPE
  CLUS_1              0               69
  CLUS_2              1               73
  CLUS_3              1               77
  CLUS_4              1               68
  CLUS_5              0               78
  CLUS_6              1               28
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NUDT11 MUTATED        0      2      1      1
  NUDT11 WILD-TYPE    109     93     71    120
D11V6, multiclass
        clus
vv       NUDT11 MUTATED NUDT11 WILD-TYPE
  CLUS_1              0              109
  CLUS_2              2               93
  CLUS_3              1               71
  CLUS_4              1              120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NUDT11 MUTATED        1      2      1      0      0
  NUDT11 WILD-TYPE     59    135     71    135     30
D11V7, multiclass
        clus
vv       NUDT11 MUTATED NUDT11 WILD-TYPE
  CLUS_1              1               59
  CLUS_2              2              135
  CLUS_3              1               71
  CLUS_4              0              135
  CLUS_5              0               30
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  NUDT11 MUTATED        1      0      2      0      1      0
  NUDT11 WILD-TYPE     98     25    148    115     29     15
D11V8, multiclass
        clus
vv       NUDT11 MUTATED NUDT11 WILD-TYPE
  CLUS_1              1               98
  CLUS_2              0               25
  CLUS_3              2              148
  CLUS_4              0              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 CLUS_4 CLUS_5
  NUDT11 MUTATED        1      0      2      1      0
  NUDT11 WILD-TYPE     70     49    157    103     44
D11V9, multiclass
        clus
vv       NUDT11 MUTATED NUDT11 WILD-TYPE
  CLUS_1              1               70
  CLUS_2              0               49
  CLUS_3              2              157
  CLUS_4              1              103
  CLUS_5              0               44
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  NUDT11 MUTATED        1      2      1
  NUDT11 WILD-TYPE    145    171    107
D11V10, multiclass
        clus
vv       NUDT11 MUTATED NUDT11 WILD-TYPE
  CLUS_1              1              145
  CLUS_2              2              171
  CLUS_3              1              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
  NUDT11 MUTATED        0      0      0      0
  NUDT11 WILD-TYPE     17     20     39     31
D11V11, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NUDT11 MUTATED        0      0      0      0
  NUDT11 WILD-TYPE     18     44     26     19
D11V12, multiclass

Clustering(12) Variable = PIK3CA MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PIK3CA MUTATED        0      0      0
  PIK3CA WILD-TYPE     17     16     10
D12V1, 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      3      5      3     10     10      4      8
D12V2, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PIK3CA MUTATED        4      1      3      1      1      0
  PIK3CA WILD-TYPE     45     67    127     62     68     54
D12V3, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1              4               45
  CLUS_2              1               67
  CLUS_3              3              127
  CLUS_4              1               62
  CLUS_5              1               68
  CLUS_6              0               54
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger 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        1      1      2      1
  PIK3CA WILD-TYPE     56     58     81     63
D12V4, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1              1               56
  CLUS_2              1               58
  CLUS_3              2               81
  CLUS_4              1               63
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PIK3CA MUTATED        3      0      3      2      0      1
  PIK3CA WILD-TYPE     66     74     75     67     78     28
D12V5, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1              3               66
  CLUS_2              0               74
  CLUS_3              3               75
  CLUS_4              2               67
  CLUS_5              0               78
  CLUS_6              1               28
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PIK3CA MUTATED        1      2      2      4
  PIK3CA WILD-TYPE    108     93     70    117
D12V6, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1              1              108
  CLUS_2              2               93
  CLUS_3              2               70
  CLUS_4              4              117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PIK3CA MUTATED        0      5      0      5      0
  PIK3CA WILD-TYPE     60    132     72    130     30
D12V7, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1              0               60
  CLUS_2              5              132
  CLUS_3              0               72
  CLUS_4              5              130
  CLUS_5              0               30
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- 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      4      4      1      0
  PIK3CA WILD-TYPE     98     25    146    111     29     15
D12V8, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1              1               98
  CLUS_2              0               25
  CLUS_3              4              146
  CLUS_4              4              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 CLUS_4 CLUS_5
  PIK3CA MUTATED        2      1      3      4      0
  PIK3CA WILD-TYPE     69     48    156    100     44
D12V9, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1              2               69
  CLUS_2              1               48
  CLUS_3              3              156
  CLUS_4              4              100
  CLUS_5              0               44
[1] 5 2
[1] TRUE
[1] "dimension of contingency table 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        4      4      2
  PIK3CA WILD-TYPE    142    169    106
D12V10, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1              4              142
  CLUS_2              4              169
  CLUS_3              2              106
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PIK3CA MUTATED        0      0      0      0
  PIK3CA WILD-TYPE     17     20     39     31
D12V11, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PIK3CA MUTATED        0      0      0      0
  PIK3CA WILD-TYPE     18     44     26     19
D12V12, multiclass

Clustering(13) Variable = GPR50 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  GPR50 MUTATED        0      0      0
  GPR50 WILD-TYPE     17     16     10
D13V1, 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      3      5      3     10     10      4      8
D13V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  GPR50 MUTATED        0      1      1      1      0      0
  GPR50 WILD-TYPE     49     67    129     62     69     54
D13V3, multiclass
        clus
vv       GPR50 MUTATED GPR50 WILD-TYPE
  CLUS_1             0              49
  CLUS_2             1              67
  CLUS_3             1             129
  CLUS_4             1              62
  CLUS_5             0              69
  CLUS_6             0              54
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger 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     55     58     83     64
D13V4, multiclass
        clus
vv       GPR50 MUTATED GPR50 WILD-TYPE
  CLUS_1             2              55
  CLUS_2             1              58
  CLUS_3             0              83
  CLUS_4             0              64
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  GPR50 MUTATED        1      0      0      0      0      2
  GPR50 WILD-TYPE     68     74     78     69     78     27
D13V5, multiclass
        clus
vv       GPR50 MUTATED GPR50 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             0              74
  CLUS_3             0              78
  CLUS_4             0              69
  CLUS_5             0              78
  CLUS_6             2              27
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GPR50 MUTATED        1      0      1      1
  GPR50 WILD-TYPE    108     95     71    120
D13V6, multiclass
        clus
vv       GPR50 MUTATED GPR50 WILD-TYPE
  CLUS_1             1             108
  CLUS_2             0              95
  CLUS_3             1              71
  CLUS_4             1             120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  GPR50 MUTATED        1      1      0      1      0
  GPR50 WILD-TYPE     59    136     72    134     30
D13V7, multiclass
        clus
vv       GPR50 MUTATED GPR50 WILD-TYPE
  CLUS_1             1              59
  CLUS_2             1             136
  CLUS_3             0              72
  CLUS_4             1             134
  CLUS_5             0              30
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- 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     99     25    149    114     30     14
D13V8, multiclass
        clus
vv       GPR50 MUTATED GPR50 WILD-TYPE
  CLUS_1             0              99
  CLUS_2             0              25
  CLUS_3             1             149
  CLUS_4             1             114
  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 CLUS_4 CLUS_5
  GPR50 MUTATED        1      0      0      1      1
  GPR50 WILD-TYPE     70     49    159    103     43
D13V9, multiclass
        clus
vv       GPR50 MUTATED GPR50 WILD-TYPE
  CLUS_1             1              70
  CLUS_2             0              49
  CLUS_3             0             159
  CLUS_4             1             103
  CLUS_5             1              43
[1] 5 2
[1] TRUE
[1] "dimension of contingency table 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    144    173    107
D13V10, multiclass
        clus
vv       GPR50 MUTATED GPR50 WILD-TYPE
  CLUS_1             2             144
  CLUS_2             0             173
  CLUS_3             1             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
  GPR50 MUTATED        0      0      0      0
  GPR50 WILD-TYPE     17     20     39     31
D13V11, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GPR50 MUTATED        0      0      0      0
  GPR50 WILD-TYPE     18     44     26     19
D13V12, multiclass

Clustering(14) Variable = TFDP2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TFDP2 MUTATED        0      0      0
  TFDP2 WILD-TYPE     17     16     10
D14V1, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  TFDP2 MUTATED        0      0      0      0      0      0      0
  TFDP2 WILD-TYPE      3      5      3     10     10      4      8
D14V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TFDP2 MUTATED        1      0      2      0      0      1
  TFDP2 WILD-TYPE     48     68    128     63     69     53
D14V3, multiclass
        clus
vv       TFDP2 MUTATED TFDP2 WILD-TYPE
  CLUS_1             1              48
  CLUS_2             0              68
  CLUS_3             2             128
  CLUS_4             0              63
  CLUS_5             0              69
  CLUS_6             1              53
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TFDP2 MUTATED        0      0      1      1
  TFDP2 WILD-TYPE     57     59     82     63
D14V4, multiclass
[1] "Remove cluster labels:" "TFDP2 MUTATED"         
clus
  TFDP2 MUTATED TFDP2 WILD-TYPE 
              2             261 
     TCGA-A3-3357      TCGA-A3-3358      TCGA-A3-3367      TCGA-A3-3370 
"TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" 
     TCGA-A3-3376      TCGA-A3-3385      TCGA-A3-3387      TCGA-AK-3425 
"TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" 
     TCGA-AK-3428      TCGA-AK-3431      TCGA-AK-3434      TCGA-AK-3440 
"TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" 
     TCGA-AK-3445      TCGA-AK-3450      TCGA-AK-3453      TCGA-AK-3454 
"TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" 
     TCGA-AK-3458      TCGA-AK-3460      TCGA-AK-3461      TCGA-B0-4690 
"TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" 
     TCGA-B0-4691      TCGA-B0-4693      TCGA-B0-4694      TCGA-B0-4697 
"TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" 
     TCGA-B0-4700      TCGA-B0-4703      TCGA-B0-4706      TCGA-B0-4707 
"TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" 
     TCGA-B0-4710      TCGA-B0-4712      TCGA-B0-4713      TCGA-B0-4714 
"TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" 
     TCGA-B0-4718      TCGA-B0-4810      TCGA-B0-4811      TCGA-B0-4813 
"TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" 
     TCGA-B0-4814      TCGA-B0-4815      TCGA-B0-4816      TCGA-B0-4817 
"TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" 
     TCGA-B0-4818      TCGA-B0-4819      TCGA-B0-4822      TCGA-B0-4823 
"TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" 
     TCGA-B0-4824      TCGA-B0-4827      TCGA-B0-4828      TCGA-B0-4841 
"TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" 
     TCGA-B0-4842      TCGA-B0-4843      TCGA-B0-4844      TCGA-B0-4845 
"TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" 
     TCGA-B0-4846      TCGA-B0-4847      TCGA-B0-4848      TCGA-B0-4849 
"TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" 
     TCGA-B0-4852      TCGA-B0-4945      TCGA-B0-5080      TCGA-B0-5083 
"TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" 
     TCGA-B0-5092      TCGA-B0-5094      TCGA-B0-5095      TCGA-B0-5096 
"TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" 
     TCGA-B0-5097      TCGA-B0-5098      TCGA-B0-5099      TCGA-B0-5100 
"TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" 
     TCGA-B0-5102      TCGA-B0-5104      TCGA-B0-5106      TCGA-B0-5107 
"TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" 
     TCGA-B0-5108      TCGA-B0-5109      TCGA-B0-5110      TCGA-B0-5113 
"TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" 
     TCGA-B0-5115      TCGA-B0-5116      TCGA-B0-5117      TCGA-B0-5119 
"TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" 
     TCGA-B0-5120      TCGA-B0-5121      TCGA-B0-5399      TCGA-B0-5400 
"TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" 
     TCGA-B0-5402      TCGA-B0-5691      TCGA-B0-5692      TCGA-B0-5693 
"TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" 
     TCGA-B0-5694      TCGA-B0-5695      TCGA-B0-5696      TCGA-B0-5697 
"TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" 
     TCGA-B0-5698      TCGA-B0-5699      TCGA-B0-5701      TCGA-B0-5702 
"TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" 
     TCGA-B0-5703      TCGA-B0-5705      TCGA-B0-5706      TCGA-B0-5707 
"TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" 
     TCGA-B0-5709      TCGA-B0-5710      TCGA-B0-5711      TCGA-B0-5712 
"TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" 
     TCGA-B0-5713      TCGA-B0-5812      TCGA-B2-3924      TCGA-B2-4101 
"TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" 
     TCGA-B2-5633      TCGA-B2-5635      TCGA-B2-5641      TCGA-B4-5377 
"TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" 
     TCGA-B4-5832      TCGA-B4-5834      TCGA-B4-5835      TCGA-B4-5836 
"TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" 
     TCGA-B4-5838      TCGA-B4-5843      TCGA-B4-5844      TCGA-B8-4146 
"TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" 
     TCGA-B8-4153      TCGA-B8-4621      TCGA-B8-4622      TCGA-B8-5158 
"TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" 
     TCGA-B8-5159      TCGA-B8-5162      TCGA-B8-5163      TCGA-B8-5164 
"TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" 
     TCGA-B8-5165      TCGA-B8-5545      TCGA-B8-5546      TCGA-B8-5549 
"TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" 
     TCGA-B8-5550      TCGA-B8-5551      TCGA-B8-5552      TCGA-B8-5553 
"TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" 
     TCGA-BP-4177      TCGA-BP-4760      TCGA-BP-4770      TCGA-BP-4782 
"TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" 
     TCGA-BP-4795      TCGA-BP-4801      TCGA-BP-4993      TCGA-BP-5010 
"TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" 
     TCGA-BP-5168      TCGA-BP-5169      TCGA-BP-5170      TCGA-BP-5173 
"TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" 
     TCGA-BP-5174      TCGA-BP-5175      TCGA-BP-5176      TCGA-BP-5177 
"TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" 
     TCGA-BP-5178      TCGA-BP-5180      TCGA-BP-5181      TCGA-BP-5182 
"TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" 
     TCGA-BP-5183      TCGA-BP-5184      TCGA-BP-5185      TCGA-BP-5186 
"TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" 
     TCGA-BP-5187      TCGA-BP-5189      TCGA-BP-5190      TCGA-BP-5191 
"TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" 
     TCGA-BP-5192      TCGA-BP-5194      TCGA-BP-5195      TCGA-BP-5196 
"TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" 
     TCGA-BP-5198      TCGA-BP-5199      TCGA-BP-5200      TCGA-BP-5201 
"TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" 
     TCGA-BP-5202      TCGA-CJ-4869      TCGA-CJ-4882      TCGA-CJ-4897 
"TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" 
     TCGA-CJ-4901      TCGA-CJ-4902      TCGA-CJ-4903      TCGA-CJ-4904 
"TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" 
     TCGA-CJ-4905      TCGA-CJ-4907      TCGA-CJ-4908      TCGA-CJ-4912 
"TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" 
     TCGA-CJ-4916      TCGA-CJ-4918      TCGA-CJ-4920      TCGA-CJ-4923 
"TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" 
     TCGA-CJ-5671      TCGA-CJ-5672      TCGA-CJ-5675      TCGA-CJ-5676 
"TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" 
     TCGA-CJ-5677      TCGA-CJ-5678      TCGA-CJ-5679      TCGA-CJ-5680 
"TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" 
     TCGA-CJ-5681      TCGA-CJ-5682      TCGA-CJ-5683      TCGA-CJ-5684 
"TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" 
     TCGA-CJ-5686      TCGA-CJ-6027      TCGA-CJ-6028      TCGA-CJ-6030 
"TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" 
     TCGA-CJ-6031      TCGA-CJ-6032      TCGA-CJ-6033      TCGA-CW-5580 
"TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" 
     TCGA-CW-5581      TCGA-CW-5583      TCGA-CW-5585      TCGA-CW-5588 
"TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" 
     TCGA-CW-5589      TCGA-CW-5591      TCGA-CW-6087      TCGA-CW-6090 
"TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" 
     TCGA-CW-6093      TCGA-CW-6097      TCGA-CZ-4853      TCGA-CZ-4856 
"TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" 
     TCGA-CZ-4859      TCGA-CZ-4863      TCGA-CZ-4865      TCGA-CZ-4866 
"TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" 
     TCGA-CZ-5451      TCGA-CZ-5452      TCGA-CZ-5453      TCGA-CZ-5454 
"TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" 
     TCGA-CZ-5455      TCGA-CZ-5456      TCGA-CZ-5457      TCGA-CZ-5458 
"TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" 
     TCGA-CZ-5459      TCGA-CZ-5460      TCGA-CZ-5461      TCGA-CZ-5462 
"TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" 
     TCGA-CZ-5463      TCGA-CZ-5465      TCGA-CZ-5466      TCGA-CZ-5467 
"TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" 
     TCGA-CZ-5468      TCGA-CZ-5469      TCGA-CZ-5470      TCGA-CZ-5982 
"TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" 
     TCGA-CZ-5984      TCGA-CZ-5985      TCGA-CZ-5986      TCGA-CZ-5987 
"TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" 
     TCGA-CZ-5988      TCGA-CZ-5989      TCGA-DV-5565      TCGA-DV-5566 
"TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" 
     TCGA-DV-5568      TCGA-DV-5569      TCGA-DV-5574      TCGA-DV-5575 
"TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" 
     TCGA-DV-5576      TCGA-EU-5904      TCGA-EU-5905      TCGA-EU-5906 
"TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" 
     TCGA-EU-5907 
"TFDP2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TFDP2 MUTATED        1      0      3      0      0      0
  TFDP2 WILD-TYPE     68     74     75     69     78     29
D14V5, multiclass
        clus
vv       TFDP2 MUTATED TFDP2 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             0              74
  CLUS_3             3              75
  CLUS_4             0              69
  CLUS_5             0              78
  CLUS_6             0              29
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TFDP2 MUTATED        1      0      3      0
  TFDP2 WILD-TYPE    108     95     69    121
D14V6, multiclass
        clus
vv       TFDP2 MUTATED TFDP2 WILD-TYPE
  CLUS_1             1             108
  CLUS_2             0              95
  CLUS_3             3              69
  CLUS_4             0             121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TFDP2 MUTATED        0      1      0      2      0
  TFDP2 WILD-TYPE     60    136     72    133     30
D14V7, multiclass
        clus
vv       TFDP2 MUTATED TFDP2 WILD-TYPE
  CLUS_1             0              60
  CLUS_2             1             136
  CLUS_3             0              72
  CLUS_4             2             133
  CLUS_5             0              30
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TFDP2 MUTATED        0      0      1      2      0      0
  TFDP2 WILD-TYPE     99     25    149    113     30     15
D14V8, multiclass
        clus
vv       TFDP2 MUTATED TFDP2 WILD-TYPE
  CLUS_1             0              99
  CLUS_2             0              25
  CLUS_3             1             149
  CLUS_4             2             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 CLUS_4 CLUS_5
  TFDP2 MUTATED        1      0      0      2      0
  TFDP2 WILD-TYPE     70     49    159    102     44
D14V9, multiclass
        clus
vv       TFDP2 MUTATED TFDP2 WILD-TYPE
  CLUS_1             1              70
  CLUS_2             0              49
  CLUS_3             0             159
  CLUS_4             2             102
  CLUS_5             0              44
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TFDP2 MUTATED        0      1      2
  TFDP2 WILD-TYPE    146    172    106
D14V10, multiclass
        clus
vv       TFDP2 MUTATED TFDP2 WILD-TYPE
  CLUS_1             0             146
  CLUS_2             1             172
  CLUS_3             2             106
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TFDP2 MUTATED        0      0      0      1
  TFDP2 WILD-TYPE     17     20     39     30
D14V11, multiclass
[1] "Remove cluster labels:" "TFDP2 MUTATED"         
clus
  TFDP2 MUTATED TFDP2 WILD-TYPE 
              1             106 
     TCGA-A3-3317      TCGA-A3-3358      TCGA-A3-3387      TCGA-AK-3440 
"TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" 
     TCGA-AK-3458      TCGA-AK-3465      TCGA-B0-4700      TCGA-B0-4706 
"TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" 
     TCGA-B0-4710      TCGA-B0-4712      TCGA-B0-4810      TCGA-B0-4811 
"TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" 
     TCGA-B0-4836      TCGA-B0-4837      TCGA-B0-4852      TCGA-B0-5080 
"TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" 
     TCGA-B0-5085      TCGA-B0-5088      TCGA-B0-5399      TCGA-B0-5691 
"TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" 
     TCGA-B0-5692      TCGA-B0-5693      TCGA-B0-5694      TCGA-B0-5695 
"TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" 
     TCGA-B0-5696      TCGA-B0-5699      TCGA-B0-5702      TCGA-B0-5705 
"TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" 
     TCGA-B0-5709      TCGA-B2-3923      TCGA-B2-3924      TCGA-B2-5633 
"TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" 
     TCGA-B2-5635      TCGA-B4-5377      TCGA-B4-5836      TCGA-B8-4621 
"TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" 
     TCGA-B8-5545      TCGA-B8-5550      TCGA-B8-5551      TCGA-B8-5552 
"TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" 
     TCGA-B8-5553      TCGA-BP-4173      TCGA-BP-4340      TCGA-BP-4770 
"TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" 
     TCGA-BP-4787      TCGA-BP-4789      TCGA-BP-4790      TCGA-BP-4804 
"TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" 
     TCGA-BP-4807      TCGA-BP-4961      TCGA-BP-4967      TCGA-BP-4968 
"TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" 
     TCGA-BP-4970      TCGA-BP-4974      TCGA-BP-4976      TCGA-BP-4981 
"TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" 
     TCGA-BP-4982      TCGA-BP-4985      TCGA-BP-4988      TCGA-BP-4989 
"TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" 
     TCGA-BP-4992      TCGA-BP-4995      TCGA-BP-4998      TCGA-BP-5001 
"TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" 
     TCGA-BP-5008      TCGA-BP-5009      TCGA-CJ-4870      TCGA-CJ-4875 
"TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" 
     TCGA-CJ-4876      TCGA-CJ-4878      TCGA-CJ-4881      TCGA-CJ-4887 
"TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" 
     TCGA-CJ-4889      TCGA-CJ-4890      TCGA-CJ-4895      TCGA-CJ-4900 
"TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" 
     TCGA-CJ-5671      TCGA-CJ-5675      TCGA-CJ-5676      TCGA-CJ-5681 
"TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" 
     TCGA-CJ-5683      TCGA-CJ-5686      TCGA-CJ-6031      TCGA-CJ-6032 
"TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" 
     TCGA-CW-5585      TCGA-CW-5589      TCGA-CW-6087      TCGA-CZ-4854 
"TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" 
     TCGA-CZ-4857      TCGA-CZ-4858      TCGA-CZ-5453      TCGA-CZ-5454 
"TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" 
     TCGA-CZ-5455      TCGA-CZ-5457      TCGA-CZ-5459      TCGA-CZ-5462 
"TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" 
     TCGA-CZ-5463      TCGA-CZ-5466      TCGA-CZ-5467      TCGA-CZ-5469 
"TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" 
     TCGA-CZ-5470      TCGA-CZ-5989      TCGA-DV-5565      TCGA-DV-5566 
"TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" 
     TCGA-DV-5569      TCGA-EU-5904 
"TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TFDP2 MUTATED        0      1      0      0
  TFDP2 WILD-TYPE     18     43     26     19
D14V12, multiclass
[1] "Remove cluster labels:" "TFDP2 MUTATED"         
clus
  TFDP2 MUTATED TFDP2 WILD-TYPE 
              1             106 
     TCGA-A3-3317      TCGA-A3-3358      TCGA-A3-3387      TCGA-AK-3440 
"TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" 
     TCGA-AK-3458      TCGA-AK-3465      TCGA-B0-4700      TCGA-B0-4706 
"TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" 
     TCGA-B0-4710      TCGA-B0-4712      TCGA-B0-4810      TCGA-B0-4811 
"TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" 
     TCGA-B0-4836      TCGA-B0-4837      TCGA-B0-4852      TCGA-B0-5080 
"TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" 
     TCGA-B0-5085      TCGA-B0-5088      TCGA-B0-5399      TCGA-B0-5691 
"TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" 
     TCGA-B0-5692      TCGA-B0-5693      TCGA-B0-5694      TCGA-B0-5695 
"TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" 
     TCGA-B0-5696      TCGA-B0-5699      TCGA-B0-5702      TCGA-B0-5705 
"TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" 
     TCGA-B0-5709      TCGA-B2-3923      TCGA-B2-3924      TCGA-B2-5633 
"TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" 
     TCGA-B2-5635      TCGA-B4-5377      TCGA-B4-5836      TCGA-B8-4621 
"TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" 
     TCGA-B8-5545      TCGA-B8-5550      TCGA-B8-5551      TCGA-B8-5552 
"TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" 
     TCGA-B8-5553      TCGA-BP-4173      TCGA-BP-4340      TCGA-BP-4770 
"TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" 
     TCGA-BP-4787      TCGA-BP-4789      TCGA-BP-4790      TCGA-BP-4804 
"TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" 
     TCGA-BP-4807      TCGA-BP-4961      TCGA-BP-4967      TCGA-BP-4968 
"TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" 
     TCGA-BP-4970      TCGA-BP-4974      TCGA-BP-4976      TCGA-BP-4981 
"TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" 
     TCGA-BP-4982      TCGA-BP-4985      TCGA-BP-4988      TCGA-BP-4989 
"TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" 
     TCGA-BP-4992      TCGA-BP-4995      TCGA-BP-4998      TCGA-BP-5001 
"TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" 
     TCGA-BP-5008      TCGA-BP-5009      TCGA-CJ-4870      TCGA-CJ-4875 
"TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" 
     TCGA-CJ-4876      TCGA-CJ-4878      TCGA-CJ-4881      TCGA-CJ-4887 
"TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" 
     TCGA-CJ-4889      TCGA-CJ-4890      TCGA-CJ-4895      TCGA-CJ-4900 
"TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" 
     TCGA-CJ-5671      TCGA-CJ-5675      TCGA-CJ-5676      TCGA-CJ-5681 
"TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" 
     TCGA-CJ-5683      TCGA-CJ-5686      TCGA-CJ-6031      TCGA-CJ-6032 
"TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" 
     TCGA-CW-5585      TCGA-CW-5589      TCGA-CW-6087      TCGA-CZ-4854 
"TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" 
     TCGA-CZ-4857      TCGA-CZ-4858      TCGA-CZ-5453      TCGA-CZ-5454 
"TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" 
     TCGA-CZ-5455      TCGA-CZ-5457      TCGA-CZ-5459      TCGA-CZ-5462 
"TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" 
     TCGA-CZ-5463      TCGA-CZ-5466      TCGA-CZ-5467      TCGA-CZ-5469 
"TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" 
     TCGA-CZ-5470      TCGA-CZ-5989      TCGA-DV-5565      TCGA-DV-5566 
"TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" 
     TCGA-DV-5569      TCGA-EU-5904 
"TFDP2 WILD-TYPE" "TFDP2 WILD-TYPE" 

Clustering(15) Variable = FAM200A MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  FAM200A MUTATED        2      0      0
  FAM200A WILD-TYPE     15     16     10
D15V1, multiclass
[1] "Remove cluster labels:" "FAM200A MUTATED"       
clus
  FAM200A MUTATED FAM200A WILD-TYPE 
                2                41 
       TCGA-A3-3311        TCGA-A3-3313        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-A3-3374        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-B2-3923 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-B2-3924        TCGA-B2-4098        TCGA-B2-4099        TCGA-B8-4143 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-B8-4148        TCGA-B8-4151        TCGA-B8-4619        TCGA-B8-4620 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-BP-4161        TCGA-BP-4163        TCGA-BP-4164        TCGA-BP-4167 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-CJ-4634        TCGA-CJ-4636        TCGA-CJ-4637        TCGA-CJ-4638 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-CJ-4639        TCGA-CJ-4640        TCGA-CJ-4641        TCGA-CJ-4643 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-CJ-4644 
"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      3      5      3     10      8      4      8
D15V2, multiclass
[1] "Remove cluster labels:" "FAM200A MUTATED"       
clus
  FAM200A MUTATED FAM200A WILD-TYPE 
                2                41 
       TCGA-A3-3311        TCGA-A3-3313        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-A3-3374        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-B2-3923 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-B2-3924        TCGA-B2-4098        TCGA-B2-4099        TCGA-B8-4143 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-B8-4148        TCGA-B8-4151        TCGA-B8-4619        TCGA-B8-4620 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-BP-4161        TCGA-BP-4163        TCGA-BP-4164        TCGA-BP-4167 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-CJ-4634        TCGA-CJ-4636        TCGA-CJ-4637        TCGA-CJ-4638 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-CJ-4639        TCGA-CJ-4640        TCGA-CJ-4641        TCGA-CJ-4643 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-CJ-4644 
"FAM200A WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  FAM200A MUTATED        2      0      0      0      2      0
  FAM200A WILD-TYPE     47     68    130     63     67     54
D15V3, multiclass
        clus
vv       FAM200A MUTATED FAM200A WILD-TYPE
  CLUS_1               2                47
  CLUS_2               0                68
  CLUS_3               0               130
  CLUS_4               0                63
  CLUS_5               2                67
  CLUS_6               0                54
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger 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     57     59     82     64
D15V4, 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      1      0      0      1
  FAM200A WILD-TYPE     69     74     77     69     78     28
D15V5, multiclass
[1] "Remove cluster labels:" "FAM200A MUTATED"       
clus
  FAM200A MUTATED FAM200A WILD-TYPE 
                2               395 
       TCGA-A3-3311        TCGA-A3-3313        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-A3-3357        TCGA-A3-3362        TCGA-A3-3367 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-A3-3370        TCGA-A3-3373        TCGA-A3-3374        TCGA-A3-3376 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-A3-3385        TCGA-A3-3387        TCGA-AK-3427        TCGA-AK-3428 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-AK-3434        TCGA-AK-3436        TCGA-AK-3451        TCGA-AK-3456 
"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-B0-4833 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-B0-4836        TCGA-B0-4837        TCGA-B0-4838        TCGA-B0-4839 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-B0-4841        TCGA-B0-4842        TCGA-B0-4843        TCGA-B0-4844 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-B0-4845        TCGA-B0-4846        TCGA-B0-4847        TCGA-B0-4848 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-B0-4849        TCGA-B0-4852        TCGA-B0-4945        TCGA-B0-5075 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-B0-5077        TCGA-B0-5080        TCGA-B0-5081        TCGA-B0-5084 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-B0-5085        TCGA-B0-5088        TCGA-B0-5092        TCGA-B0-5094 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-B0-5095        TCGA-B0-5096        TCGA-B0-5097        TCGA-B0-5098 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-B0-5099        TCGA-B0-5100        TCGA-B0-5102        TCGA-B0-5104 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-B0-5106        TCGA-B0-5107        TCGA-B0-5108        TCGA-B0-5109 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-B0-5110        TCGA-B0-5113        TCGA-B0-5115        TCGA-B0-5116 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-B0-5117        TCGA-B0-5119        TCGA-B0-5120        TCGA-B0-5121 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-B0-5399        TCGA-B0-5400        TCGA-B0-5402        TCGA-B0-5691 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-B0-5692        TCGA-B0-5693        TCGA-B0-5694        TCGA-B0-5695 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-B0-5696        TCGA-B0-5697        TCGA-B0-5698        TCGA-B0-5699 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-B0-5701        TCGA-B0-5702        TCGA-B0-5703        TCGA-B0-5705 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-B0-5706        TCGA-B0-5707        TCGA-B0-5709        TCGA-B0-5710 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-B0-5711        TCGA-B0-5712        TCGA-B0-5713        TCGA-B0-5812 
"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-B2-4101        TCGA-B2-5633        TCGA-B2-5635        TCGA-B2-5641 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-B4-5377        TCGA-B4-5832        TCGA-B4-5834        TCGA-B4-5835 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-B4-5836        TCGA-B4-5838        TCGA-B4-5843        TCGA-B4-5844 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-B8-4143        TCGA-B8-4146        TCGA-B8-4153        TCGA-B8-4620 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-B8-4621        TCGA-B8-4622        TCGA-B8-5158        TCGA-B8-5159 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-B8-5162        TCGA-B8-5163        TCGA-B8-5164        TCGA-B8-5165 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-B8-5545        TCGA-B8-5546        TCGA-B8-5549        TCGA-B8-5550 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-B8-5551        TCGA-B8-5552        TCGA-B8-5553        TCGA-BP-4158 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-BP-4161        TCGA-BP-4164        TCGA-BP-4165        TCGA-BP-4169 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-BP-4170        TCGA-BP-4173        TCGA-BP-4174        TCGA-BP-4326 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-BP-4329        TCGA-BP-4330        TCGA-BP-4331        TCGA-BP-4337 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-BP-4338        TCGA-BP-4341        TCGA-BP-4342        TCGA-BP-4343 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-BP-4345        TCGA-BP-4346        TCGA-BP-4347        TCGA-BP-4349 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-BP-4351        TCGA-BP-4352        TCGA-BP-4354        TCGA-BP-4355 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-BP-4756        TCGA-BP-4758        TCGA-BP-4759        TCGA-BP-4760 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-BP-4761        TCGA-BP-4762        TCGA-BP-4763        TCGA-BP-4765 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-BP-4766        TCGA-BP-4768        TCGA-BP-4770        TCGA-BP-4771 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-BP-4774        TCGA-BP-4777        TCGA-BP-4781        TCGA-BP-4787 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-BP-4789        TCGA-BP-4790        TCGA-BP-4797        TCGA-BP-4798 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-BP-4799        TCGA-BP-4801        TCGA-BP-4803        TCGA-BP-4804 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-BP-4807        TCGA-BP-4960        TCGA-BP-4961        TCGA-BP-4962 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-BP-4963        TCGA-BP-4964        TCGA-BP-4965        TCGA-BP-4967 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-BP-4968        TCGA-BP-4970        TCGA-BP-4971        TCGA-BP-4972 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-BP-4973        TCGA-BP-4974        TCGA-BP-4975        TCGA-BP-4976 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-BP-4977        TCGA-BP-4981        TCGA-BP-4982        TCGA-BP-4983 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-BP-4985        TCGA-BP-4986        TCGA-BP-4987        TCGA-BP-4988 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-BP-4989        TCGA-BP-4991        TCGA-BP-4992        TCGA-BP-4993 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-BP-4994        TCGA-BP-4995        TCGA-BP-4998        TCGA-BP-4999 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-BP-5000        TCGA-BP-5001        TCGA-BP-5004        TCGA-BP-5006 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-BP-5007        TCGA-BP-5008        TCGA-BP-5009        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-4634        TCGA-CJ-4635        TCGA-CJ-4638 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-CJ-4640        TCGA-CJ-4868        TCGA-CJ-4869        TCGA-CJ-4870 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-CJ-4871        TCGA-CJ-4872        TCGA-CJ-4873        TCGA-CJ-4874 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-CJ-4875        TCGA-CJ-4876        TCGA-CJ-4878        TCGA-CJ-4881 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-CJ-4882        TCGA-CJ-4884        TCGA-CJ-4885        TCGA-CJ-4886 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-CJ-4887        TCGA-CJ-4888        TCGA-CJ-4889        TCGA-CJ-4890 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-CJ-4891        TCGA-CJ-4892        TCGA-CJ-4893        TCGA-CJ-4894 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-CJ-4895        TCGA-CJ-4897        TCGA-CJ-4899        TCGA-CJ-4900 
"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-4854        TCGA-CZ-4856        TCGA-CZ-4857        TCGA-CZ-4858 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-CZ-4859        TCGA-CZ-4861        TCGA-CZ-4862        TCGA-CZ-4863 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-CZ-4865        TCGA-CZ-4866        TCGA-CZ-5451        TCGA-CZ-5452 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-CZ-5453        TCGA-CZ-5454        TCGA-CZ-5455        TCGA-CZ-5456 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-CZ-5457        TCGA-CZ-5458        TCGA-CZ-5459        TCGA-CZ-5460 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-CZ-5461        TCGA-CZ-5462        TCGA-CZ-5463        TCGA-CZ-5465 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-CZ-5466        TCGA-CZ-5467        TCGA-CZ-5468        TCGA-CZ-5469 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-CZ-5470        TCGA-CZ-5982        TCGA-CZ-5984        TCGA-CZ-5985 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-CZ-5986        TCGA-CZ-5987        TCGA-CZ-5988        TCGA-CZ-5989 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-DV-5565        TCGA-DV-5566        TCGA-DV-5568        TCGA-DV-5569 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-DV-5574        TCGA-DV-5575        TCGA-DV-5576        TCGA-EU-5904 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-EU-5905        TCGA-EU-5906        TCGA-EU-5907 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FAM200A MUTATED        1      0      0      1
  FAM200A WILD-TYPE    108     95     72    120
D15V6, multiclass
[1] "Remove cluster labels:" "FAM200A MUTATED"       
clus
  FAM200A MUTATED FAM200A WILD-TYPE 
                2               395 
       TCGA-A3-3311        TCGA-A3-3313        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-A3-3357        TCGA-A3-3362        TCGA-A3-3367 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-A3-3370        TCGA-A3-3373        TCGA-A3-3374        TCGA-A3-3376 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-A3-3385        TCGA-A3-3387        TCGA-AK-3427        TCGA-AK-3428 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-AK-3434        TCGA-AK-3436        TCGA-AK-3451        TCGA-AK-3456 
"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-B0-4833 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-B0-4836        TCGA-B0-4837        TCGA-B0-4838        TCGA-B0-4839 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-B0-4841        TCGA-B0-4842        TCGA-B0-4843        TCGA-B0-4844 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-B0-4845        TCGA-B0-4846        TCGA-B0-4847        TCGA-B0-4848 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-B0-4849        TCGA-B0-4852        TCGA-B0-4945        TCGA-B0-5075 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-B0-5077        TCGA-B0-5080        TCGA-B0-5081        TCGA-B0-5084 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-B0-5085        TCGA-B0-5088        TCGA-B0-5092        TCGA-B0-5094 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-B0-5095        TCGA-B0-5096        TCGA-B0-5097        TCGA-B0-5098 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-B0-5099        TCGA-B0-5100        TCGA-B0-5102        TCGA-B0-5104 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-B0-5106        TCGA-B0-5107        TCGA-B0-5108        TCGA-B0-5109 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-B0-5110        TCGA-B0-5113        TCGA-B0-5115        TCGA-B0-5116 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-B0-5117        TCGA-B0-5119        TCGA-B0-5120        TCGA-B0-5121 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-B0-5399        TCGA-B0-5400        TCGA-B0-5402        TCGA-B0-5691 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-B0-5692        TCGA-B0-5693        TCGA-B0-5694        TCGA-B0-5695 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-B0-5696        TCGA-B0-5697        TCGA-B0-5698        TCGA-B0-5699 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-B0-5701        TCGA-B0-5702        TCGA-B0-5703        TCGA-B0-5705 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-B0-5706        TCGA-B0-5707        TCGA-B0-5709        TCGA-B0-5710 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-B0-5711        TCGA-B0-5712        TCGA-B0-5713        TCGA-B0-5812 
"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-B2-4101        TCGA-B2-5633        TCGA-B2-5635        TCGA-B2-5641 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-B4-5377        TCGA-B4-5832        TCGA-B4-5834        TCGA-B4-5835 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-B4-5836        TCGA-B4-5838        TCGA-B4-5843        TCGA-B4-5844 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-B8-4143        TCGA-B8-4146        TCGA-B8-4153        TCGA-B8-4620 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-B8-4621        TCGA-B8-4622        TCGA-B8-5158        TCGA-B8-5159 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-B8-5162        TCGA-B8-5163        TCGA-B8-5164        TCGA-B8-5165 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-B8-5545        TCGA-B8-5546        TCGA-B8-5549        TCGA-B8-5550 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-B8-5551        TCGA-B8-5552        TCGA-B8-5553        TCGA-BP-4158 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-BP-4161        TCGA-BP-4164        TCGA-BP-4165        TCGA-BP-4169 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-BP-4170        TCGA-BP-4173        TCGA-BP-4174        TCGA-BP-4326 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-BP-4329        TCGA-BP-4330        TCGA-BP-4331        TCGA-BP-4337 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-BP-4338        TCGA-BP-4341        TCGA-BP-4342        TCGA-BP-4343 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-BP-4345        TCGA-BP-4346        TCGA-BP-4347        TCGA-BP-4349 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-BP-4351        TCGA-BP-4352        TCGA-BP-4354        TCGA-BP-4355 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-BP-4756        TCGA-BP-4758        TCGA-BP-4759        TCGA-BP-4760 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-BP-4761        TCGA-BP-4762        TCGA-BP-4763        TCGA-BP-4765 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-BP-4766        TCGA-BP-4768        TCGA-BP-4770        TCGA-BP-4771 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-BP-4774        TCGA-BP-4777        TCGA-BP-4781        TCGA-BP-4787 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-BP-4789        TCGA-BP-4790        TCGA-BP-4797        TCGA-BP-4798 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-BP-4799        TCGA-BP-4801        TCGA-BP-4803        TCGA-BP-4804 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-BP-4807        TCGA-BP-4960        TCGA-BP-4961        TCGA-BP-4962 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-BP-4963        TCGA-BP-4964        TCGA-BP-4965        TCGA-BP-4967 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-BP-4968        TCGA-BP-4970        TCGA-BP-4971        TCGA-BP-4972 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-BP-4973        TCGA-BP-4974        TCGA-BP-4975        TCGA-BP-4976 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-BP-4977        TCGA-BP-4981        TCGA-BP-4982        TCGA-BP-4983 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-BP-4985        TCGA-BP-4986        TCGA-BP-4987        TCGA-BP-4988 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-BP-4989        TCGA-BP-4991        TCGA-BP-4992        TCGA-BP-4993 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-BP-4994        TCGA-BP-4995        TCGA-BP-4998        TCGA-BP-4999 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-BP-5000        TCGA-BP-5001        TCGA-BP-5004        TCGA-BP-5006 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-BP-5007        TCGA-BP-5008        TCGA-BP-5009        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-4634        TCGA-CJ-4635        TCGA-CJ-4638 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-CJ-4640        TCGA-CJ-4868        TCGA-CJ-4869        TCGA-CJ-4870 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-CJ-4871        TCGA-CJ-4872        TCGA-CJ-4873        TCGA-CJ-4874 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-CJ-4875        TCGA-CJ-4876        TCGA-CJ-4878        TCGA-CJ-4881 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-CJ-4882        TCGA-CJ-4884        TCGA-CJ-4885        TCGA-CJ-4886 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-CJ-4887        TCGA-CJ-4888        TCGA-CJ-4889        TCGA-CJ-4890 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-CJ-4891        TCGA-CJ-4892        TCGA-CJ-4893        TCGA-CJ-4894 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-CJ-4895        TCGA-CJ-4897        TCGA-CJ-4899        TCGA-CJ-4900 
"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-4854        TCGA-CZ-4856        TCGA-CZ-4857        TCGA-CZ-4858 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-CZ-4859        TCGA-CZ-4861        TCGA-CZ-4862        TCGA-CZ-4863 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-CZ-4865        TCGA-CZ-4866        TCGA-CZ-5451        TCGA-CZ-5452 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-CZ-5453        TCGA-CZ-5454        TCGA-CZ-5455        TCGA-CZ-5456 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-CZ-5457        TCGA-CZ-5458        TCGA-CZ-5459        TCGA-CZ-5460 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-CZ-5461        TCGA-CZ-5462        TCGA-CZ-5463        TCGA-CZ-5465 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-CZ-5466        TCGA-CZ-5467        TCGA-CZ-5468        TCGA-CZ-5469 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-CZ-5470        TCGA-CZ-5982        TCGA-CZ-5984        TCGA-CZ-5985 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-CZ-5986        TCGA-CZ-5987        TCGA-CZ-5988        TCGA-CZ-5989 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-DV-5565        TCGA-DV-5566        TCGA-DV-5568        TCGA-DV-5569 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-DV-5574        TCGA-DV-5575        TCGA-DV-5576        TCGA-EU-5904 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
       TCGA-EU-5905        TCGA-EU-5906        TCGA-EU-5907 
"FAM200A WILD-TYPE" "FAM200A WILD-TYPE" "FAM200A WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FAM200A MUTATED        0      3      0      0      1
  FAM200A WILD-TYPE     60    134     72    135     29
D15V7, multiclass
        clus
vv       FAM200A MUTATED FAM200A WILD-TYPE
  CLUS_1               0                60
  CLUS_2               3               134
  CLUS_3               0                72
  CLUS_4               0               135
  CLUS_5               1                29
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  FAM200A MUTATED        0      0      4      0      0      0
  FAM200A WILD-TYPE     99     25    146    115     30     15
D15V8, multiclass
        clus
vv       FAM200A MUTATED FAM200A WILD-TYPE
  CLUS_1               0                99
  CLUS_2               0                25
  CLUS_3               4               146
  CLUS_4               0               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 CLUS_4 CLUS_5
  FAM200A MUTATED        0      0      4      0      0
  FAM200A WILD-TYPE     71     49    155    104     44
D15V9, multiclass
        clus
vv       FAM200A MUTATED FAM200A WILD-TYPE
  CLUS_1               0                71
  CLUS_2               0                49
  CLUS_3               4               155
  CLUS_4               0               104
  CLUS_5               0                44
[1] 5 2
[1] TRUE
[1] "dimension of contingency table 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      4      0
  FAM200A WILD-TYPE    146    169    108
D15V10, multiclass
        clus
vv       FAM200A MUTATED FAM200A WILD-TYPE
  CLUS_1               0               146
  CLUS_2               4               169
  CLUS_3               0               108
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FAM200A MUTATED        0      0      1      0
  FAM200A WILD-TYPE     17     20     38     31
D15V11, 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 CLUS_4
  FAM200A MUTATED        0      0      1      0
  FAM200A WILD-TYPE     18     44     25     19
D15V12, 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(16) Variable = DPCR1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  DPCR1 MUTATED        0      0      0
  DPCR1 WILD-TYPE     17     16     10
D16V1, 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      3      5      3     10     10      4      8
D16V2, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  DPCR1 MUTATED        0      1      1      2      2      0
  DPCR1 WILD-TYPE     49     67    129     61     67     54
D16V3, multiclass
        clus
vv       DPCR1 MUTATED DPCR1 WILD-TYPE
  CLUS_1             0              49
  CLUS_2             1              67
  CLUS_3             1             129
  CLUS_4             2              61
  CLUS_5             2              67
  CLUS_6             0              54
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger 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      1      3      0
  DPCR1 WILD-TYPE     55     58     80     64
D16V4, multiclass
        clus
vv       DPCR1 MUTATED DPCR1 WILD-TYPE
  CLUS_1             2              55
  CLUS_2             1              58
  CLUS_3             3              80
  CLUS_4             0              64
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  DPCR1 MUTATED        0      0      2      2      1      1
  DPCR1 WILD-TYPE     69     74     76     67     77     28
D16V5, multiclass
        clus
vv       DPCR1 MUTATED DPCR1 WILD-TYPE
  CLUS_1             0              69
  CLUS_2             0              74
  CLUS_3             2              76
  CLUS_4             2              67
  CLUS_5             1              77
  CLUS_6             1              28
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DPCR1 MUTATED        2      2      0      2
  DPCR1 WILD-TYPE    107     93     72    119
D16V6, multiclass
        clus
vv       DPCR1 MUTATED DPCR1 WILD-TYPE
  CLUS_1             2             107
  CLUS_2             2              93
  CLUS_3             0              72
  CLUS_4             2             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DPCR1 MUTATED        2      0      1      3      0
  DPCR1 WILD-TYPE     58    137     71    132     30
D16V7, multiclass
        clus
vv       DPCR1 MUTATED DPCR1 WILD-TYPE
  CLUS_1             2              58
  CLUS_2             0             137
  CLUS_3             1              71
  CLUS_4             3             132
  CLUS_5             0              30
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- 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     98     24    150    113     29     14
D16V8, multiclass
        clus
vv       DPCR1 MUTATED DPCR1 WILD-TYPE
  CLUS_1             1              98
  CLUS_2             1              24
  CLUS_3             0             150
  CLUS_4             2             113
  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 CLUS_4 CLUS_5
  DPCR1 MUTATED        1      1      1      1      2
  DPCR1 WILD-TYPE     70     48    158    103     42
D16V9, multiclass
        clus
vv       DPCR1 MUTATED DPCR1 WILD-TYPE
  CLUS_1             1              70
  CLUS_2             1              48
  CLUS_3             1             158
  CLUS_4             1             103
  CLUS_5             2              42
[1] 5 2
[1] TRUE
[1] "dimension of contingency table 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    144    171    106
D16V10, multiclass
        clus
vv       DPCR1 MUTATED DPCR1 WILD-TYPE
  CLUS_1             2             144
  CLUS_2             2             171
  CLUS_3             2             106
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DPCR1 MUTATED        0      1      1      0
  DPCR1 WILD-TYPE     17     19     38     31
D16V11, 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 CLUS_4
  DPCR1 MUTATED        0      1      0      1
  DPCR1 WILD-TYPE     18     43     26     18
D16V12, 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(17) Variable = EGFR MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  EGFR MUTATED        0      0      0
  EGFR WILD-TYPE     17     16     10
D17V1, 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      3      5      3     10     10      4      8
D17V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  EGFR MUTATED        1      1      2      1      1      0
  EGFR WILD-TYPE     48     67    128     62     68     54
D17V3, multiclass
        clus
vv       EGFR MUTATED EGFR WILD-TYPE
  CLUS_1            1             48
  CLUS_2            1             67
  CLUS_3            2            128
  CLUS_4            1             62
  CLUS_5            1             68
  CLUS_6            0             54
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger 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      1      2
  EGFR WILD-TYPE     57     59     82     62
D17V4, multiclass
        clus
vv       EGFR MUTATED EGFR WILD-TYPE
  CLUS_1            0             57
  CLUS_2            0             59
  CLUS_3            1             82
  CLUS_4            2             62
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  EGFR MUTATED        1      2      1      1      1      0
  EGFR WILD-TYPE     68     72     77     68     77     29
D17V5, multiclass
        clus
vv       EGFR MUTATED EGFR WILD-TYPE
  CLUS_1            1             68
  CLUS_2            2             72
  CLUS_3            1             77
  CLUS_4            1             68
  CLUS_5            1             77
  CLUS_6            0             29
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger 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        1      0      1      4
  EGFR WILD-TYPE    108     95     71    117
D17V6, multiclass
        clus
vv       EGFR MUTATED EGFR WILD-TYPE
  CLUS_1            1            108
  CLUS_2            0             95
  CLUS_3            1             71
  CLUS_4            4            117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EGFR MUTATED        0      1      2      1      2
  EGFR WILD-TYPE     60    136     70    134     28
D17V7, multiclass
        clus
vv       EGFR MUTATED EGFR WILD-TYPE
  CLUS_1            0             60
  CLUS_2            1            136
  CLUS_3            2             70
  CLUS_4            1            134
  CLUS_5            2             28
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- 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      2      0      0
  EGFR WILD-TYPE     98     25    147    113     30     15
D17V8, multiclass
        clus
vv       EGFR MUTATED EGFR WILD-TYPE
  CLUS_1            1             98
  CLUS_2            0             25
  CLUS_3            3            147
  CLUS_4            2            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 CLUS_4 CLUS_5
  EGFR MUTATED        1      0      3      1      0
  EGFR WILD-TYPE     70     49    156    103     44
D17V9, multiclass
        clus
vv       EGFR MUTATED EGFR WILD-TYPE
  CLUS_1            1             70
  CLUS_2            0             49
  CLUS_3            3            156
  CLUS_4            1            103
  CLUS_5            0             44
[1] 5 2
[1] TRUE
[1] "dimension of contingency table 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      1
  EGFR WILD-TYPE    145    170    107
D17V10, multiclass
        clus
vv       EGFR MUTATED EGFR WILD-TYPE
  CLUS_1            1            145
  CLUS_2            3            170
  CLUS_3            1            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
  EGFR MUTATED        0      0      0      0
  EGFR WILD-TYPE     17     20     39     31
D17V11, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  EGFR MUTATED        0      0      0      0
  EGFR WILD-TYPE     18     44     26     19
D17V12, multiclass

Clustering(18) Variable = SH3KBP1 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SH3KBP1 MUTATED        0      0      0
  SH3KBP1 WILD-TYPE     17     16     10
D18V1, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  SH3KBP1 MUTATED        0      0      0      0      0      0      0
  SH3KBP1 WILD-TYPE      3      5      3     10     10      4      8
D18V2, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SH3KBP1 MUTATED        0      0      1      1      1      0
  SH3KBP1 WILD-TYPE     49     68    129     62     68     54
D18V3, multiclass
        clus
vv       SH3KBP1 MUTATED SH3KBP1 WILD-TYPE
  CLUS_1               0                49
  CLUS_2               0                68
  CLUS_3               1               129
  CLUS_4               1                62
  CLUS_5               1                68
  CLUS_6               0                54
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SH3KBP1 MUTATED        0      1      1      0
  SH3KBP1 WILD-TYPE     57     58     82     64
D18V4, multiclass
[1] "Remove cluster labels:" "SH3KBP1 MUTATED"       
clus
  SH3KBP1 MUTATED SH3KBP1 WILD-TYPE 
                2               261 
       TCGA-A3-3357        TCGA-A3-3358        TCGA-A3-3370        TCGA-A3-3373 
"SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" 
       TCGA-A3-3376        TCGA-A3-3385        TCGA-A3-3387        TCGA-AK-3425 
"SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" 
       TCGA-AK-3428        TCGA-AK-3431        TCGA-AK-3434        TCGA-AK-3440 
"SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" 
       TCGA-AK-3445        TCGA-AK-3450        TCGA-AK-3453        TCGA-AK-3454 
"SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" 
       TCGA-AK-3458        TCGA-AK-3460        TCGA-AK-3461        TCGA-B0-4690 
"SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" 
       TCGA-B0-4691        TCGA-B0-4693        TCGA-B0-4694        TCGA-B0-4697 
"SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" 
       TCGA-B0-4700        TCGA-B0-4703        TCGA-B0-4706        TCGA-B0-4707 
"SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" 
       TCGA-B0-4710        TCGA-B0-4712        TCGA-B0-4713        TCGA-B0-4714 
"SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" 
       TCGA-B0-4718        TCGA-B0-4810        TCGA-B0-4811        TCGA-B0-4813 
"SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" 
       TCGA-B0-4814        TCGA-B0-4815        TCGA-B0-4816        TCGA-B0-4817 
"SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" 
       TCGA-B0-4818        TCGA-B0-4819        TCGA-B0-4822        TCGA-B0-4823 
"SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" 
       TCGA-B0-4824        TCGA-B0-4827        TCGA-B0-4828        TCGA-B0-4841 
"SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" 
       TCGA-B0-4843        TCGA-B0-4844        TCGA-B0-4845        TCGA-B0-4846 
"SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" 
       TCGA-B0-4847        TCGA-B0-4848        TCGA-B0-4849        TCGA-B0-4852 
"SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" 
       TCGA-B0-4945        TCGA-B0-5080        TCGA-B0-5083        TCGA-B0-5092 
"SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" 
       TCGA-B0-5094        TCGA-B0-5095        TCGA-B0-5096        TCGA-B0-5097 
"SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" 
       TCGA-B0-5098        TCGA-B0-5099        TCGA-B0-5100        TCGA-B0-5102 
"SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" 
       TCGA-B0-5104        TCGA-B0-5106        TCGA-B0-5107        TCGA-B0-5108 
"SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" 
       TCGA-B0-5109        TCGA-B0-5110        TCGA-B0-5113        TCGA-B0-5115 
"SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" 
       TCGA-B0-5116        TCGA-B0-5117        TCGA-B0-5119        TCGA-B0-5120 
"SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" 
       TCGA-B0-5121        TCGA-B0-5399        TCGA-B0-5400        TCGA-B0-5402 
"SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" 
       TCGA-B0-5691        TCGA-B0-5692        TCGA-B0-5693        TCGA-B0-5694 
"SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" 
       TCGA-B0-5695        TCGA-B0-5696        TCGA-B0-5697        TCGA-B0-5698 
"SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" 
       TCGA-B0-5699        TCGA-B0-5701        TCGA-B0-5702        TCGA-B0-5703 
"SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" 
       TCGA-B0-5705        TCGA-B0-5706        TCGA-B0-5707        TCGA-B0-5709 
"SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" 
       TCGA-B0-5710        TCGA-B0-5711        TCGA-B0-5712        TCGA-B0-5713 
"SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" 
       TCGA-B0-5812        TCGA-B2-3924        TCGA-B2-4101        TCGA-B2-5633 
"SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" 
       TCGA-B2-5635        TCGA-B2-5641        TCGA-B4-5377        TCGA-B4-5832 
"SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" 
       TCGA-B4-5834        TCGA-B4-5835        TCGA-B4-5836        TCGA-B4-5838 
"SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" 
       TCGA-B4-5843        TCGA-B4-5844        TCGA-B8-4146        TCGA-B8-4153 
"SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" 
       TCGA-B8-4621        TCGA-B8-4622        TCGA-B8-5158        TCGA-B8-5159 
"SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" 
       TCGA-B8-5162        TCGA-B8-5163        TCGA-B8-5164        TCGA-B8-5165 
"SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" 
       TCGA-B8-5545        TCGA-B8-5546        TCGA-B8-5549        TCGA-B8-5550 
"SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" 
       TCGA-B8-5551        TCGA-B8-5552        TCGA-B8-5553        TCGA-BP-4177 
"SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" 
       TCGA-BP-4760        TCGA-BP-4770        TCGA-BP-4782        TCGA-BP-4795 
"SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" 
       TCGA-BP-4801        TCGA-BP-4993        TCGA-BP-5010        TCGA-BP-5168 
"SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" 
       TCGA-BP-5169        TCGA-BP-5170        TCGA-BP-5173        TCGA-BP-5174 
"SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" 
       TCGA-BP-5175        TCGA-BP-5176        TCGA-BP-5177        TCGA-BP-5178 
"SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" 
       TCGA-BP-5180        TCGA-BP-5181        TCGA-BP-5182        TCGA-BP-5183 
"SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" 
       TCGA-BP-5184        TCGA-BP-5185        TCGA-BP-5186        TCGA-BP-5187 
"SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" 
       TCGA-BP-5189        TCGA-BP-5190        TCGA-BP-5191        TCGA-BP-5192 
"SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" 
       TCGA-BP-5194        TCGA-BP-5195        TCGA-BP-5196        TCGA-BP-5198 
"SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" 
       TCGA-BP-5199        TCGA-BP-5200        TCGA-BP-5201        TCGA-BP-5202 
"SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" 
       TCGA-CJ-4869        TCGA-CJ-4882        TCGA-CJ-4897        TCGA-CJ-4901 
"SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" 
       TCGA-CJ-4902        TCGA-CJ-4903        TCGA-CJ-4904        TCGA-CJ-4905 
"SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" 
       TCGA-CJ-4907        TCGA-CJ-4908        TCGA-CJ-4912        TCGA-CJ-4913 
"SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" 
       TCGA-CJ-4916        TCGA-CJ-4918        TCGA-CJ-4920        TCGA-CJ-4923 
"SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" 
       TCGA-CJ-5671        TCGA-CJ-5672        TCGA-CJ-5675        TCGA-CJ-5676 
"SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" 
       TCGA-CJ-5677        TCGA-CJ-5678        TCGA-CJ-5679        TCGA-CJ-5680 
"SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" 
       TCGA-CJ-5681        TCGA-CJ-5682        TCGA-CJ-5683        TCGA-CJ-5684 
"SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" 
       TCGA-CJ-5686        TCGA-CJ-6027        TCGA-CJ-6028        TCGA-CJ-6030 
"SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" 
       TCGA-CJ-6031        TCGA-CJ-6032        TCGA-CJ-6033        TCGA-CW-5580 
"SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" 
       TCGA-CW-5581        TCGA-CW-5583        TCGA-CW-5585        TCGA-CW-5588 
"SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" 
       TCGA-CW-5589        TCGA-CW-5591        TCGA-CW-6087        TCGA-CW-6090 
"SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" 
       TCGA-CW-6093        TCGA-CW-6097        TCGA-CZ-4853        TCGA-CZ-4856 
"SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" 
       TCGA-CZ-4859        TCGA-CZ-4863        TCGA-CZ-4865        TCGA-CZ-4866 
"SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" 
       TCGA-CZ-5451        TCGA-CZ-5452        TCGA-CZ-5453        TCGA-CZ-5454 
"SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" 
       TCGA-CZ-5455        TCGA-CZ-5456        TCGA-CZ-5457        TCGA-CZ-5458 
"SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" 
       TCGA-CZ-5459        TCGA-CZ-5460        TCGA-CZ-5461        TCGA-CZ-5462 
"SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" 
       TCGA-CZ-5463        TCGA-CZ-5465        TCGA-CZ-5466        TCGA-CZ-5467 
"SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" 
       TCGA-CZ-5468        TCGA-CZ-5469        TCGA-CZ-5470        TCGA-CZ-5982 
"SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" 
       TCGA-CZ-5984        TCGA-CZ-5985        TCGA-CZ-5986        TCGA-CZ-5987 
"SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" 
       TCGA-CZ-5988        TCGA-CZ-5989        TCGA-DV-5565        TCGA-DV-5566 
"SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" 
       TCGA-DV-5568        TCGA-DV-5569        TCGA-DV-5574        TCGA-DV-5575 
"SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" 
       TCGA-DV-5576        TCGA-EU-5904        TCGA-EU-5905        TCGA-EU-5906 
"SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" "SH3KBP1 WILD-TYPE" 
       TCGA-EU-5907 
"SH3KBP1 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SH3KBP1 MUTATED        0      1      1      1      0      0
  SH3KBP1 WILD-TYPE     69     73     77     68     78     29
D18V5, multiclass
        clus
vv       SH3KBP1 MUTATED SH3KBP1 WILD-TYPE
  CLUS_1               0                69
  CLUS_2               1                73
  CLUS_3               1                77
  CLUS_4               1                68
  CLUS_5               0                78
  CLUS_6               0                29
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SH3KBP1 MUTATED        0      1      1      1
  SH3KBP1 WILD-TYPE    109     94     71    120
D18V6, multiclass
        clus
vv       SH3KBP1 MUTATED SH3KBP1 WILD-TYPE
  CLUS_1               0               109
  CLUS_2               1                94
  CLUS_3               1                71
  CLUS_4               1               120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SH3KBP1 MUTATED        0      2      0      1      0
  SH3KBP1 WILD-TYPE     60    135     72    134     30
D18V7, multiclass
        clus
vv       SH3KBP1 MUTATED SH3KBP1 WILD-TYPE
  CLUS_1               0                60
  CLUS_2               2               135
  CLUS_3               0                72
  CLUS_4               1               134
  CLUS_5               0                30
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SH3KBP1 MUTATED        0      0      2      1      0      0
  SH3KBP1 WILD-TYPE     99     25    148    114     30     15
D18V8, multiclass
        clus
vv       SH3KBP1 MUTATED SH3KBP1 WILD-TYPE
  CLUS_1               0                99
  CLUS_2               0                25
  CLUS_3               2               148
  CLUS_4               1               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 CLUS_4 CLUS_5
  SH3KBP1 MUTATED        0      0      2      1      0
  SH3KBP1 WILD-TYPE     71     49    157    103     44
D18V9, multiclass
        clus
vv       SH3KBP1 MUTATED SH3KBP1 WILD-TYPE
  CLUS_1               0                71
  CLUS_2               0                49
  CLUS_3               2               157
  CLUS_4               1               103
  CLUS_5               0                44
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SH3KBP1 MUTATED        0      2      1
  SH3KBP1 WILD-TYPE    146    171    107
D18V10, multiclass
        clus
vv       SH3KBP1 MUTATED SH3KBP1 WILD-TYPE
  CLUS_1               0               146
  CLUS_2               2               171
  CLUS_3               1               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
  SH3KBP1 MUTATED        0      0      0      0
  SH3KBP1 WILD-TYPE     17     20     39     31
D18V11, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SH3KBP1 MUTATED        0      0      0      0
  SH3KBP1 WILD-TYPE     18     44     26     19
D18V12, multiclass

Clustering(19) Variable = EMG1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  EMG1 MUTATED        0      0      3
  EMG1 WILD-TYPE     17     16      7
D19V1, multiclass
        clus
vv       EMG1 MUTATED EMG1 WILD-TYPE
  CLUS_1            0             17
  CLUS_2            0             16
  CLUS_3            3              7
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  EMG1 MUTATED        0      0      0      0      0      0      3
  EMG1 WILD-TYPE      3      5      3     10     10      4      5
D19V2, multiclass
        clus
vv       EMG1 MUTATED EMG1 WILD-TYPE
  CLUS_1            0              3
  CLUS_2            0              5
  CLUS_3            0              3
  CLUS_4            0             10
  CLUS_5            0             10
  CLUS_6            0              4
  CLUS_7            3              5
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  EMG1 MUTATED        0      1      0      0      1      2
  EMG1 WILD-TYPE     49     67    130     63     68     52
D19V3, multiclass
        clus
vv       EMG1 MUTATED EMG1 WILD-TYPE
  CLUS_1            0             49
  CLUS_2            1             67
  CLUS_3            0            130
  CLUS_4            0             63
  CLUS_5            1             68
  CLUS_6            2             52
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  EMG1 MUTATED        1      0      0      1
  EMG1 WILD-TYPE     56     59     83     63
D19V4, multiclass
[1] "Remove cluster labels:" "EMG1 MUTATED"          
clus
  EMG1 MUTATED EMG1 WILD-TYPE 
             2            261 
    TCGA-A3-3357     TCGA-A3-3358     TCGA-A3-3367     TCGA-A3-3370 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-A3-3373     TCGA-A3-3376     TCGA-A3-3385     TCGA-A3-3387 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-AK-3425     TCGA-AK-3428     TCGA-AK-3431     TCGA-AK-3434 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-AK-3445     TCGA-AK-3450     TCGA-AK-3453     TCGA-AK-3454 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-AK-3458     TCGA-AK-3460     TCGA-AK-3461     TCGA-B0-4690 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-B0-4691     TCGA-B0-4693     TCGA-B0-4694     TCGA-B0-4697 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-B0-4700     TCGA-B0-4703     TCGA-B0-4706     TCGA-B0-4707 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-B0-4710     TCGA-B0-4712     TCGA-B0-4713     TCGA-B0-4714 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-B0-4718     TCGA-B0-4810     TCGA-B0-4811     TCGA-B0-4813 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-B0-4814     TCGA-B0-4815     TCGA-B0-4816     TCGA-B0-4817 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-B0-4818     TCGA-B0-4819     TCGA-B0-4822     TCGA-B0-4823 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-B0-4824     TCGA-B0-4827     TCGA-B0-4828     TCGA-B0-4841 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-B0-4842     TCGA-B0-4843     TCGA-B0-4844     TCGA-B0-4845 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-B0-4846     TCGA-B0-4847     TCGA-B0-4848     TCGA-B0-4849 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-B0-4852     TCGA-B0-4945     TCGA-B0-5080     TCGA-B0-5083 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-B0-5092     TCGA-B0-5094     TCGA-B0-5095     TCGA-B0-5096 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-B0-5097     TCGA-B0-5098     TCGA-B0-5099     TCGA-B0-5100 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-B0-5102     TCGA-B0-5104     TCGA-B0-5106     TCGA-B0-5107 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-B0-5108     TCGA-B0-5109     TCGA-B0-5110     TCGA-B0-5113 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-B0-5115     TCGA-B0-5116     TCGA-B0-5117     TCGA-B0-5119 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-B0-5120     TCGA-B0-5121     TCGA-B0-5399     TCGA-B0-5400 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-B0-5402     TCGA-B0-5691     TCGA-B0-5692     TCGA-B0-5693 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-B0-5694     TCGA-B0-5695     TCGA-B0-5696     TCGA-B0-5697 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-B0-5698     TCGA-B0-5699     TCGA-B0-5701     TCGA-B0-5702 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-B0-5703     TCGA-B0-5705     TCGA-B0-5706     TCGA-B0-5707 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-B0-5709     TCGA-B0-5710     TCGA-B0-5711     TCGA-B0-5712 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-B0-5713     TCGA-B0-5812     TCGA-B2-3924     TCGA-B2-4101 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-B2-5633     TCGA-B2-5635     TCGA-B2-5641     TCGA-B4-5377 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-B4-5832     TCGA-B4-5834     TCGA-B4-5835     TCGA-B4-5836 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-B4-5838     TCGA-B4-5843     TCGA-B4-5844     TCGA-B8-4146 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-B8-4153     TCGA-B8-4621     TCGA-B8-4622     TCGA-B8-5158 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-B8-5159     TCGA-B8-5162     TCGA-B8-5163     TCGA-B8-5164 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-B8-5165     TCGA-B8-5545     TCGA-B8-5546     TCGA-B8-5549 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-B8-5550     TCGA-B8-5551     TCGA-B8-5552     TCGA-B8-5553 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-BP-4177     TCGA-BP-4760     TCGA-BP-4770     TCGA-BP-4782 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-BP-4795     TCGA-BP-4801     TCGA-BP-4993     TCGA-BP-5010 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-BP-5168     TCGA-BP-5169     TCGA-BP-5170     TCGA-BP-5173 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-BP-5174     TCGA-BP-5175     TCGA-BP-5176     TCGA-BP-5177 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-BP-5178     TCGA-BP-5180     TCGA-BP-5181     TCGA-BP-5182 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-BP-5183     TCGA-BP-5184     TCGA-BP-5185     TCGA-BP-5187 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-BP-5189     TCGA-BP-5190     TCGA-BP-5191     TCGA-BP-5192 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-BP-5194     TCGA-BP-5195     TCGA-BP-5196     TCGA-BP-5198 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-BP-5199     TCGA-BP-5200     TCGA-BP-5201     TCGA-BP-5202 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-CJ-4869     TCGA-CJ-4882     TCGA-CJ-4897     TCGA-CJ-4901 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-CJ-4902     TCGA-CJ-4903     TCGA-CJ-4904     TCGA-CJ-4905 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-CJ-4907     TCGA-CJ-4908     TCGA-CJ-4912     TCGA-CJ-4913 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-CJ-4916     TCGA-CJ-4918     TCGA-CJ-4920     TCGA-CJ-4923 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-CJ-5671     TCGA-CJ-5672     TCGA-CJ-5675     TCGA-CJ-5676 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-CJ-5677     TCGA-CJ-5678     TCGA-CJ-5679     TCGA-CJ-5680 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-CJ-5681     TCGA-CJ-5682     TCGA-CJ-5683     TCGA-CJ-5684 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-CJ-5686     TCGA-CJ-6027     TCGA-CJ-6028     TCGA-CJ-6030 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-CJ-6031     TCGA-CJ-6032     TCGA-CJ-6033     TCGA-CW-5580 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-CW-5581     TCGA-CW-5583     TCGA-CW-5585     TCGA-CW-5588 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-CW-5589     TCGA-CW-5591     TCGA-CW-6087     TCGA-CW-6090 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-CW-6093     TCGA-CW-6097     TCGA-CZ-4853     TCGA-CZ-4856 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-CZ-4859     TCGA-CZ-4863     TCGA-CZ-4865     TCGA-CZ-4866 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-CZ-5451     TCGA-CZ-5452     TCGA-CZ-5453     TCGA-CZ-5454 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-CZ-5455     TCGA-CZ-5456     TCGA-CZ-5457     TCGA-CZ-5458 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-CZ-5459     TCGA-CZ-5460     TCGA-CZ-5461     TCGA-CZ-5462 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-CZ-5463     TCGA-CZ-5465     TCGA-CZ-5466     TCGA-CZ-5467 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-CZ-5468     TCGA-CZ-5469     TCGA-CZ-5470     TCGA-CZ-5982 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-CZ-5984     TCGA-CZ-5985     TCGA-CZ-5986     TCGA-CZ-5987 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-CZ-5988     TCGA-CZ-5989     TCGA-DV-5565     TCGA-DV-5566 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-DV-5568     TCGA-DV-5569     TCGA-DV-5574     TCGA-DV-5575 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-DV-5576     TCGA-EU-5904     TCGA-EU-5905     TCGA-EU-5906 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-EU-5907 
"EMG1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  EMG1 MUTATED        1      0      0      0      0      1
  EMG1 WILD-TYPE     68     74     78     69     78     28
D19V5, multiclass
[1] "Remove cluster labels:" "EMG1 MUTATED"          
clus
  EMG1 MUTATED EMG1 WILD-TYPE 
             2            395 
    TCGA-A3-3311     TCGA-A3-3313     TCGA-A3-3317     TCGA-A3-3322 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-A3-3323     TCGA-A3-3326     TCGA-A3-3331     TCGA-A3-3347 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-A3-3349     TCGA-A3-3357     TCGA-A3-3362     TCGA-A3-3367 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-A3-3370     TCGA-A3-3373     TCGA-A3-3374     TCGA-A3-3376 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-A3-3385     TCGA-A3-3387     TCGA-AK-3428     TCGA-AK-3434 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-AK-3436     TCGA-AK-3451     TCGA-AK-3456     TCGA-B0-4690 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-B0-4691     TCGA-B0-4693     TCGA-B0-4694     TCGA-B0-4697 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-B0-4700     TCGA-B0-4703     TCGA-B0-4706     TCGA-B0-4707 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-B0-4710     TCGA-B0-4712     TCGA-B0-4713     TCGA-B0-4714 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-B0-4718     TCGA-B0-4810     TCGA-B0-4811     TCGA-B0-4813 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-B0-4814     TCGA-B0-4815     TCGA-B0-4816     TCGA-B0-4817 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-B0-4818     TCGA-B0-4819     TCGA-B0-4822     TCGA-B0-4823 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-B0-4824     TCGA-B0-4827     TCGA-B0-4828     TCGA-B0-4833 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-B0-4836     TCGA-B0-4837     TCGA-B0-4838     TCGA-B0-4839 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-B0-4841     TCGA-B0-4842     TCGA-B0-4843     TCGA-B0-4844 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-B0-4845     TCGA-B0-4846     TCGA-B0-4847     TCGA-B0-4848 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-B0-4849     TCGA-B0-4852     TCGA-B0-4945     TCGA-B0-5075 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-B0-5077     TCGA-B0-5080     TCGA-B0-5081     TCGA-B0-5084 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-B0-5085     TCGA-B0-5088     TCGA-B0-5092     TCGA-B0-5094 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-B0-5095     TCGA-B0-5096     TCGA-B0-5097     TCGA-B0-5098 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-B0-5099     TCGA-B0-5100     TCGA-B0-5102     TCGA-B0-5104 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-B0-5106     TCGA-B0-5107     TCGA-B0-5108     TCGA-B0-5109 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-B0-5110     TCGA-B0-5113     TCGA-B0-5115     TCGA-B0-5116 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-B0-5117     TCGA-B0-5119     TCGA-B0-5120     TCGA-B0-5121 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-B0-5399     TCGA-B0-5400     TCGA-B0-5402     TCGA-B0-5691 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-B0-5692     TCGA-B0-5693     TCGA-B0-5694     TCGA-B0-5695 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-B0-5696     TCGA-B0-5697     TCGA-B0-5698     TCGA-B0-5699 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-B0-5701     TCGA-B0-5702     TCGA-B0-5703     TCGA-B0-5705 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-B0-5706     TCGA-B0-5707     TCGA-B0-5709     TCGA-B0-5710 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-B0-5711     TCGA-B0-5712     TCGA-B0-5713     TCGA-B0-5812 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-B2-3923     TCGA-B2-3924     TCGA-B2-4098     TCGA-B2-4099 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-B2-4101     TCGA-B2-5633     TCGA-B2-5635     TCGA-B2-5641 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-B4-5377     TCGA-B4-5832     TCGA-B4-5834     TCGA-B4-5835 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-B4-5836     TCGA-B4-5838     TCGA-B4-5843     TCGA-B4-5844 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-B8-4143     TCGA-B8-4146     TCGA-B8-4153     TCGA-B8-4620 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-B8-4621     TCGA-B8-4622     TCGA-B8-5158     TCGA-B8-5159 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-B8-5162     TCGA-B8-5163     TCGA-B8-5164     TCGA-B8-5165 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-B8-5545     TCGA-B8-5546     TCGA-B8-5549     TCGA-B8-5550 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-B8-5551     TCGA-B8-5552     TCGA-B8-5553     TCGA-BP-4158 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-BP-4161     TCGA-BP-4164     TCGA-BP-4165     TCGA-BP-4169 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-BP-4170     TCGA-BP-4173     TCGA-BP-4174     TCGA-BP-4326 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-BP-4329     TCGA-BP-4330     TCGA-BP-4331     TCGA-BP-4337 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-BP-4338     TCGA-BP-4341     TCGA-BP-4342     TCGA-BP-4343 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-BP-4345     TCGA-BP-4346     TCGA-BP-4347     TCGA-BP-4349 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-BP-4351     TCGA-BP-4352     TCGA-BP-4354     TCGA-BP-4355 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-BP-4756     TCGA-BP-4758     TCGA-BP-4759     TCGA-BP-4760 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-BP-4761     TCGA-BP-4762     TCGA-BP-4763     TCGA-BP-4765 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-BP-4766     TCGA-BP-4768     TCGA-BP-4770     TCGA-BP-4771 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-BP-4774     TCGA-BP-4775     TCGA-BP-4777     TCGA-BP-4781 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-BP-4787     TCGA-BP-4789     TCGA-BP-4790     TCGA-BP-4797 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-BP-4798     TCGA-BP-4799     TCGA-BP-4801     TCGA-BP-4803 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-BP-4804     TCGA-BP-4807     TCGA-BP-4960     TCGA-BP-4961 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-BP-4962     TCGA-BP-4963     TCGA-BP-4964     TCGA-BP-4965 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-BP-4967     TCGA-BP-4968     TCGA-BP-4970     TCGA-BP-4971 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-BP-4972     TCGA-BP-4973     TCGA-BP-4974     TCGA-BP-4975 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-BP-4976     TCGA-BP-4977     TCGA-BP-4981     TCGA-BP-4982 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-BP-4983     TCGA-BP-4985     TCGA-BP-4986     TCGA-BP-4987 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-BP-4988     TCGA-BP-4989     TCGA-BP-4991     TCGA-BP-4992 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-BP-4993     TCGA-BP-4994     TCGA-BP-4995     TCGA-BP-4998 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-BP-4999     TCGA-BP-5000     TCGA-BP-5001     TCGA-BP-5004 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-BP-5006     TCGA-BP-5007     TCGA-BP-5008     TCGA-BP-5009 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-BP-5010     TCGA-BP-5168     TCGA-BP-5169     TCGA-BP-5170 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-BP-5173     TCGA-BP-5174     TCGA-BP-5175     TCGA-BP-5176 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-BP-5177     TCGA-BP-5178     TCGA-BP-5180     TCGA-BP-5181 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-BP-5182     TCGA-BP-5183     TCGA-BP-5184     TCGA-BP-5185 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-BP-5187     TCGA-BP-5189     TCGA-BP-5190     TCGA-BP-5191 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-BP-5192     TCGA-BP-5194     TCGA-BP-5195     TCGA-BP-5196 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-BP-5198     TCGA-BP-5199     TCGA-BP-5200     TCGA-BP-5201 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-BP-5202     TCGA-CJ-4634     TCGA-CJ-4635     TCGA-CJ-4638 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-CJ-4640     TCGA-CJ-4868     TCGA-CJ-4869     TCGA-CJ-4870 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-CJ-4871     TCGA-CJ-4872     TCGA-CJ-4873     TCGA-CJ-4874 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-CJ-4875     TCGA-CJ-4876     TCGA-CJ-4878     TCGA-CJ-4881 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-CJ-4882     TCGA-CJ-4884     TCGA-CJ-4885     TCGA-CJ-4886 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-CJ-4887     TCGA-CJ-4888     TCGA-CJ-4889     TCGA-CJ-4890 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-CJ-4891     TCGA-CJ-4892     TCGA-CJ-4893     TCGA-CJ-4894 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-CJ-4895     TCGA-CJ-4897     TCGA-CJ-4899     TCGA-CJ-4900 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-CJ-4901     TCGA-CJ-4902     TCGA-CJ-4903     TCGA-CJ-4904 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-CJ-4905     TCGA-CJ-4907     TCGA-CJ-4908     TCGA-CJ-4912 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-CJ-4913     TCGA-CJ-4916     TCGA-CJ-4918     TCGA-CJ-4920 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-CJ-4923     TCGA-CJ-5671     TCGA-CJ-5672     TCGA-CJ-5675 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-CJ-5676     TCGA-CJ-5677     TCGA-CJ-5678     TCGA-CJ-5679 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-CJ-5680     TCGA-CJ-5681     TCGA-CJ-5682     TCGA-CJ-5683 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-CJ-5684     TCGA-CJ-5686     TCGA-CJ-6027     TCGA-CJ-6028 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-CJ-6030     TCGA-CJ-6031     TCGA-CJ-6032     TCGA-CJ-6033 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-CW-5580     TCGA-CW-5581     TCGA-CW-5583     TCGA-CW-5585 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-CW-5588     TCGA-CW-5589     TCGA-CW-5591     TCGA-CW-6087 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-CW-6090     TCGA-CW-6093     TCGA-CW-6097     TCGA-CZ-4853 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-CZ-4854     TCGA-CZ-4856     TCGA-CZ-4857     TCGA-CZ-4858 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-CZ-4859     TCGA-CZ-4861     TCGA-CZ-4862     TCGA-CZ-4863 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-CZ-4865     TCGA-CZ-4866     TCGA-CZ-5451     TCGA-CZ-5452 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-CZ-5453     TCGA-CZ-5454     TCGA-CZ-5455     TCGA-CZ-5456 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-CZ-5457     TCGA-CZ-5458     TCGA-CZ-5459     TCGA-CZ-5460 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-CZ-5461     TCGA-CZ-5462     TCGA-CZ-5463     TCGA-CZ-5465 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-CZ-5466     TCGA-CZ-5467     TCGA-CZ-5468     TCGA-CZ-5469 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-CZ-5470     TCGA-CZ-5982     TCGA-CZ-5984     TCGA-CZ-5985 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-CZ-5986     TCGA-CZ-5987     TCGA-CZ-5988     TCGA-CZ-5989 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-DV-5565     TCGA-DV-5566     TCGA-DV-5568     TCGA-DV-5569 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-DV-5574     TCGA-DV-5575     TCGA-DV-5576     TCGA-EU-5904 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-EU-5905     TCGA-EU-5906     TCGA-EU-5907 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  EMG1 MUTATED        0      0      1      1
  EMG1 WILD-TYPE    109     95     71    120
D19V6, multiclass
[1] "Remove cluster labels:" "EMG1 MUTATED"          
clus
  EMG1 MUTATED EMG1 WILD-TYPE 
             2            395 
    TCGA-A3-3311     TCGA-A3-3313     TCGA-A3-3317     TCGA-A3-3322 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-A3-3323     TCGA-A3-3326     TCGA-A3-3331     TCGA-A3-3347 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-A3-3349     TCGA-A3-3357     TCGA-A3-3362     TCGA-A3-3367 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-A3-3370     TCGA-A3-3373     TCGA-A3-3374     TCGA-A3-3376 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-A3-3385     TCGA-A3-3387     TCGA-AK-3428     TCGA-AK-3434 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-AK-3436     TCGA-AK-3451     TCGA-AK-3456     TCGA-B0-4690 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-B0-4691     TCGA-B0-4693     TCGA-B0-4694     TCGA-B0-4697 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-B0-4700     TCGA-B0-4703     TCGA-B0-4706     TCGA-B0-4707 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-B0-4710     TCGA-B0-4712     TCGA-B0-4713     TCGA-B0-4714 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-B0-4718     TCGA-B0-4810     TCGA-B0-4811     TCGA-B0-4813 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-B0-4814     TCGA-B0-4815     TCGA-B0-4816     TCGA-B0-4817 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-B0-4818     TCGA-B0-4819     TCGA-B0-4822     TCGA-B0-4823 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-B0-4824     TCGA-B0-4827     TCGA-B0-4828     TCGA-B0-4833 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-B0-4836     TCGA-B0-4837     TCGA-B0-4838     TCGA-B0-4839 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-B0-4841     TCGA-B0-4842     TCGA-B0-4843     TCGA-B0-4844 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-B0-4845     TCGA-B0-4846     TCGA-B0-4847     TCGA-B0-4848 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-B0-4849     TCGA-B0-4852     TCGA-B0-4945     TCGA-B0-5075 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-B0-5077     TCGA-B0-5080     TCGA-B0-5081     TCGA-B0-5084 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-B0-5085     TCGA-B0-5088     TCGA-B0-5092     TCGA-B0-5094 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-B0-5095     TCGA-B0-5096     TCGA-B0-5097     TCGA-B0-5098 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-B0-5099     TCGA-B0-5100     TCGA-B0-5102     TCGA-B0-5104 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-B0-5106     TCGA-B0-5107     TCGA-B0-5108     TCGA-B0-5109 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-B0-5110     TCGA-B0-5113     TCGA-B0-5115     TCGA-B0-5116 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-B0-5117     TCGA-B0-5119     TCGA-B0-5120     TCGA-B0-5121 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-B0-5399     TCGA-B0-5400     TCGA-B0-5402     TCGA-B0-5691 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-B0-5692     TCGA-B0-5693     TCGA-B0-5694     TCGA-B0-5695 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-B0-5696     TCGA-B0-5697     TCGA-B0-5698     TCGA-B0-5699 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-B0-5701     TCGA-B0-5702     TCGA-B0-5703     TCGA-B0-5705 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-B0-5706     TCGA-B0-5707     TCGA-B0-5709     TCGA-B0-5710 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-B0-5711     TCGA-B0-5712     TCGA-B0-5713     TCGA-B0-5812 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-B2-3923     TCGA-B2-3924     TCGA-B2-4098     TCGA-B2-4099 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-B2-4101     TCGA-B2-5633     TCGA-B2-5635     TCGA-B2-5641 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-B4-5377     TCGA-B4-5832     TCGA-B4-5834     TCGA-B4-5835 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-B4-5836     TCGA-B4-5838     TCGA-B4-5843     TCGA-B4-5844 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-B8-4143     TCGA-B8-4146     TCGA-B8-4153     TCGA-B8-4620 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-B8-4621     TCGA-B8-4622     TCGA-B8-5158     TCGA-B8-5159 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-B8-5162     TCGA-B8-5163     TCGA-B8-5164     TCGA-B8-5165 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-B8-5545     TCGA-B8-5546     TCGA-B8-5549     TCGA-B8-5550 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-B8-5551     TCGA-B8-5552     TCGA-B8-5553     TCGA-BP-4158 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-BP-4161     TCGA-BP-4164     TCGA-BP-4165     TCGA-BP-4169 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-BP-4170     TCGA-BP-4173     TCGA-BP-4174     TCGA-BP-4326 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-BP-4329     TCGA-BP-4330     TCGA-BP-4331     TCGA-BP-4337 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-BP-4338     TCGA-BP-4341     TCGA-BP-4342     TCGA-BP-4343 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-BP-4345     TCGA-BP-4346     TCGA-BP-4347     TCGA-BP-4349 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-BP-4351     TCGA-BP-4352     TCGA-BP-4354     TCGA-BP-4355 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-BP-4756     TCGA-BP-4758     TCGA-BP-4759     TCGA-BP-4760 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-BP-4761     TCGA-BP-4762     TCGA-BP-4763     TCGA-BP-4765 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-BP-4766     TCGA-BP-4768     TCGA-BP-4770     TCGA-BP-4771 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-BP-4774     TCGA-BP-4775     TCGA-BP-4777     TCGA-BP-4781 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-BP-4787     TCGA-BP-4789     TCGA-BP-4790     TCGA-BP-4797 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-BP-4798     TCGA-BP-4799     TCGA-BP-4801     TCGA-BP-4803 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-BP-4804     TCGA-BP-4807     TCGA-BP-4960     TCGA-BP-4961 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-BP-4962     TCGA-BP-4963     TCGA-BP-4964     TCGA-BP-4965 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-BP-4967     TCGA-BP-4968     TCGA-BP-4970     TCGA-BP-4971 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-BP-4972     TCGA-BP-4973     TCGA-BP-4974     TCGA-BP-4975 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-BP-4976     TCGA-BP-4977     TCGA-BP-4981     TCGA-BP-4982 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-BP-4983     TCGA-BP-4985     TCGA-BP-4986     TCGA-BP-4987 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-BP-4988     TCGA-BP-4989     TCGA-BP-4991     TCGA-BP-4992 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-BP-4993     TCGA-BP-4994     TCGA-BP-4995     TCGA-BP-4998 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-BP-4999     TCGA-BP-5000     TCGA-BP-5001     TCGA-BP-5004 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-BP-5006     TCGA-BP-5007     TCGA-BP-5008     TCGA-BP-5009 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-BP-5010     TCGA-BP-5168     TCGA-BP-5169     TCGA-BP-5170 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-BP-5173     TCGA-BP-5174     TCGA-BP-5175     TCGA-BP-5176 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-BP-5177     TCGA-BP-5178     TCGA-BP-5180     TCGA-BP-5181 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-BP-5182     TCGA-BP-5183     TCGA-BP-5184     TCGA-BP-5185 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-BP-5187     TCGA-BP-5189     TCGA-BP-5190     TCGA-BP-5191 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-BP-5192     TCGA-BP-5194     TCGA-BP-5195     TCGA-BP-5196 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-BP-5198     TCGA-BP-5199     TCGA-BP-5200     TCGA-BP-5201 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-BP-5202     TCGA-CJ-4634     TCGA-CJ-4635     TCGA-CJ-4638 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-CJ-4640     TCGA-CJ-4868     TCGA-CJ-4869     TCGA-CJ-4870 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-CJ-4871     TCGA-CJ-4872     TCGA-CJ-4873     TCGA-CJ-4874 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-CJ-4875     TCGA-CJ-4876     TCGA-CJ-4878     TCGA-CJ-4881 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-CJ-4882     TCGA-CJ-4884     TCGA-CJ-4885     TCGA-CJ-4886 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-CJ-4887     TCGA-CJ-4888     TCGA-CJ-4889     TCGA-CJ-4890 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-CJ-4891     TCGA-CJ-4892     TCGA-CJ-4893     TCGA-CJ-4894 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-CJ-4895     TCGA-CJ-4897     TCGA-CJ-4899     TCGA-CJ-4900 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-CJ-4901     TCGA-CJ-4902     TCGA-CJ-4903     TCGA-CJ-4904 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-CJ-4905     TCGA-CJ-4907     TCGA-CJ-4908     TCGA-CJ-4912 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-CJ-4913     TCGA-CJ-4916     TCGA-CJ-4918     TCGA-CJ-4920 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-CJ-4923     TCGA-CJ-5671     TCGA-CJ-5672     TCGA-CJ-5675 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-CJ-5676     TCGA-CJ-5677     TCGA-CJ-5678     TCGA-CJ-5679 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-CJ-5680     TCGA-CJ-5681     TCGA-CJ-5682     TCGA-CJ-5683 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-CJ-5684     TCGA-CJ-5686     TCGA-CJ-6027     TCGA-CJ-6028 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-CJ-6030     TCGA-CJ-6031     TCGA-CJ-6032     TCGA-CJ-6033 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-CW-5580     TCGA-CW-5581     TCGA-CW-5583     TCGA-CW-5585 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-CW-5588     TCGA-CW-5589     TCGA-CW-5591     TCGA-CW-6087 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-CW-6090     TCGA-CW-6093     TCGA-CW-6097     TCGA-CZ-4853 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-CZ-4854     TCGA-CZ-4856     TCGA-CZ-4857     TCGA-CZ-4858 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-CZ-4859     TCGA-CZ-4861     TCGA-CZ-4862     TCGA-CZ-4863 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-CZ-4865     TCGA-CZ-4866     TCGA-CZ-5451     TCGA-CZ-5452 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-CZ-5453     TCGA-CZ-5454     TCGA-CZ-5455     TCGA-CZ-5456 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-CZ-5457     TCGA-CZ-5458     TCGA-CZ-5459     TCGA-CZ-5460 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-CZ-5461     TCGA-CZ-5462     TCGA-CZ-5463     TCGA-CZ-5465 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-CZ-5466     TCGA-CZ-5467     TCGA-CZ-5468     TCGA-CZ-5469 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-CZ-5470     TCGA-CZ-5982     TCGA-CZ-5984     TCGA-CZ-5985 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-CZ-5986     TCGA-CZ-5987     TCGA-CZ-5988     TCGA-CZ-5989 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-DV-5565     TCGA-DV-5566     TCGA-DV-5568     TCGA-DV-5569 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-DV-5574     TCGA-DV-5575     TCGA-DV-5576     TCGA-EU-5904 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-EU-5905     TCGA-EU-5906     TCGA-EU-5907 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  EMG1 MUTATED        3      1      0      0      0
  EMG1 WILD-TYPE     57    136     72    135     30
D19V7, multiclass
        clus
vv       EMG1 MUTATED EMG1 WILD-TYPE
  CLUS_1            3             57
  CLUS_2            1            136
  CLUS_3            0             72
  CLUS_4            0            135
  CLUS_5            0             30
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  EMG1 MUTATED        0      0      2      0      0      2
  EMG1 WILD-TYPE     99     25    148    115     30     13
D19V8, multiclass
        clus
vv       EMG1 MUTATED EMG1 WILD-TYPE
  CLUS_1            0             99
  CLUS_2            0             25
  CLUS_3            2            148
  CLUS_4            0            115
  CLUS_5            0             30
  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 CLUS_4 CLUS_5
  EMG1 MUTATED        1      0      0      3      0
  EMG1 WILD-TYPE     70     49    159    101     44
D19V9, multiclass
        clus
vv       EMG1 MUTATED EMG1 WILD-TYPE
  CLUS_1            1             70
  CLUS_2            0             49
  CLUS_3            0            159
  CLUS_4            3            101
  CLUS_5            0             44
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  EMG1 MUTATED        0      1      3
  EMG1 WILD-TYPE    146    172    105
D19V10, multiclass
        clus
vv       EMG1 MUTATED EMG1 WILD-TYPE
  CLUS_1            0            146
  CLUS_2            1            172
  CLUS_3            3            105
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  EMG1 MUTATED        1      0      0      0
  EMG1 WILD-TYPE     16     20     39     31
D19V11, multiclass
[1] "Remove cluster labels:" "EMG1 MUTATED"          
clus
  EMG1 MUTATED EMG1 WILD-TYPE 
             1            106 
    TCGA-A3-3317     TCGA-A3-3358     TCGA-A3-3387     TCGA-AK-3458 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-AK-3465     TCGA-B0-4700     TCGA-B0-4706     TCGA-B0-4710 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-B0-4712     TCGA-B0-4810     TCGA-B0-4811     TCGA-B0-4836 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-B0-4837     TCGA-B0-4852     TCGA-B0-5080     TCGA-B0-5085 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-B0-5088     TCGA-B0-5399     TCGA-B0-5691     TCGA-B0-5692 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-B0-5693     TCGA-B0-5694     TCGA-B0-5695     TCGA-B0-5696 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-B0-5699     TCGA-B0-5702     TCGA-B0-5705     TCGA-B0-5709 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-B2-3923     TCGA-B2-3924     TCGA-B2-5633     TCGA-B2-5635 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-B4-5377     TCGA-B4-5836     TCGA-B8-4621     TCGA-B8-5545 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-B8-5550     TCGA-B8-5551     TCGA-B8-5552     TCGA-B8-5553 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-BP-4173     TCGA-BP-4340     TCGA-BP-4761     TCGA-BP-4770 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-BP-4787     TCGA-BP-4789     TCGA-BP-4790     TCGA-BP-4804 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-BP-4807     TCGA-BP-4961     TCGA-BP-4967     TCGA-BP-4968 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-BP-4970     TCGA-BP-4974     TCGA-BP-4976     TCGA-BP-4981 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-BP-4982     TCGA-BP-4985     TCGA-BP-4988     TCGA-BP-4989 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-BP-4992     TCGA-BP-4995     TCGA-BP-4998     TCGA-BP-5001 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-BP-5008     TCGA-BP-5009     TCGA-CJ-4870     TCGA-CJ-4875 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-CJ-4876     TCGA-CJ-4878     TCGA-CJ-4881     TCGA-CJ-4887 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-CJ-4889     TCGA-CJ-4890     TCGA-CJ-4895     TCGA-CJ-4900 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-CJ-5671     TCGA-CJ-5675     TCGA-CJ-5676     TCGA-CJ-5681 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-CJ-5683     TCGA-CJ-5686     TCGA-CJ-6031     TCGA-CJ-6032 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-CW-5585     TCGA-CW-5589     TCGA-CW-6087     TCGA-CZ-4854 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-CZ-4857     TCGA-CZ-4858     TCGA-CZ-5453     TCGA-CZ-5454 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-CZ-5455     TCGA-CZ-5457     TCGA-CZ-5459     TCGA-CZ-5462 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-CZ-5463     TCGA-CZ-5466     TCGA-CZ-5467     TCGA-CZ-5469 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-CZ-5470     TCGA-CZ-5989     TCGA-DV-5565     TCGA-DV-5566 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-DV-5569     TCGA-EU-5904 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  EMG1 MUTATED        1      0      0      0
  EMG1 WILD-TYPE     17     44     26     19
D19V12, multiclass
[1] "Remove cluster labels:" "EMG1 MUTATED"          
clus
  EMG1 MUTATED EMG1 WILD-TYPE 
             1            106 
    TCGA-A3-3317     TCGA-A3-3358     TCGA-A3-3387     TCGA-AK-3458 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-AK-3465     TCGA-B0-4700     TCGA-B0-4706     TCGA-B0-4710 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-B0-4712     TCGA-B0-4810     TCGA-B0-4811     TCGA-B0-4836 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-B0-4837     TCGA-B0-4852     TCGA-B0-5080     TCGA-B0-5085 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-B0-5088     TCGA-B0-5399     TCGA-B0-5691     TCGA-B0-5692 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-B0-5693     TCGA-B0-5694     TCGA-B0-5695     TCGA-B0-5696 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-B0-5699     TCGA-B0-5702     TCGA-B0-5705     TCGA-B0-5709 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-B2-3923     TCGA-B2-3924     TCGA-B2-5633     TCGA-B2-5635 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-B4-5377     TCGA-B4-5836     TCGA-B8-4621     TCGA-B8-5545 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-B8-5550     TCGA-B8-5551     TCGA-B8-5552     TCGA-B8-5553 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-BP-4173     TCGA-BP-4340     TCGA-BP-4761     TCGA-BP-4770 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-BP-4787     TCGA-BP-4789     TCGA-BP-4790     TCGA-BP-4804 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-BP-4807     TCGA-BP-4961     TCGA-BP-4967     TCGA-BP-4968 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-BP-4970     TCGA-BP-4974     TCGA-BP-4976     TCGA-BP-4981 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-BP-4982     TCGA-BP-4985     TCGA-BP-4988     TCGA-BP-4989 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-BP-4992     TCGA-BP-4995     TCGA-BP-4998     TCGA-BP-5001 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-BP-5008     TCGA-BP-5009     TCGA-CJ-4870     TCGA-CJ-4875 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-CJ-4876     TCGA-CJ-4878     TCGA-CJ-4881     TCGA-CJ-4887 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-CJ-4889     TCGA-CJ-4890     TCGA-CJ-4895     TCGA-CJ-4900 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-CJ-5671     TCGA-CJ-5675     TCGA-CJ-5676     TCGA-CJ-5681 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-CJ-5683     TCGA-CJ-5686     TCGA-CJ-6031     TCGA-CJ-6032 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-CW-5585     TCGA-CW-5589     TCGA-CW-6087     TCGA-CZ-4854 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-CZ-4857     TCGA-CZ-4858     TCGA-CZ-5453     TCGA-CZ-5454 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-CZ-5455     TCGA-CZ-5457     TCGA-CZ-5459     TCGA-CZ-5462 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-CZ-5463     TCGA-CZ-5466     TCGA-CZ-5467     TCGA-CZ-5469 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-CZ-5470     TCGA-CZ-5989     TCGA-DV-5565     TCGA-DV-5566 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 
    TCGA-DV-5569     TCGA-EU-5904 
"EMG1 WILD-TYPE" "EMG1 WILD-TYPE" 

Clustering(20) Variable = ARID1A MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ARID1A MUTATED        0      0      0
  ARID1A WILD-TYPE     17     16     10
D20V1, 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      3      5      3     10     10      4      8
D20V2, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ARID1A MUTATED        1      1      2      3      2      1
  ARID1A WILD-TYPE     48     67    128     60     67     53
D20V3, multiclass
        clus
vv       ARID1A MUTATED ARID1A WILD-TYPE
  CLUS_1              1               48
  CLUS_2              1               67
  CLUS_3              2              128
  CLUS_4              3               60
  CLUS_5              2               67
  CLUS_6              1               53
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger 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        3      2      1      2
  ARID1A WILD-TYPE     54     57     82     62
D20V4, multiclass
        clus
vv       ARID1A MUTATED ARID1A WILD-TYPE
  CLUS_1              3               54
  CLUS_2              2               57
  CLUS_3              1               82
  CLUS_4              2               62
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ARID1A MUTATED        2      1      4      2      1      0
  ARID1A WILD-TYPE     67     73     74     67     77     29
D20V5, multiclass
        clus
vv       ARID1A MUTATED ARID1A WILD-TYPE
  CLUS_1              2               67
  CLUS_2              1               73
  CLUS_3              4               74
  CLUS_4              2               67
  CLUS_5              1               77
  CLUS_6              0               29
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ARID1A MUTATED        2      3      1      4
  ARID1A WILD-TYPE    107     92     71    117
D20V6, multiclass
        clus
vv       ARID1A MUTATED ARID1A WILD-TYPE
  CLUS_1              2              107
  CLUS_2              3               92
  CLUS_3              1               71
  CLUS_4              4              117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ARID1A MUTATED        0      5      1      4      0
  ARID1A WILD-TYPE     60    132     71    131     30
D20V7, multiclass
        clus
vv       ARID1A MUTATED ARID1A WILD-TYPE
  CLUS_1              0               60
  CLUS_2              5              132
  CLUS_3              1               71
  CLUS_4              4              131
  CLUS_5              0               30
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- 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      4      3      1      0
  ARID1A WILD-TYPE     97     25    146    112     29     15
D20V8, multiclass
        clus
vv       ARID1A MUTATED ARID1A WILD-TYPE
  CLUS_1              2               97
  CLUS_2              0               25
  CLUS_3              4              146
  CLUS_4              3              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 CLUS_4 CLUS_5
  ARID1A MUTATED        0      1      6      2      1
  ARID1A WILD-TYPE     71     48    153    102     43
D20V9, multiclass
        clus
vv       ARID1A MUTATED ARID1A WILD-TYPE
  CLUS_1              0               71
  CLUS_2              1               48
  CLUS_3              6              153
  CLUS_4              2              102
  CLUS_5              1               43
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ARID1A MUTATED        2      7      1
  ARID1A WILD-TYPE    144    166    107
D20V10, multiclass
        clus
vv       ARID1A MUTATED ARID1A WILD-TYPE
  CLUS_1              2              144
  CLUS_2              7              166
  CLUS_3              1              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
  ARID1A MUTATED        1      0      2      0
  ARID1A WILD-TYPE     16     20     37     31
D20V11, multiclass
        clus
vv       ARID1A MUTATED ARID1A WILD-TYPE
  CLUS_1              1               16
  CLUS_2              0               20
  CLUS_3              2               37
  CLUS_4              0               31
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger 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     17     44     24     19
D20V12, multiclass
        clus
vv       ARID1A MUTATED ARID1A WILD-TYPE
  CLUS_1              1               17
  CLUS_2              0               44
  CLUS_3              2               24
  CLUS_4              0               19
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(21) Variable = ARAP3 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ARAP3 MUTATED        0      1      0
  ARAP3 WILD-TYPE     17     15     10
D21V1, multiclass
[1] "Remove cluster labels:" "ARAP3 MUTATED"         
clus
  ARAP3 MUTATED ARAP3 WILD-TYPE 
              1              42 
     TCGA-A3-3311      TCGA-A3-3313      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-A3-3374      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-B2-3923      TCGA-B2-3924 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-B2-4098      TCGA-B2-4099      TCGA-B8-4143      TCGA-B8-4148 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-B8-4151      TCGA-B8-4154      TCGA-B8-4619      TCGA-B8-4620 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-BP-4161      TCGA-BP-4162      TCGA-BP-4163      TCGA-BP-4164 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-BP-4167      TCGA-CJ-4634      TCGA-CJ-4636      TCGA-CJ-4637 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-CJ-4638      TCGA-CJ-4639      TCGA-CJ-4640      TCGA-CJ-4641 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-CJ-4643      TCGA-CJ-4644 
"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      3      4      3     10     10      4      8
D21V2, multiclass
[1] "Remove cluster labels:" "ARAP3 MUTATED"         
clus
  ARAP3 MUTATED ARAP3 WILD-TYPE 
              1              42 
     TCGA-A3-3311      TCGA-A3-3313      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-A3-3374      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-B2-3923      TCGA-B2-3924 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-B2-4098      TCGA-B2-4099      TCGA-B8-4143      TCGA-B8-4148 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-B8-4151      TCGA-B8-4154      TCGA-B8-4619      TCGA-B8-4620 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-BP-4161      TCGA-BP-4162      TCGA-BP-4163      TCGA-BP-4164 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-BP-4167      TCGA-CJ-4634      TCGA-CJ-4636      TCGA-CJ-4637 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-CJ-4638      TCGA-CJ-4639      TCGA-CJ-4640      TCGA-CJ-4641 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
     TCGA-CJ-4643      TCGA-CJ-4644 
"ARAP3 WILD-TYPE" "ARAP3 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ARAP3 MUTATED        0      1      0      1      0      1
  ARAP3 WILD-TYPE     49     67    130     62     69     53
D21V3, multiclass
        clus
vv       ARAP3 MUTATED ARAP3 WILD-TYPE
  CLUS_1             0              49
  CLUS_2             1              67
  CLUS_3             0             130
  CLUS_4             1              62
  CLUS_5             0              69
  CLUS_6             1              53
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger 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        0      1      0      0
  ARAP3 WILD-TYPE     57     58     83     64
D21V4, 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        0      1      0      1      1      0
  ARAP3 WILD-TYPE     69     73     78     68     77     29
D21V5, multiclass
        clus
vv       ARAP3 MUTATED ARAP3 WILD-TYPE
  CLUS_1             0              69
  CLUS_2             1              73
  CLUS_3             0              78
  CLUS_4             1              68
  CLUS_5             1              77
  CLUS_6             0              29
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger 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      1      0      1
  ARAP3 WILD-TYPE    108     94     72    120
D21V6, multiclass
        clus
vv       ARAP3 MUTATED ARAP3 WILD-TYPE
  CLUS_1             1             108
  CLUS_2             1              94
  CLUS_3             0              72
  CLUS_4             1             120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ARAP3 MUTATED        1      1      1      0      0
  ARAP3 WILD-TYPE     59    136     71    135     30
D21V7, multiclass
        clus
vv       ARAP3 MUTATED ARAP3 WILD-TYPE
  CLUS_1             1              59
  CLUS_2             1             136
  CLUS_3             1              71
  CLUS_4             0             135
  CLUS_5             0              30
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- 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     98     25    149    114     30     15
D21V8, multiclass
        clus
vv       ARAP3 MUTATED ARAP3 WILD-TYPE
  CLUS_1             1              98
  CLUS_2             0              25
  CLUS_3             1             149
  CLUS_4             1             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 CLUS_4 CLUS_5
  ARAP3 MUTATED        0      0      2      1      0
  ARAP3 WILD-TYPE     71     49    157    103     44
D21V9, multiclass
        clus
vv       ARAP3 MUTATED ARAP3 WILD-TYPE
  CLUS_1             0              71
  CLUS_2             0              49
  CLUS_3             2             157
  CLUS_4             1             103
  CLUS_5             0              44
[1] 5 2
[1] TRUE
[1] "dimension of contingency table 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      2      0
  ARAP3 WILD-TYPE    145    171    108
D21V10, multiclass
        clus
vv       ARAP3 MUTATED ARAP3 WILD-TYPE
  CLUS_1             1             145
  CLUS_2             2             171
  CLUS_3             0             108
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ARAP3 MUTATED        1      0      0      0
  ARAP3 WILD-TYPE     16     20     39     31
D21V11, 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 CLUS_4
  ARAP3 MUTATED        1      0      0      0
  ARAP3 WILD-TYPE     17     44     26     19
D21V12, 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(22) Variable = SLC16A9 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC16A9 MUTATED        1      0      0
  SLC16A9 WILD-TYPE     16     16     10
D22V1, multiclass
[1] "Remove cluster labels:" "SLC16A9 MUTATED"       
clus
  SLC16A9 MUTATED SLC16A9 WILD-TYPE 
                1                42 
       TCGA-A3-3311        TCGA-A3-3313        TCGA-A3-3317        TCGA-A3-3322 
"SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" 
       TCGA-A3-3323        TCGA-A3-3326        TCGA-A3-3331        TCGA-A3-3347 
"SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" 
       TCGA-A3-3349        TCGA-A3-3362        TCGA-A3-3374        TCGA-AK-3427 
"SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" 
       TCGA-AK-3440        TCGA-AK-3443        TCGA-AK-3453        TCGA-AK-3455 
"SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" 
       TCGA-AK-3456        TCGA-AK-3465        TCGA-AS-3777        TCGA-B2-3923 
"SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" 
       TCGA-B2-3924        TCGA-B2-4098        TCGA-B8-4143        TCGA-B8-4148 
"SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" 
       TCGA-B8-4151        TCGA-B8-4154        TCGA-B8-4619        TCGA-B8-4620 
"SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" 
       TCGA-BP-4161        TCGA-BP-4162        TCGA-BP-4163        TCGA-BP-4164 
"SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" 
       TCGA-BP-4167        TCGA-CJ-4634        TCGA-CJ-4636        TCGA-CJ-4637 
"SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" 
       TCGA-CJ-4638        TCGA-CJ-4639        TCGA-CJ-4640        TCGA-CJ-4641 
"SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" 
       TCGA-CJ-4643        TCGA-CJ-4644 
"SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  SLC16A9 MUTATED        1      0      0      0      0      0      0
  SLC16A9 WILD-TYPE      2      5      3     10     10      4      8
D22V2, multiclass
[1] "Remove cluster labels:" "SLC16A9 MUTATED"       
clus
  SLC16A9 MUTATED SLC16A9 WILD-TYPE 
                1                42 
       TCGA-A3-3311        TCGA-A3-3313        TCGA-A3-3317        TCGA-A3-3322 
"SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" 
       TCGA-A3-3323        TCGA-A3-3326        TCGA-A3-3331        TCGA-A3-3347 
"SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" 
       TCGA-A3-3349        TCGA-A3-3362        TCGA-A3-3374        TCGA-AK-3427 
"SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" 
       TCGA-AK-3440        TCGA-AK-3443        TCGA-AK-3453        TCGA-AK-3455 
"SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" 
       TCGA-AK-3456        TCGA-AK-3465        TCGA-AS-3777        TCGA-B2-3923 
"SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" 
       TCGA-B2-3924        TCGA-B2-4098        TCGA-B8-4143        TCGA-B8-4148 
"SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" 
       TCGA-B8-4151        TCGA-B8-4154        TCGA-B8-4619        TCGA-B8-4620 
"SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" 
       TCGA-BP-4161        TCGA-BP-4162        TCGA-BP-4163        TCGA-BP-4164 
"SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" 
       TCGA-BP-4167        TCGA-CJ-4634        TCGA-CJ-4636        TCGA-CJ-4637 
"SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" 
       TCGA-CJ-4638        TCGA-CJ-4639        TCGA-CJ-4640        TCGA-CJ-4641 
"SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" 
       TCGA-CJ-4643        TCGA-CJ-4644 
"SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SLC16A9 MUTATED        0      1      0      1      1      1
  SLC16A9 WILD-TYPE     49     67    130     62     68     53
D22V3, multiclass
        clus
vv       SLC16A9 MUTATED SLC16A9 WILD-TYPE
  CLUS_1               0                49
  CLUS_2               1                67
  CLUS_3               0               130
  CLUS_4               1                62
  CLUS_5               1                68
  CLUS_6               1                53
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SLC16A9 MUTATED        1      1      0      1
  SLC16A9 WILD-TYPE     56     58     83     63
D22V4, multiclass
        clus
vv       SLC16A9 MUTATED SLC16A9 WILD-TYPE
  CLUS_1               1                56
  CLUS_2               1                58
  CLUS_3               0                83
  CLUS_4               1                63
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SLC16A9 MUTATED        2      1      0      0      1      0
  SLC16A9 WILD-TYPE     67     73     78     69     77     29
D22V5, multiclass
        clus
vv       SLC16A9 MUTATED SLC16A9 WILD-TYPE
  CLUS_1               2                67
  CLUS_2               1                73
  CLUS_3               0                78
  CLUS_4               0                69
  CLUS_5               1                77
  CLUS_6               0                29
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SLC16A9 MUTATED        3      0      0      1
  SLC16A9 WILD-TYPE    106     95     72    120
D22V6, multiclass
        clus
vv       SLC16A9 MUTATED SLC16A9 WILD-TYPE
  CLUS_1               3               106
  CLUS_2               0                95
  CLUS_3               0                72
  CLUS_4               1               120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC16A9 MUTATED        2      2      0      0      0
  SLC16A9 WILD-TYPE     58    135     72    135     30
D22V7, multiclass
        clus
vv       SLC16A9 MUTATED SLC16A9 WILD-TYPE
  CLUS_1               2                58
  CLUS_2               2               135
  CLUS_3               0                72
  CLUS_4               0               135
  CLUS_5               0                30
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SLC16A9 MUTATED        0      2      2      0      0      0
  SLC16A9 WILD-TYPE     99     23    148    115     30     15
D22V8, multiclass
        clus
vv       SLC16A9 MUTATED SLC16A9 WILD-TYPE
  CLUS_1               0                99
  CLUS_2               2                23
  CLUS_3               2               148
  CLUS_4               0               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 CLUS_4 CLUS_5
  SLC16A9 MUTATED        0      0      2      1      1
  SLC16A9 WILD-TYPE     71     49    157    103     43
D22V9, multiclass
        clus
vv       SLC16A9 MUTATED SLC16A9 WILD-TYPE
  CLUS_1               0                71
  CLUS_2               0                49
  CLUS_3               2               157
  CLUS_4               1               103
  CLUS_5               1                43
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC16A9 MUTATED        1      2      1
  SLC16A9 WILD-TYPE    145    171    107
D22V10, multiclass
        clus
vv       SLC16A9 MUTATED SLC16A9 WILD-TYPE
  CLUS_1               1               145
  CLUS_2               2               171
  CLUS_3               1               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
  SLC16A9 MUTATED        0      0      0      1
  SLC16A9 WILD-TYPE     17     20     39     30
D22V11, multiclass
[1] "Remove cluster labels:" "SLC16A9 MUTATED"       
clus
  SLC16A9 MUTATED SLC16A9 WILD-TYPE 
                1               106 
       TCGA-A3-3317        TCGA-A3-3358        TCGA-A3-3387        TCGA-AK-3440 
"SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" 
       TCGA-AK-3458        TCGA-AK-3465        TCGA-B0-4700        TCGA-B0-4706 
"SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" 
       TCGA-B0-4710        TCGA-B0-4712        TCGA-B0-4810        TCGA-B0-4811 
"SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" 
       TCGA-B0-4836        TCGA-B0-4837        TCGA-B0-4852        TCGA-B0-5080 
"SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" 
       TCGA-B0-5085        TCGA-B0-5088        TCGA-B0-5399        TCGA-B0-5691 
"SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" 
       TCGA-B0-5692        TCGA-B0-5693        TCGA-B0-5694        TCGA-B0-5695 
"SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" 
       TCGA-B0-5696        TCGA-B0-5699        TCGA-B0-5702        TCGA-B0-5705 
"SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" 
       TCGA-B0-5709        TCGA-B2-3923        TCGA-B2-3924        TCGA-B2-5633 
"SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" 
       TCGA-B2-5635        TCGA-B4-5377        TCGA-B4-5836        TCGA-B8-4621 
"SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" 
       TCGA-B8-5545        TCGA-B8-5550        TCGA-B8-5551        TCGA-B8-5552 
"SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" 
       TCGA-B8-5553        TCGA-BP-4173        TCGA-BP-4340        TCGA-BP-4761 
"SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" 
       TCGA-BP-4770        TCGA-BP-4787        TCGA-BP-4789        TCGA-BP-4790 
"SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" 
       TCGA-BP-4804        TCGA-BP-4807        TCGA-BP-4961        TCGA-BP-4967 
"SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" 
       TCGA-BP-4968        TCGA-BP-4970        TCGA-BP-4974        TCGA-BP-4976 
"SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" 
       TCGA-BP-4981        TCGA-BP-4982        TCGA-BP-4985        TCGA-BP-4988 
"SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" 
       TCGA-BP-4989        TCGA-BP-4992        TCGA-BP-4995        TCGA-BP-4998 
"SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" 
       TCGA-BP-5001        TCGA-BP-5008        TCGA-BP-5009        TCGA-CJ-4870 
"SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" 
       TCGA-CJ-4875        TCGA-CJ-4876        TCGA-CJ-4878        TCGA-CJ-4881 
"SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" 
       TCGA-CJ-4887        TCGA-CJ-4889        TCGA-CJ-4890        TCGA-CJ-4895 
"SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" 
       TCGA-CJ-4900        TCGA-CJ-5671        TCGA-CJ-5675        TCGA-CJ-5676 
"SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" 
       TCGA-CJ-5683        TCGA-CJ-5686        TCGA-CJ-6031        TCGA-CJ-6032 
"SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" 
       TCGA-CW-5585        TCGA-CW-5589        TCGA-CW-6087        TCGA-CZ-4854 
"SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" 
       TCGA-CZ-4857        TCGA-CZ-4858        TCGA-CZ-5453        TCGA-CZ-5454 
"SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" 
       TCGA-CZ-5455        TCGA-CZ-5457        TCGA-CZ-5459        TCGA-CZ-5462 
"SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" 
       TCGA-CZ-5463        TCGA-CZ-5466        TCGA-CZ-5467        TCGA-CZ-5469 
"SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" 
       TCGA-CZ-5470        TCGA-CZ-5989        TCGA-DV-5565        TCGA-DV-5566 
"SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" 
       TCGA-DV-5569        TCGA-EU-5904 
"SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SLC16A9 MUTATED        0      0      1      0
  SLC16A9 WILD-TYPE     18     44     25     19
D22V12, multiclass
[1] "Remove cluster labels:" "SLC16A9 MUTATED"       
clus
  SLC16A9 MUTATED SLC16A9 WILD-TYPE 
                1               106 
       TCGA-A3-3317        TCGA-A3-3358        TCGA-A3-3387        TCGA-AK-3440 
"SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" 
       TCGA-AK-3458        TCGA-AK-3465        TCGA-B0-4700        TCGA-B0-4706 
"SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" 
       TCGA-B0-4710        TCGA-B0-4712        TCGA-B0-4810        TCGA-B0-4811 
"SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" 
       TCGA-B0-4836        TCGA-B0-4837        TCGA-B0-4852        TCGA-B0-5080 
"SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" 
       TCGA-B0-5085        TCGA-B0-5088        TCGA-B0-5399        TCGA-B0-5691 
"SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" 
       TCGA-B0-5692        TCGA-B0-5693        TCGA-B0-5694        TCGA-B0-5695 
"SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" 
       TCGA-B0-5696        TCGA-B0-5699        TCGA-B0-5702        TCGA-B0-5705 
"SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" 
       TCGA-B0-5709        TCGA-B2-3923        TCGA-B2-3924        TCGA-B2-5633 
"SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" 
       TCGA-B2-5635        TCGA-B4-5377        TCGA-B4-5836        TCGA-B8-4621 
"SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" 
       TCGA-B8-5545        TCGA-B8-5550        TCGA-B8-5551        TCGA-B8-5552 
"SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" 
       TCGA-B8-5553        TCGA-BP-4173        TCGA-BP-4340        TCGA-BP-4761 
"SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" 
       TCGA-BP-4770        TCGA-BP-4787        TCGA-BP-4789        TCGA-BP-4790 
"SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" 
       TCGA-BP-4804        TCGA-BP-4807        TCGA-BP-4961        TCGA-BP-4967 
"SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" 
       TCGA-BP-4968        TCGA-BP-4970        TCGA-BP-4974        TCGA-BP-4976 
"SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" 
       TCGA-BP-4981        TCGA-BP-4982        TCGA-BP-4985        TCGA-BP-4988 
"SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" 
       TCGA-BP-4989        TCGA-BP-4992        TCGA-BP-4995        TCGA-BP-4998 
"SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" 
       TCGA-BP-5001        TCGA-BP-5008        TCGA-BP-5009        TCGA-CJ-4870 
"SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" 
       TCGA-CJ-4875        TCGA-CJ-4876        TCGA-CJ-4878        TCGA-CJ-4881 
"SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" 
       TCGA-CJ-4887        TCGA-CJ-4889        TCGA-CJ-4890        TCGA-CJ-4895 
"SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" 
       TCGA-CJ-4900        TCGA-CJ-5671        TCGA-CJ-5675        TCGA-CJ-5676 
"SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" 
       TCGA-CJ-5683        TCGA-CJ-5686        TCGA-CJ-6031        TCGA-CJ-6032 
"SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" 
       TCGA-CW-5585        TCGA-CW-5589        TCGA-CW-6087        TCGA-CZ-4854 
"SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" 
       TCGA-CZ-4857        TCGA-CZ-4858        TCGA-CZ-5453        TCGA-CZ-5454 
"SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" 
       TCGA-CZ-5455        TCGA-CZ-5457        TCGA-CZ-5459        TCGA-CZ-5462 
"SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" 
       TCGA-CZ-5463        TCGA-CZ-5466        TCGA-CZ-5467        TCGA-CZ-5469 
"SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" 
       TCGA-CZ-5470        TCGA-CZ-5989        TCGA-DV-5565        TCGA-DV-5566 
"SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" 
       TCGA-DV-5569        TCGA-EU-5904 
"SLC16A9 WILD-TYPE" "SLC16A9 WILD-TYPE" 

Clustering(23) Variable = PCK1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PCK1 MUTATED        1      0      0
  PCK1 WILD-TYPE     16     16     10
D23V1, multiclass
[1] "Remove cluster labels:" "PCK1 MUTATED"          
clus
  PCK1 MUTATED PCK1 WILD-TYPE 
             1             42 
    TCGA-A3-3311     TCGA-A3-3313     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-A3-3374     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-B2-3923     TCGA-B2-3924 
"PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" 
    TCGA-B2-4098     TCGA-B2-4099     TCGA-B8-4143     TCGA-B8-4148 
"PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" 
    TCGA-B8-4151     TCGA-B8-4154     TCGA-B8-4619     TCGA-B8-4620 
"PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" 
    TCGA-BP-4161     TCGA-BP-4162     TCGA-BP-4163     TCGA-BP-4164 
"PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" 
    TCGA-BP-4167     TCGA-CJ-4634     TCGA-CJ-4636     TCGA-CJ-4637 
"PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" 
    TCGA-CJ-4638     TCGA-CJ-4639     TCGA-CJ-4640     TCGA-CJ-4641 
"PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" 
    TCGA-CJ-4643     TCGA-CJ-4644 
"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      2      5      3     10     10      4      8
D23V2, multiclass
[1] "Remove cluster labels:" "PCK1 MUTATED"          
clus
  PCK1 MUTATED PCK1 WILD-TYPE 
             1             42 
    TCGA-A3-3311     TCGA-A3-3313     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-A3-3374     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-B2-3923     TCGA-B2-3924 
"PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" 
    TCGA-B2-4098     TCGA-B2-4099     TCGA-B8-4143     TCGA-B8-4148 
"PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" 
    TCGA-B8-4151     TCGA-B8-4154     TCGA-B8-4619     TCGA-B8-4620 
"PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" 
    TCGA-BP-4161     TCGA-BP-4162     TCGA-BP-4163     TCGA-BP-4164 
"PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" 
    TCGA-BP-4167     TCGA-CJ-4634     TCGA-CJ-4636     TCGA-CJ-4637 
"PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" 
    TCGA-CJ-4638     TCGA-CJ-4639     TCGA-CJ-4640     TCGA-CJ-4641 
"PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" 
    TCGA-CJ-4643     TCGA-CJ-4644 
"PCK1 WILD-TYPE" "PCK1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PCK1 MUTATED        0      1      1      0      1      1
  PCK1 WILD-TYPE     49     67    129     63     68     53
D23V3, multiclass
        clus
vv       PCK1 MUTATED PCK1 WILD-TYPE
  CLUS_1            0             49
  CLUS_2            1             67
  CLUS_3            1            129
  CLUS_4            0             63
  CLUS_5            1             68
  CLUS_6            1             53
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger 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      1      1
  PCK1 WILD-TYPE     57     59     82     63
D23V4, multiclass
[1] "Remove cluster labels:" "PCK1 MUTATED"          
clus
  PCK1 MUTATED PCK1 WILD-TYPE 
             2            261 
    TCGA-A3-3357     TCGA-A3-3358     TCGA-A3-3367     TCGA-A3-3370 
"PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" 
    TCGA-A3-3373     TCGA-A3-3376     TCGA-A3-3385     TCGA-A3-3387 
"PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" 
    TCGA-AK-3425     TCGA-AK-3428     TCGA-AK-3431     TCGA-AK-3434 
"PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" 
    TCGA-AK-3440     TCGA-AK-3445     TCGA-AK-3450     TCGA-AK-3453 
"PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" 
    TCGA-AK-3454     TCGA-AK-3458     TCGA-AK-3460     TCGA-AK-3461 
"PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" 
    TCGA-B0-4690     TCGA-B0-4691     TCGA-B0-4693     TCGA-B0-4694 
"PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" 
    TCGA-B0-4697     TCGA-B0-4700     TCGA-B0-4703     TCGA-B0-4706 
"PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" 
    TCGA-B0-4707     TCGA-B0-4710     TCGA-B0-4712     TCGA-B0-4713 
"PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" 
    TCGA-B0-4714     TCGA-B0-4718     TCGA-B0-4810     TCGA-B0-4811 
"PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" 
    TCGA-B0-4813     TCGA-B0-4814     TCGA-B0-4815     TCGA-B0-4816 
"PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" 
    TCGA-B0-4817     TCGA-B0-4818     TCGA-B0-4819     TCGA-B0-4822 
"PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" 
    TCGA-B0-4823     TCGA-B0-4824     TCGA-B0-4827     TCGA-B0-4828 
"PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" 
    TCGA-B0-4841     TCGA-B0-4842     TCGA-B0-4843     TCGA-B0-4844 
"PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" 
    TCGA-B0-4845     TCGA-B0-4846     TCGA-B0-4847     TCGA-B0-4848 
"PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" 
    TCGA-B0-4849     TCGA-B0-4852     TCGA-B0-4945     TCGA-B0-5080 
"PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" 
    TCGA-B0-5083     TCGA-B0-5092     TCGA-B0-5094     TCGA-B0-5095 
"PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" 
    TCGA-B0-5096     TCGA-B0-5097     TCGA-B0-5098     TCGA-B0-5099 
"PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" 
    TCGA-B0-5100     TCGA-B0-5102     TCGA-B0-5104     TCGA-B0-5106 
"PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" 
    TCGA-B0-5107     TCGA-B0-5108     TCGA-B0-5109     TCGA-B0-5110 
"PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" 
    TCGA-B0-5113     TCGA-B0-5115     TCGA-B0-5116     TCGA-B0-5117 
"PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" 
    TCGA-B0-5120     TCGA-B0-5121     TCGA-B0-5399     TCGA-B0-5400 
"PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" 
    TCGA-B0-5402     TCGA-B0-5691     TCGA-B0-5692     TCGA-B0-5693 
"PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" 
    TCGA-B0-5694     TCGA-B0-5695     TCGA-B0-5696     TCGA-B0-5697 
"PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" 
    TCGA-B0-5698     TCGA-B0-5699     TCGA-B0-5701     TCGA-B0-5702 
"PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" 
    TCGA-B0-5703     TCGA-B0-5705     TCGA-B0-5706     TCGA-B0-5707 
"PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" 
    TCGA-B0-5709     TCGA-B0-5710     TCGA-B0-5711     TCGA-B0-5712 
"PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" 
    TCGA-B0-5713     TCGA-B0-5812     TCGA-B2-3924     TCGA-B2-4101 
"PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" 
    TCGA-B2-5633     TCGA-B2-5635     TCGA-B2-5641     TCGA-B4-5377 
"PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" 
    TCGA-B4-5832     TCGA-B4-5834     TCGA-B4-5835     TCGA-B4-5836 
"PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" 
    TCGA-B4-5838     TCGA-B4-5843     TCGA-B4-5844     TCGA-B8-4146 
"PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" 
    TCGA-B8-4153     TCGA-B8-4621     TCGA-B8-4622     TCGA-B8-5158 
"PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" 
    TCGA-B8-5159     TCGA-B8-5162     TCGA-B8-5163     TCGA-B8-5164 
"PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" 
    TCGA-B8-5165     TCGA-B8-5545     TCGA-B8-5546     TCGA-B8-5549 
"PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" 
    TCGA-B8-5550     TCGA-B8-5551     TCGA-B8-5552     TCGA-B8-5553 
"PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" 
    TCGA-BP-4177     TCGA-BP-4760     TCGA-BP-4770     TCGA-BP-4782 
"PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" 
    TCGA-BP-4795     TCGA-BP-4801     TCGA-BP-4993     TCGA-BP-5010 
"PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" 
    TCGA-BP-5168     TCGA-BP-5169     TCGA-BP-5170     TCGA-BP-5173 
"PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" 
    TCGA-BP-5174     TCGA-BP-5175     TCGA-BP-5176     TCGA-BP-5177 
"PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" 
    TCGA-BP-5178     TCGA-BP-5180     TCGA-BP-5181     TCGA-BP-5182 
"PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" 
    TCGA-BP-5183     TCGA-BP-5184     TCGA-BP-5185     TCGA-BP-5186 
"PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" 
    TCGA-BP-5187     TCGA-BP-5189     TCGA-BP-5190     TCGA-BP-5191 
"PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" 
    TCGA-BP-5192     TCGA-BP-5194     TCGA-BP-5195     TCGA-BP-5196 
"PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" 
    TCGA-BP-5198     TCGA-BP-5199     TCGA-BP-5200     TCGA-BP-5201 
"PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" 
    TCGA-BP-5202     TCGA-CJ-4869     TCGA-CJ-4882     TCGA-CJ-4897 
"PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" 
    TCGA-CJ-4901     TCGA-CJ-4903     TCGA-CJ-4904     TCGA-CJ-4905 
"PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" 
    TCGA-CJ-4907     TCGA-CJ-4908     TCGA-CJ-4912     TCGA-CJ-4913 
"PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" 
    TCGA-CJ-4916     TCGA-CJ-4918     TCGA-CJ-4920     TCGA-CJ-4923 
"PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" 
    TCGA-CJ-5671     TCGA-CJ-5672     TCGA-CJ-5675     TCGA-CJ-5676 
"PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" 
    TCGA-CJ-5677     TCGA-CJ-5678     TCGA-CJ-5679     TCGA-CJ-5680 
"PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" 
    TCGA-CJ-5681     TCGA-CJ-5682     TCGA-CJ-5683     TCGA-CJ-5684 
"PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" 
    TCGA-CJ-5686     TCGA-CJ-6027     TCGA-CJ-6028     TCGA-CJ-6030 
"PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" 
    TCGA-CJ-6031     TCGA-CJ-6032     TCGA-CJ-6033     TCGA-CW-5580 
"PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" 
    TCGA-CW-5581     TCGA-CW-5583     TCGA-CW-5585     TCGA-CW-5588 
"PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" 
    TCGA-CW-5589     TCGA-CW-5591     TCGA-CW-6087     TCGA-CW-6090 
"PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" 
    TCGA-CW-6093     TCGA-CW-6097     TCGA-CZ-4853     TCGA-CZ-4856 
"PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" 
    TCGA-CZ-4859     TCGA-CZ-4863     TCGA-CZ-4865     TCGA-CZ-4866 
"PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" 
    TCGA-CZ-5451     TCGA-CZ-5452     TCGA-CZ-5453     TCGA-CZ-5454 
"PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" 
    TCGA-CZ-5455     TCGA-CZ-5456     TCGA-CZ-5457     TCGA-CZ-5458 
"PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" 
    TCGA-CZ-5459     TCGA-CZ-5460     TCGA-CZ-5461     TCGA-CZ-5462 
"PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" 
    TCGA-CZ-5463     TCGA-CZ-5465     TCGA-CZ-5466     TCGA-CZ-5467 
"PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" 
    TCGA-CZ-5468     TCGA-CZ-5469     TCGA-CZ-5470     TCGA-CZ-5982 
"PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" 
    TCGA-CZ-5984     TCGA-CZ-5985     TCGA-CZ-5986     TCGA-CZ-5987 
"PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" 
    TCGA-CZ-5988     TCGA-CZ-5989     TCGA-DV-5565     TCGA-DV-5566 
"PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" 
    TCGA-DV-5568     TCGA-DV-5569     TCGA-DV-5574     TCGA-DV-5575 
"PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" 
    TCGA-DV-5576     TCGA-EU-5904     TCGA-EU-5905     TCGA-EU-5906 
"PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" "PCK1 WILD-TYPE" 
    TCGA-EU-5907 
"PCK1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PCK1 MUTATED        2      1      0      0      0      0
  PCK1 WILD-TYPE     67     73     78     69     78     29
D23V5, multiclass
        clus
vv       PCK1 MUTATED PCK1 WILD-TYPE
  CLUS_1            2             67
  CLUS_2            1             73
  CLUS_3            0             78
  CLUS_4            0             69
  CLUS_5            0             78
  CLUS_6            0             29
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger 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        1      1      0      1
  PCK1 WILD-TYPE    108     94     72    120
D23V6, multiclass
        clus
vv       PCK1 MUTATED PCK1 WILD-TYPE
  CLUS_1            1            108
  CLUS_2            1             94
  CLUS_3            0             72
  CLUS_4            1            120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PCK1 MUTATED        0      3      1      0      0
  PCK1 WILD-TYPE     60    134     71    135     30
D23V7, multiclass
        clus
vv       PCK1 MUTATED PCK1 WILD-TYPE
  CLUS_1            0             60
  CLUS_2            3            134
  CLUS_3            1             71
  CLUS_4            0            135
  CLUS_5            0             30
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- 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      1      0      0
  PCK1 WILD-TYPE     99     25    147    114     30     15
D23V8, multiclass
        clus
vv       PCK1 MUTATED PCK1 WILD-TYPE
  CLUS_1            0             99
  CLUS_2            0             25
  CLUS_3            3            147
  CLUS_4            1            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 CLUS_4 CLUS_5
  PCK1 MUTATED        1      0      2      0      1
  PCK1 WILD-TYPE     70     49    157    104     43
D23V9, multiclass
        clus
vv       PCK1 MUTATED PCK1 WILD-TYPE
  CLUS_1            1             70
  CLUS_2            0             49
  CLUS_3            2            157
  CLUS_4            0            104
  CLUS_5            1             43
[1] 5 2
[1] TRUE
[1] "dimension of contingency table 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      0
  PCK1 WILD-TYPE    144    171    108
D23V10, multiclass
        clus
vv       PCK1 MUTATED PCK1 WILD-TYPE
  CLUS_1            2            144
  CLUS_2            2            171
  CLUS_3            0            108
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PCK1 MUTATED        0      0      0      0
  PCK1 WILD-TYPE     17     20     39     31
D23V11, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PCK1 MUTATED        0      0      0      0
  PCK1 WILD-TYPE     18     44     26     19
D23V12, multiclass

Clustering(24) Variable = CUL9 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CUL9 MUTATED        0      0      0
  CUL9 WILD-TYPE     17     16     10
D24V1, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  CUL9 MUTATED        0      0      0      0      0      0      0
  CUL9 WILD-TYPE      3      5      3     10     10      4      8
D24V2, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CUL9 MUTATED        0      2      2      1      1      1
  CUL9 WILD-TYPE     49     66    128     62     68     53
D24V3, multiclass
        clus
vv       CUL9 MUTATED CUL9 WILD-TYPE
  CLUS_1            0             49
  CLUS_2            2             66
  CLUS_3            2            128
  CLUS_4            1             62
  CLUS_5            1             68
  CLUS_6            1             53
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CUL9 MUTATED        0      1      1      4
  CUL9 WILD-TYPE     57     58     82     60
D24V4, multiclass
        clus
vv       CUL9 MUTATED CUL9 WILD-TYPE
  CLUS_1            0             57
  CLUS_2            1             58
  CLUS_3            1             82
  CLUS_4            4             60
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CUL9 MUTATED        2      1      1      0      2      0
  CUL9 WILD-TYPE     67     73     77     69     76     29
D24V5, multiclass
        clus
vv       CUL9 MUTATED CUL9 WILD-TYPE
  CLUS_1            2             67
  CLUS_2            1             73
  CLUS_3            1             77
  CLUS_4            0             69
  CLUS_5            2             76
  CLUS_6            0             29
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CUL9 MUTATED        2      0      2      2
  CUL9 WILD-TYPE    107     95     70    119
D24V6, multiclass
        clus
vv       CUL9 MUTATED CUL9 WILD-TYPE
  CLUS_1            2            107
  CLUS_2            0             95
  CLUS_3            2             70
  CLUS_4            2            119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CUL9 MUTATED        1      2      0      2      2
  CUL9 WILD-TYPE     59    135     72    133     28
D24V7, multiclass
        clus
vv       CUL9 MUTATED CUL9 WILD-TYPE
  CLUS_1            1             59
  CLUS_2            2            135
  CLUS_3            0             72
  CLUS_4            2            133
  CLUS_5            2             28
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CUL9 MUTATED        3      0      2      2      0      0
  CUL9 WILD-TYPE     96     25    148    113     30     15
D24V8, multiclass
        clus
vv       CUL9 MUTATED CUL9 WILD-TYPE
  CLUS_1            3             96
  CLUS_2            0             25
  CLUS_3            2            148
  CLUS_4            2            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 CLUS_4 CLUS_5
  CUL9 MUTATED        0      0      4      3      0
  CUL9 WILD-TYPE     71     49    155    101     44
D24V9, multiclass
        clus
vv       CUL9 MUTATED CUL9 WILD-TYPE
  CLUS_1            0             71
  CLUS_2            0             49
  CLUS_3            4            155
  CLUS_4            3            101
  CLUS_5            0             44
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CUL9 MUTATED        1      5      1
  CUL9 WILD-TYPE    145    168    107
D24V10, multiclass
        clus
vv       CUL9 MUTATED CUL9 WILD-TYPE
  CLUS_1            1            145
  CLUS_2            5            168
  CLUS_3            1            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
  CUL9 MUTATED        0      0      2      1
  CUL9 WILD-TYPE     17     20     37     30
D24V11, multiclass
        clus
vv       CUL9 MUTATED CUL9 WILD-TYPE
  CLUS_1            0             17
  CLUS_2            0             20
  CLUS_3            2             37
  CLUS_4            1             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
  CUL9 MUTATED        0      1      2      0
  CUL9 WILD-TYPE     18     43     24     19
D24V12, multiclass
        clus
vv       CUL9 MUTATED CUL9 WILD-TYPE
  CLUS_1            0             18
  CLUS_2            1             43
  CLUS_3            2             24
  CLUS_4            0             19
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(25) Variable = ZDHHC1 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZDHHC1 MUTATED        0      0      0
  ZDHHC1 WILD-TYPE     17     16     10
D25V1, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  ZDHHC1 MUTATED        0      0      0      0      0      0      0
  ZDHHC1 WILD-TYPE      3      5      3     10     10      4      8
D25V2, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ZDHHC1 MUTATED        2      1      1      0      0      0
  ZDHHC1 WILD-TYPE     47     67    129     63     69     54
D25V3, multiclass
        clus
vv       ZDHHC1 MUTATED ZDHHC1 WILD-TYPE
  CLUS_1              2               47
  CLUS_2              1               67
  CLUS_3              1              129
  CLUS_4              0               63
  CLUS_5              0               69
  CLUS_6              0               54
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZDHHC1 MUTATED        1      1      0      0
  ZDHHC1 WILD-TYPE     56     58     83     64
D25V4, multiclass
[1] "Remove cluster labels:" "ZDHHC1 MUTATED"        
clus
  ZDHHC1 MUTATED ZDHHC1 WILD-TYPE 
               2              261 
      TCGA-A3-3357       TCGA-A3-3358       TCGA-A3-3367       TCGA-A3-3370 
"ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" 
      TCGA-A3-3373       TCGA-A3-3376       TCGA-A3-3385       TCGA-A3-3387 
"ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" 
      TCGA-AK-3425       TCGA-AK-3428       TCGA-AK-3431       TCGA-AK-3434 
"ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" 
      TCGA-AK-3440       TCGA-AK-3445       TCGA-AK-3450       TCGA-AK-3453 
"ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" 
      TCGA-AK-3454       TCGA-AK-3458       TCGA-AK-3460       TCGA-AK-3461 
"ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" 
      TCGA-B0-4690       TCGA-B0-4691       TCGA-B0-4693       TCGA-B0-4694 
"ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" 
      TCGA-B0-4697       TCGA-B0-4700       TCGA-B0-4703       TCGA-B0-4706 
"ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" 
      TCGA-B0-4707       TCGA-B0-4710       TCGA-B0-4712       TCGA-B0-4713 
"ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" 
      TCGA-B0-4714       TCGA-B0-4718       TCGA-B0-4810       TCGA-B0-4811 
"ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" 
      TCGA-B0-4813       TCGA-B0-4814       TCGA-B0-4815       TCGA-B0-4816 
"ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" 
      TCGA-B0-4817       TCGA-B0-4818       TCGA-B0-4819       TCGA-B0-4822 
"ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" 
      TCGA-B0-4823       TCGA-B0-4824       TCGA-B0-4827       TCGA-B0-4828 
"ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" 
      TCGA-B0-4841       TCGA-B0-4842       TCGA-B0-4843       TCGA-B0-4844 
"ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" 
      TCGA-B0-4845       TCGA-B0-4846       TCGA-B0-4847       TCGA-B0-4848 
"ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" 
      TCGA-B0-4849       TCGA-B0-4852       TCGA-B0-4945       TCGA-B0-5080 
"ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" 
      TCGA-B0-5083       TCGA-B0-5092       TCGA-B0-5094       TCGA-B0-5095 
"ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" 
      TCGA-B0-5096       TCGA-B0-5097       TCGA-B0-5098       TCGA-B0-5099 
"ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" 
      TCGA-B0-5100       TCGA-B0-5102       TCGA-B0-5104       TCGA-B0-5106 
"ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" 
      TCGA-B0-5107       TCGA-B0-5108       TCGA-B0-5109       TCGA-B0-5110 
"ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" 
      TCGA-B0-5113       TCGA-B0-5115       TCGA-B0-5116       TCGA-B0-5117 
"ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" 
      TCGA-B0-5119       TCGA-B0-5120       TCGA-B0-5121       TCGA-B0-5399 
"ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" 
      TCGA-B0-5400       TCGA-B0-5402       TCGA-B0-5691       TCGA-B0-5692 
"ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" 
      TCGA-B0-5693       TCGA-B0-5694       TCGA-B0-5695       TCGA-B0-5696 
"ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" 
      TCGA-B0-5697       TCGA-B0-5698       TCGA-B0-5699       TCGA-B0-5701 
"ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" 
      TCGA-B0-5702       TCGA-B0-5703       TCGA-B0-5705       TCGA-B0-5706 
"ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" 
      TCGA-B0-5707       TCGA-B0-5709       TCGA-B0-5710       TCGA-B0-5711 
"ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" 
      TCGA-B0-5712       TCGA-B0-5713       TCGA-B0-5812       TCGA-B2-3924 
"ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" 
      TCGA-B2-4101       TCGA-B2-5633       TCGA-B2-5635       TCGA-B2-5641 
"ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" 
      TCGA-B4-5377       TCGA-B4-5832       TCGA-B4-5834       TCGA-B4-5835 
"ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" 
      TCGA-B4-5836       TCGA-B4-5838       TCGA-B4-5843       TCGA-B4-5844 
"ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" 
      TCGA-B8-4146       TCGA-B8-4153       TCGA-B8-4622       TCGA-B8-5158 
"ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" 
      TCGA-B8-5159       TCGA-B8-5162       TCGA-B8-5163       TCGA-B8-5164 
"ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" 
      TCGA-B8-5165       TCGA-B8-5545       TCGA-B8-5546       TCGA-B8-5549 
"ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" 
      TCGA-B8-5550       TCGA-B8-5551       TCGA-B8-5552       TCGA-B8-5553 
"ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" 
      TCGA-BP-4177       TCGA-BP-4760       TCGA-BP-4770       TCGA-BP-4782 
"ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" 
      TCGA-BP-4795       TCGA-BP-4801       TCGA-BP-4993       TCGA-BP-5010 
"ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" 
      TCGA-BP-5168       TCGA-BP-5169       TCGA-BP-5170       TCGA-BP-5173 
"ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" 
      TCGA-BP-5174       TCGA-BP-5175       TCGA-BP-5176       TCGA-BP-5177 
"ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" 
      TCGA-BP-5178       TCGA-BP-5180       TCGA-BP-5181       TCGA-BP-5182 
"ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" 
      TCGA-BP-5183       TCGA-BP-5184       TCGA-BP-5185       TCGA-BP-5186 
"ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" 
      TCGA-BP-5187       TCGA-BP-5189       TCGA-BP-5190       TCGA-BP-5191 
"ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" 
      TCGA-BP-5192       TCGA-BP-5194       TCGA-BP-5195       TCGA-BP-5196 
"ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" 
      TCGA-BP-5198       TCGA-BP-5199       TCGA-BP-5200       TCGA-BP-5201 
"ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" 
      TCGA-BP-5202       TCGA-CJ-4869       TCGA-CJ-4882       TCGA-CJ-4901 
"ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" 
      TCGA-CJ-4902       TCGA-CJ-4903       TCGA-CJ-4904       TCGA-CJ-4905 
"ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" 
      TCGA-CJ-4907       TCGA-CJ-4908       TCGA-CJ-4912       TCGA-CJ-4913 
"ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" 
      TCGA-CJ-4916       TCGA-CJ-4918       TCGA-CJ-4920       TCGA-CJ-4923 
"ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" 
      TCGA-CJ-5671       TCGA-CJ-5672       TCGA-CJ-5675       TCGA-CJ-5676 
"ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" 
      TCGA-CJ-5677       TCGA-CJ-5678       TCGA-CJ-5679       TCGA-CJ-5680 
"ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" 
      TCGA-CJ-5681       TCGA-CJ-5682       TCGA-CJ-5683       TCGA-CJ-5684 
"ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" 
      TCGA-CJ-5686       TCGA-CJ-6027       TCGA-CJ-6028       TCGA-CJ-6030 
"ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" 
      TCGA-CJ-6031       TCGA-CJ-6032       TCGA-CJ-6033       TCGA-CW-5580 
"ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" 
      TCGA-CW-5581       TCGA-CW-5583       TCGA-CW-5585       TCGA-CW-5588 
"ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" 
      TCGA-CW-5589       TCGA-CW-5591       TCGA-CW-6087       TCGA-CW-6090 
"ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" 
      TCGA-CW-6093       TCGA-CW-6097       TCGA-CZ-4853       TCGA-CZ-4856 
"ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" 
      TCGA-CZ-4859       TCGA-CZ-4863       TCGA-CZ-4865       TCGA-CZ-4866 
"ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" 
      TCGA-CZ-5451       TCGA-CZ-5452       TCGA-CZ-5453       TCGA-CZ-5454 
"ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" 
      TCGA-CZ-5455       TCGA-CZ-5456       TCGA-CZ-5457       TCGA-CZ-5458 
"ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" 
      TCGA-CZ-5459       TCGA-CZ-5460       TCGA-CZ-5461       TCGA-CZ-5462 
"ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" 
      TCGA-CZ-5463       TCGA-CZ-5465       TCGA-CZ-5466       TCGA-CZ-5467 
"ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" 
      TCGA-CZ-5468       TCGA-CZ-5469       TCGA-CZ-5470       TCGA-CZ-5982 
"ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" 
      TCGA-CZ-5984       TCGA-CZ-5985       TCGA-CZ-5986       TCGA-CZ-5987 
"ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" 
      TCGA-CZ-5988       TCGA-CZ-5989       TCGA-DV-5565       TCGA-DV-5566 
"ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" 
      TCGA-DV-5568       TCGA-DV-5569       TCGA-DV-5574       TCGA-DV-5575 
"ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" 
      TCGA-DV-5576       TCGA-EU-5904       TCGA-EU-5905       TCGA-EU-5906 
"ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" 
      TCGA-EU-5907 
"ZDHHC1 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ZDHHC1 MUTATED        2      1      0      1      0      0
  ZDHHC1 WILD-TYPE     67     73     78     68     78     29
D25V5, multiclass
        clus
vv       ZDHHC1 MUTATED ZDHHC1 WILD-TYPE
  CLUS_1              2               67
  CLUS_2              1               73
  CLUS_3              0               78
  CLUS_4              1               68
  CLUS_5              0               78
  CLUS_6              0               29
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZDHHC1 MUTATED        0      0      1      3
  ZDHHC1 WILD-TYPE    109     95     71    118
D25V6, multiclass
        clus
vv       ZDHHC1 MUTATED ZDHHC1 WILD-TYPE
  CLUS_1              0              109
  CLUS_2              0               95
  CLUS_3              1               71
  CLUS_4              3              118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZDHHC1 MUTATED        1      2      0      1      0
  ZDHHC1 WILD-TYPE     59    135     72    134     30
D25V7, multiclass
        clus
vv       ZDHHC1 MUTATED ZDHHC1 WILD-TYPE
  CLUS_1              1               59
  CLUS_2              2              135
  CLUS_3              0               72
  CLUS_4              1              134
  CLUS_5              0               30
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ZDHHC1 MUTATED        0      1      3      0      0      0
  ZDHHC1 WILD-TYPE     99     24    147    115     30     15
D25V8, multiclass
        clus
vv       ZDHHC1 MUTATED ZDHHC1 WILD-TYPE
  CLUS_1              0               99
  CLUS_2              1               24
  CLUS_3              3              147
  CLUS_4              0              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 CLUS_4 CLUS_5
  ZDHHC1 MUTATED        0      1      1      2      0
  ZDHHC1 WILD-TYPE     71     48    158    102     44
D25V9, multiclass
        clus
vv       ZDHHC1 MUTATED ZDHHC1 WILD-TYPE
  CLUS_1              0               71
  CLUS_2              1               48
  CLUS_3              1              158
  CLUS_4              2              102
  CLUS_5              0               44
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZDHHC1 MUTATED        0      3      1
  ZDHHC1 WILD-TYPE    146    170    107
D25V10, multiclass
        clus
vv       ZDHHC1 MUTATED ZDHHC1 WILD-TYPE
  CLUS_1              0              146
  CLUS_2              3              170
  CLUS_3              1              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
  ZDHHC1 MUTATED        0      0      0      2
  ZDHHC1 WILD-TYPE     17     20     39     29
D25V11, multiclass
[1] "Remove cluster labels:" "ZDHHC1 MUTATED"        
clus
  ZDHHC1 MUTATED ZDHHC1 WILD-TYPE 
               2              105 
      TCGA-A3-3317       TCGA-A3-3358       TCGA-A3-3387       TCGA-AK-3440 
"ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" 
      TCGA-AK-3458       TCGA-AK-3465       TCGA-B0-4700       TCGA-B0-4706 
"ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" 
      TCGA-B0-4710       TCGA-B0-4712       TCGA-B0-4810       TCGA-B0-4811 
"ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" 
      TCGA-B0-4836       TCGA-B0-4837       TCGA-B0-4852       TCGA-B0-5080 
"ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" 
      TCGA-B0-5085       TCGA-B0-5088       TCGA-B0-5399       TCGA-B0-5691 
"ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" 
      TCGA-B0-5692       TCGA-B0-5693       TCGA-B0-5694       TCGA-B0-5695 
"ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" 
      TCGA-B0-5696       TCGA-B0-5699       TCGA-B0-5702       TCGA-B0-5705 
"ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" 
      TCGA-B0-5709       TCGA-B2-3923       TCGA-B2-3924       TCGA-B2-5633 
"ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" 
      TCGA-B2-5635       TCGA-B4-5377       TCGA-B4-5836       TCGA-B8-5545 
"ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" 
      TCGA-B8-5550       TCGA-B8-5551       TCGA-B8-5552       TCGA-B8-5553 
"ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" 
      TCGA-BP-4173       TCGA-BP-4340       TCGA-BP-4761       TCGA-BP-4770 
"ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" 
      TCGA-BP-4787       TCGA-BP-4789       TCGA-BP-4790       TCGA-BP-4804 
"ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" 
      TCGA-BP-4807       TCGA-BP-4961       TCGA-BP-4967       TCGA-BP-4968 
"ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" 
      TCGA-BP-4970       TCGA-BP-4974       TCGA-BP-4976       TCGA-BP-4981 
"ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" 
      TCGA-BP-4982       TCGA-BP-4985       TCGA-BP-4988       TCGA-BP-4989 
"ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" 
      TCGA-BP-4992       TCGA-BP-4995       TCGA-BP-4998       TCGA-BP-5001 
"ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" 
      TCGA-BP-5008       TCGA-BP-5009       TCGA-CJ-4870       TCGA-CJ-4875 
"ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" 
      TCGA-CJ-4878       TCGA-CJ-4881       TCGA-CJ-4887       TCGA-CJ-4889 
"ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" 
      TCGA-CJ-4890       TCGA-CJ-4895       TCGA-CJ-4900       TCGA-CJ-5671 
"ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" 
      TCGA-CJ-5675       TCGA-CJ-5676       TCGA-CJ-5681       TCGA-CJ-5683 
"ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" 
      TCGA-CJ-5686       TCGA-CJ-6031       TCGA-CJ-6032       TCGA-CW-5585 
"ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" 
      TCGA-CW-5589       TCGA-CW-6087       TCGA-CZ-4854       TCGA-CZ-4857 
"ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" 
      TCGA-CZ-4858       TCGA-CZ-5453       TCGA-CZ-5454       TCGA-CZ-5455 
"ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" 
      TCGA-CZ-5457       TCGA-CZ-5459       TCGA-CZ-5462       TCGA-CZ-5463 
"ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" 
      TCGA-CZ-5466       TCGA-CZ-5467       TCGA-CZ-5469       TCGA-CZ-5470 
"ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" 
      TCGA-CZ-5989       TCGA-DV-5565       TCGA-DV-5566       TCGA-DV-5569 
"ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" 
      TCGA-EU-5904 
"ZDHHC1 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZDHHC1 MUTATED        0      0      2      0
  ZDHHC1 WILD-TYPE     18     44     24     19
D25V12, multiclass
[1] "Remove cluster labels:" "ZDHHC1 MUTATED"        
clus
  ZDHHC1 MUTATED ZDHHC1 WILD-TYPE 
               2              105 
      TCGA-A3-3317       TCGA-A3-3358       TCGA-A3-3387       TCGA-AK-3440 
"ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" 
      TCGA-AK-3458       TCGA-AK-3465       TCGA-B0-4700       TCGA-B0-4706 
"ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" 
      TCGA-B0-4710       TCGA-B0-4712       TCGA-B0-4810       TCGA-B0-4811 
"ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" 
      TCGA-B0-4836       TCGA-B0-4837       TCGA-B0-4852       TCGA-B0-5080 
"ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" 
      TCGA-B0-5085       TCGA-B0-5088       TCGA-B0-5399       TCGA-B0-5691 
"ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" 
      TCGA-B0-5692       TCGA-B0-5693       TCGA-B0-5694       TCGA-B0-5695 
"ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" 
      TCGA-B0-5696       TCGA-B0-5699       TCGA-B0-5702       TCGA-B0-5705 
"ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" 
      TCGA-B0-5709       TCGA-B2-3923       TCGA-B2-3924       TCGA-B2-5633 
"ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" 
      TCGA-B2-5635       TCGA-B4-5377       TCGA-B4-5836       TCGA-B8-5545 
"ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" 
      TCGA-B8-5550       TCGA-B8-5551       TCGA-B8-5552       TCGA-B8-5553 
"ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" 
      TCGA-BP-4173       TCGA-BP-4340       TCGA-BP-4761       TCGA-BP-4770 
"ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" 
      TCGA-BP-4787       TCGA-BP-4789       TCGA-BP-4790       TCGA-BP-4804 
"ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" 
      TCGA-BP-4807       TCGA-BP-4961       TCGA-BP-4967       TCGA-BP-4968 
"ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" 
      TCGA-BP-4970       TCGA-BP-4974       TCGA-BP-4976       TCGA-BP-4981 
"ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" 
      TCGA-BP-4982       TCGA-BP-4985       TCGA-BP-4988       TCGA-BP-4989 
"ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" 
      TCGA-BP-4992       TCGA-BP-4995       TCGA-BP-4998       TCGA-BP-5001 
"ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" 
      TCGA-BP-5008       TCGA-BP-5009       TCGA-CJ-4870       TCGA-CJ-4875 
"ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" 
      TCGA-CJ-4878       TCGA-CJ-4881       TCGA-CJ-4887       TCGA-CJ-4889 
"ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" 
      TCGA-CJ-4890       TCGA-CJ-4895       TCGA-CJ-4900       TCGA-CJ-5671 
"ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" 
      TCGA-CJ-5675       TCGA-CJ-5676       TCGA-CJ-5681       TCGA-CJ-5683 
"ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" 
      TCGA-CJ-5686       TCGA-CJ-6031       TCGA-CJ-6032       TCGA-CW-5585 
"ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" 
      TCGA-CW-5589       TCGA-CW-6087       TCGA-CZ-4854       TCGA-CZ-4857 
"ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" 
      TCGA-CZ-4858       TCGA-CZ-5453       TCGA-CZ-5454       TCGA-CZ-5455 
"ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" 
      TCGA-CZ-5457       TCGA-CZ-5459       TCGA-CZ-5462       TCGA-CZ-5463 
"ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" 
      TCGA-CZ-5466       TCGA-CZ-5467       TCGA-CZ-5469       TCGA-CZ-5470 
"ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" 
      TCGA-CZ-5989       TCGA-DV-5565       TCGA-DV-5566       TCGA-DV-5569 
"ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" "ZDHHC1 WILD-TYPE" 
      TCGA-EU-5904 
"ZDHHC1 WILD-TYPE" 
