[1] "ofn"        "-oTTHYM-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/THYM-TP/22541006/THYM-TP.transferedmergedcluster.txt"
[1] "dfn:"
[1] "/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_Correlate_Genomic_Events_Preprocess/THYM-TP/22516316/transformed.cor.cli.txt"

nPatients in clinical file=124, in cluster file=123, common to both=123
[1] "Reduce the number of clustering variables from 82 to 51."
[1]  51 123
[1] "1P GAIN MUTATION ANALYSIS"
[1] 3
  1P GAIN MUTATED 1P GAIN WILD-TYPE 
                6               117 
  1P GAIN MUTATED 1P GAIN WILD-TYPE 
                6               117 
[1] "1Q GAIN MUTATION ANALYSIS"
[1] 3
  1Q GAIN MUTATED 1Q GAIN WILD-TYPE 
               23               100 
  1Q GAIN MUTATED 1Q GAIN WILD-TYPE 
               23               100 
[1] "3Q GAIN MUTATION ANALYSIS"
[1] 3
  3Q GAIN MUTATED 3Q GAIN WILD-TYPE 
                5               118 
  3Q GAIN MUTATED 3Q GAIN WILD-TYPE 
                5               118 
[1] "5P GAIN MUTATION ANALYSIS"
[1] 3
  5P GAIN MUTATED 5P GAIN WILD-TYPE 
               11               112 
  5P GAIN MUTATED 5P GAIN WILD-TYPE 
               11               112 
[1] "5Q GAIN MUTATION ANALYSIS"
[1] 3
  5Q GAIN MUTATED 5Q GAIN WILD-TYPE 
                9               114 
  5Q GAIN MUTATED 5Q GAIN WILD-TYPE 
                9               114 
[1] "7P GAIN MUTATION ANALYSIS"
[1] 3
  7P GAIN MUTATED 7P GAIN WILD-TYPE 
               16               107 
  7P GAIN MUTATED 7P GAIN WILD-TYPE 
               16               107 
[1] "7Q GAIN MUTATION ANALYSIS"
[1] 3
  7Q GAIN MUTATED 7Q GAIN WILD-TYPE 
               16               107 
  7Q GAIN MUTATED 7Q GAIN WILD-TYPE 
               16               107 
[1] "8P GAIN MUTATION ANALYSIS"
[1] 3
  8P GAIN MUTATED 8P GAIN WILD-TYPE 
               12               111 
  8P GAIN MUTATED 8P GAIN WILD-TYPE 
               12               111 
[1] "8Q GAIN MUTATION ANALYSIS"
[1] 3
  8Q GAIN MUTATED 8Q GAIN WILD-TYPE 
               12               111 
  8Q GAIN MUTATED 8Q GAIN WILD-TYPE 
               12               111 
[1] "9P GAIN MUTATION ANALYSIS"
[1] 3
  9P GAIN MUTATED 9P GAIN WILD-TYPE 
               11               112 
  9P GAIN MUTATED 9P GAIN WILD-TYPE 
               11               112 
[1] "9Q GAIN MUTATION ANALYSIS"
[1] 3
  9Q GAIN MUTATED 9Q GAIN WILD-TYPE 
               11               112 
  9Q GAIN MUTATED 9Q GAIN WILD-TYPE 
               11               112 
[1] "12P GAIN MUTATION ANALYSIS"
[1] 3
  12P GAIN MUTATED 12P GAIN WILD-TYPE 
                 4                119 
  12P GAIN MUTATED 12P GAIN WILD-TYPE 
                 4                119 
[1] "12Q GAIN MUTATION ANALYSIS"
[1] 3
  12Q GAIN MUTATED 12Q GAIN WILD-TYPE 
                 4                119 
  12Q GAIN MUTATED 12Q GAIN WILD-TYPE 
                 4                119 
[1] "14Q GAIN MUTATION ANALYSIS"
[1] 3
  14Q GAIN MUTATED 14Q GAIN WILD-TYPE 
                13                110 
  14Q GAIN MUTATED 14Q GAIN WILD-TYPE 
                13                110 
[1] "15Q GAIN MUTATION ANALYSIS"
[1] 3
  15Q GAIN MUTATED 15Q GAIN WILD-TYPE 
                12                111 
  15Q GAIN MUTATED 15Q GAIN WILD-TYPE 
                12                111 
[1] "17Q GAIN MUTATION ANALYSIS"
[1] 3
  17Q GAIN MUTATED 17Q GAIN WILD-TYPE 
                 7                116 
  17Q GAIN MUTATED 17Q GAIN WILD-TYPE 
                 7                116 
[1] "18P GAIN MUTATION ANALYSIS"
[1] 3
  18P GAIN MUTATED 18P GAIN WILD-TYPE 
                 3                120 
  18P GAIN MUTATED 18P GAIN WILD-TYPE 
                 3                120 
[1] "18Q GAIN MUTATION ANALYSIS"
[1] 3
  18Q GAIN MUTATED 18Q GAIN WILD-TYPE 
                 3                120 
  18Q GAIN MUTATED 18Q GAIN WILD-TYPE 
                 3                120 
[1] "19P GAIN MUTATION ANALYSIS"
[1] 3
  19P GAIN MUTATED 19P GAIN WILD-TYPE 
                 3                120 
  19P GAIN MUTATED 19P GAIN WILD-TYPE 
                 3                120 
[1] "19Q GAIN MUTATION ANALYSIS"
[1] 3
  19Q GAIN MUTATED 19Q GAIN WILD-TYPE 
                 3                120 
  19Q GAIN MUTATED 19Q GAIN WILD-TYPE 
                 3                120 
[1] "20P GAIN MUTATION ANALYSIS"
[1] 3
  20P GAIN MUTATED 20P GAIN WILD-TYPE 
                10                113 
  20P GAIN MUTATED 20P GAIN WILD-TYPE 
                10                113 
[1] "20Q GAIN MUTATION ANALYSIS"
[1] 3
  20Q GAIN MUTATED 20Q GAIN WILD-TYPE 
                10                113 
  20Q GAIN MUTATED 20Q GAIN WILD-TYPE 
                10                113 
[1] "21Q GAIN MUTATION ANALYSIS"
[1] 3
  21Q GAIN MUTATED 21Q GAIN WILD-TYPE 
                 3                120 
  21Q GAIN MUTATED 21Q GAIN WILD-TYPE 
                 3                120 
[1] "22Q GAIN MUTATION ANALYSIS"
[1] 3
  22Q GAIN MUTATED 22Q GAIN WILD-TYPE 
                 4                119 
  22Q GAIN MUTATED 22Q GAIN WILD-TYPE 
                 4                119 
[1] "XQ GAIN MUTATION ANALYSIS"
[1] 3
  XQ GAIN MUTATED XQ GAIN WILD-TYPE 
                4               119 
  XQ GAIN MUTATED XQ GAIN WILD-TYPE 
                4               119 
[1] "1P LOSS MUTATION ANALYSIS"
[1] 3
  1P LOSS MUTATED 1P LOSS WILD-TYPE 
                5               118 
  1P LOSS MUTATED 1P LOSS WILD-TYPE 
                5               118 
[1] "3P LOSS MUTATION ANALYSIS"
[1] 3
  3P LOSS MUTATED 3P LOSS WILD-TYPE 
               12               111 
  3P LOSS MUTATED 3P LOSS WILD-TYPE 
               12               111 
[1] "3Q LOSS MUTATION ANALYSIS"
[1] 3
  3Q LOSS MUTATED 3Q LOSS WILD-TYPE 
                7               116 
  3Q LOSS MUTATED 3Q LOSS WILD-TYPE 
                7               116 
[1] "4P LOSS MUTATION ANALYSIS"
[1] 3
  4P LOSS MUTATED 4P LOSS WILD-TYPE 
                5               118 
  4P LOSS MUTATED 4P LOSS WILD-TYPE 
                5               118 
[1] "4Q LOSS MUTATION ANALYSIS"
[1] 3
  4Q LOSS MUTATED 4Q LOSS WILD-TYPE 
                4               119 
  4Q LOSS MUTATED 4Q LOSS WILD-TYPE 
                4               119 
[1] "6P LOSS MUTATION ANALYSIS"
[1] 3
  6P LOSS MUTATED 6P LOSS WILD-TYPE 
               21               102 
  6P LOSS MUTATED 6P LOSS WILD-TYPE 
               21               102 
[1] "6Q LOSS MUTATION ANALYSIS"
[1] 3
  6Q LOSS MUTATED 6Q LOSS WILD-TYPE 
               20               103 
  6Q LOSS MUTATED 6Q LOSS WILD-TYPE 
               20               103 
[1] "9P LOSS MUTATION ANALYSIS"
[1] 3
  9P LOSS MUTATED 9P LOSS WILD-TYPE 
                4               119 
  9P LOSS MUTATED 9P LOSS WILD-TYPE 
                4               119 
[1] "10P LOSS MUTATION ANALYSIS"
[1] 3
  10P LOSS MUTATED 10P LOSS WILD-TYPE 
                 3                120 
  10P LOSS MUTATED 10P LOSS WILD-TYPE 
                 3                120 
[1] "11P LOSS MUTATION ANALYSIS"
[1] 3
  11P LOSS MUTATED 11P LOSS WILD-TYPE 
                 9                114 
  11P LOSS MUTATED 11P LOSS WILD-TYPE 
                 9                114 
[1] "11Q LOSS MUTATION ANALYSIS"
[1] 3
  11Q LOSS MUTATED 11Q LOSS WILD-TYPE 
                 7                116 
  11Q LOSS MUTATED 11Q LOSS WILD-TYPE 
                 7                116 
[1] "12P LOSS MUTATION ANALYSIS"
[1] 3
  12P LOSS MUTATED 12P LOSS WILD-TYPE 
                 8                115 
  12P LOSS MUTATED 12P LOSS WILD-TYPE 
                 8                115 
[1] "12Q LOSS MUTATION ANALYSIS"
[1] 3
  12Q LOSS MUTATED 12Q LOSS WILD-TYPE 
                 7                116 
  12Q LOSS MUTATED 12Q LOSS WILD-TYPE 
                 7                116 
[1] "13Q LOSS MUTATION ANALYSIS"
[1] 3
  13Q LOSS MUTATED 13Q LOSS WILD-TYPE 
                14                109 
  13Q LOSS MUTATED 13Q LOSS WILD-TYPE 
                14                109 
[1] "16P LOSS MUTATION ANALYSIS"
[1] 3
  16P LOSS MUTATED 16P LOSS WILD-TYPE 
                 5                118 
  16P LOSS MUTATED 16P LOSS WILD-TYPE 
                 5                118 
[1] "16Q LOSS MUTATION ANALYSIS"
[1] 3
  16Q LOSS MUTATED 16Q LOSS WILD-TYPE 
                13                110 
  16Q LOSS MUTATED 16Q LOSS WILD-TYPE 
                13                110 
[1] "17P LOSS MUTATION ANALYSIS"
[1] 3
  17P LOSS MUTATED 17P LOSS WILD-TYPE 
                14                109 
  17P LOSS MUTATED 17P LOSS WILD-TYPE 
                14                109 
[1] "17Q LOSS MUTATION ANALYSIS"
[1] 3
  17Q LOSS MUTATED 17Q LOSS WILD-TYPE 
                 6                117 
  17Q LOSS MUTATED 17Q LOSS WILD-TYPE 
                 6                117 
[1] "18P LOSS MUTATION ANALYSIS"
[1] 3
  18P LOSS MUTATED 18P LOSS WILD-TYPE 
                 7                116 
  18P LOSS MUTATED 18P LOSS WILD-TYPE 
                 7                116 
[1] "18Q LOSS MUTATION ANALYSIS"
[1] 3
  18Q LOSS MUTATED 18Q LOSS WILD-TYPE 
                 7                116 
  18Q LOSS MUTATED 18Q LOSS WILD-TYPE 
                 7                116 
[1] "19P LOSS MUTATION ANALYSIS"
[1] 3
  19P LOSS MUTATED 19P LOSS WILD-TYPE 
                 3                120 
  19P LOSS MUTATED 19P LOSS WILD-TYPE 
                 3                120 
[1] "19Q LOSS MUTATION ANALYSIS"
[1] 3
  19Q LOSS MUTATED 19Q LOSS WILD-TYPE 
                 3                120 
  19Q LOSS MUTATED 19Q LOSS WILD-TYPE 
                 3                120 
[1] "21Q LOSS MUTATION ANALYSIS"
[1] 3
  21Q LOSS MUTATED 21Q LOSS WILD-TYPE 
                 9                114 
  21Q LOSS MUTATED 21Q LOSS WILD-TYPE 
                 9                114 
[1] "22Q LOSS MUTATION ANALYSIS"
[1] 3
  22Q LOSS MUTATED 22Q LOSS WILD-TYPE 
                13                110 
  22Q LOSS MUTATED 22Q LOSS WILD-TYPE 
                13                110 
[1] "XP LOSS MUTATION ANALYSIS"
[1] 3
  XP LOSS MUTATED XP LOSS WILD-TYPE 
                8               115 
  XP LOSS MUTATED XP LOSS WILD-TYPE 
                8               115 
[1] "XQ LOSS MUTATION ANALYSIS"
[1] 3
  XQ LOSS MUTATED XQ LOSS WILD-TYPE 
                5               118 
  XQ LOSS MUTATED XQ LOSS WILD-TYPE 
                5               118 
[1] "data2feature, selection=ALL"
 [1] "CN_CNMF"                     "METHLYATION_CNMF"           
 [3] "RPPA_CNMF"                   "RPPA_CHIERARCHICAL"         
 [5] "MRNASEQ_CNMF"                "MRNASEQ_CHIERARCHICAL"      
 [7] "MIRSEQ_CNMF"                 "MIRSEQ_CHIERARCHICAL"       
 [9] "MIRSEQ_MATURE_CNMF"          "MIRSEQ_MATURE_CHIERARCHICAL"

Input Data has 10 rows and 123 columns.

Variable 1:'CN_CNMF':	nDistinctValues=5,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 2:'METHLYATION_CNMF':	nDistinctValues=8,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 3:'RPPA_CNMF':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 4:'RPPA_CHIERARCHICAL':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 5:'MRNASEQ_CNMF':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 6:'MRNASEQ_CHIERARCHICAL':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 7:'MIRSEQ_CNMF':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 8:'MIRSEQ_CHIERARCHICAL':	nDistinctValues=6,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 9:'MIRSEQ_MATURE_CNMF':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 10:'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 123 columns, 0 survival variables, and 10 non-survival variables.
[1] "* survival variables: "
NULL
[1] "* non-survival variables: "
 [1] "CN_CNMF"                     "METHLYATION_CNMF"           
 [3] "RPPA_CNMF"                   "RPPA_CHIERARCHICAL"         
 [5] "MRNASEQ_CNMF"                "MRNASEQ_CHIERARCHICAL"      
 [7] "MIRSEQ_CNMF"                 "MIRSEQ_CHIERARCHICAL"       
 [9] "MIRSEQ_MATURE_CNMF"          "MIRSEQ_MATURE_CHIERARCHICAL"
CN_CNMF, nv=5, binary=FALSE, numeric=FALSE
METHLYATION_CNMF, nv=8, binary=FALSE, numeric=FALSE
RPPA_CNMF, nv=3, binary=FALSE, numeric=FALSE
RPPA_CHIERARCHICAL, nv=4, binary=FALSE, numeric=FALSE
MRNASEQ_CNMF, nv=4, binary=FALSE, numeric=FALSE
MRNASEQ_CHIERARCHICAL, nv=4, binary=FALSE, numeric=FALSE
MIRSEQ_CNMF, nv=4, binary=FALSE, numeric=FALSE
MIRSEQ_CHIERARCHICAL, nv=6, 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 = 1P GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  1P GAIN MUTATED        2      0      4      0      0
  1P GAIN WILD-TYPE     34     27     15     31     10
D1V1, multiclass
        clus
vv       1P GAIN MUTATED 1P GAIN WILD-TYPE
  CLUS_1               2                34
  CLUS_2               0                27
  CLUS_3               4                15
  CLUS_4               0                31
  CLUS_5               0                10
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  1P GAIN MUTATED        0      0      4      2      0      0      0      0
  1P GAIN WILD-TYPE     37     23     15      8     18      8      2      6
D1V2, multiclass
        clus
vv       1P GAIN MUTATED 1P GAIN WILD-TYPE
  CLUS_1               0                37
  CLUS_2               0                23
  CLUS_3               4                15
  CLUS_4               2                 8
  CLUS_5               0                18
  CLUS_6               0                 8
  CLUS_7               0                 2
  CLUS_8               0                 6
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  1P GAIN MUTATED        4      0      1
  1P GAIN WILD-TYPE     27     25     33
D1V3, multiclass
        clus
vv       1P GAIN MUTATED 1P GAIN WILD-TYPE
  CLUS_1               4                27
  CLUS_2               0                25
  CLUS_3               1                33
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  1P GAIN MUTATED        0      0      2      3
  1P GAIN WILD-TYPE     16     23     29     17
D1V4, multiclass
        clus
vv       1P GAIN MUTATED 1P GAIN WILD-TYPE
  CLUS_1               0                16
  CLUS_2               0                23
  CLUS_3               2                29
  CLUS_4               3                17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  1P GAIN MUTATED        4      0      0      2
  1P GAIN WILD-TYPE     41     30     30     12
D1V5, multiclass
        clus
vv       1P GAIN MUTATED 1P GAIN WILD-TYPE
  CLUS_1               4                41
  CLUS_2               0                30
  CLUS_3               0                30
  CLUS_4               2                12
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  1P GAIN MUTATED        4      0      0      2
  1P GAIN WILD-TYPE     43     42     20      8
D1V6, multiclass
        clus
vv       1P GAIN MUTATED 1P GAIN WILD-TYPE
  CLUS_1               4                43
  CLUS_2               0                42
  CLUS_3               0                20
  CLUS_4               2                 8
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  1P GAIN MUTATED        5      0      1      0
  1P GAIN WILD-TYPE     51     61      4      1
D1V7, multiclass
        clus
vv       1P GAIN MUTATED 1P GAIN WILD-TYPE
  CLUS_1               5                51
  CLUS_2               0                61
  CLUS_3               1                 4
  CLUS_4               0                 1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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
  1P GAIN MUTATED        2      0      3      1      0      0
  1P GAIN WILD-TYPE     25     18     25      6     16     27
D1V8, multiclass
        clus
vv       1P GAIN MUTATED 1P GAIN WILD-TYPE
  CLUS_1               2                25
  CLUS_2               0                18
  CLUS_3               3                25
  CLUS_4               1                 6
  CLUS_5               0                16
  CLUS_6               0                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
  1P GAIN MUTATED        0      0      6      0
  1P GAIN WILD-TYPE     28     51     37      1
D1V9, multiclass
        clus
vv       1P GAIN MUTATED 1P GAIN WILD-TYPE
  CLUS_1               0                28
  CLUS_2               0                51
  CLUS_3               6                37
  CLUS_4               0                 1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  1P GAIN MUTATED        2      0      4      0
  1P GAIN WILD-TYPE     25     33     31     28
D1V10, multiclass
        clus
vv       1P GAIN MUTATED 1P GAIN WILD-TYPE
  CLUS_1               2                25
  CLUS_2               0                33
  CLUS_3               4                31
  CLUS_4               0                28
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(2) Variable = 1Q GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  1Q GAIN MUTATED       12      0      6      2      3
  1Q GAIN WILD-TYPE     24     27     13     29      7
D2V1, multiclass
        clus
vv       1Q GAIN MUTATED 1Q GAIN WILD-TYPE
  CLUS_1              12                24
  CLUS_2               0                27
  CLUS_3               6                13
  CLUS_4               2                29
  CLUS_5               3                 7
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  1Q GAIN MUTATED        1      0     14      8      0      0      0      0
  1Q GAIN WILD-TYPE     36     23      5      2     18      8      2      6
D2V2, multiclass
        clus
vv       1Q GAIN MUTATED 1Q GAIN WILD-TYPE
  CLUS_1               1                36
  CLUS_2               0                23
  CLUS_3              14                 5
  CLUS_4               8                 2
  CLUS_5               0                18
  CLUS_6               0                 8
  CLUS_7               0                 2
  CLUS_8               0                 6
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  1Q GAIN MUTATED       13      1      3
  1Q GAIN WILD-TYPE     18     24     31
D2V3, multiclass
        clus
vv       1Q GAIN MUTATED 1Q GAIN WILD-TYPE
  CLUS_1              13                18
  CLUS_2               1                24
  CLUS_3               3                31
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  1Q GAIN MUTATED        0      0      4     13
  1Q GAIN WILD-TYPE     16     23     27      7
D2V4, multiclass
        clus
vv       1Q GAIN MUTATED 1Q GAIN WILD-TYPE
  CLUS_1               0                16
  CLUS_2               0                23
  CLUS_3               4                27
  CLUS_4              13                 7
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  1Q GAIN MUTATED       15      0      0      8
  1Q GAIN WILD-TYPE     30     30     30      6
D2V5, multiclass
        clus
vv       1Q GAIN MUTATED 1Q GAIN WILD-TYPE
  CLUS_1              15                30
  CLUS_2               0                30
  CLUS_3               0                30
  CLUS_4               8                 6
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  1Q GAIN MUTATED       16      0      0      7
  1Q GAIN WILD-TYPE     31     42     20      3
D2V6, multiclass
        clus
vv       1Q GAIN MUTATED 1Q GAIN WILD-TYPE
  CLUS_1              16                31
  CLUS_2               0                42
  CLUS_3               0                20
  CLUS_4               7                 3
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  1Q GAIN MUTATED       19      0      4      0
  1Q GAIN WILD-TYPE     37     61      1      1
D2V7, multiclass
        clus
vv       1Q GAIN MUTATED 1Q GAIN WILD-TYPE
  CLUS_1              19                37
  CLUS_2               0                61
  CLUS_3               4                 1
  CLUS_4               0                 1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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
  1Q GAIN MUTATED        8      0     10      5      0      0
  1Q GAIN WILD-TYPE     19     18     18      2     16     27
D2V8, multiclass
        clus
vv       1Q GAIN MUTATED 1Q GAIN WILD-TYPE
  CLUS_1               8                19
  CLUS_2               0                18
  CLUS_3              10                18
  CLUS_4               5                 2
  CLUS_5               0                16
  CLUS_6               0                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
  1Q GAIN MUTATED        0      0     22      1
  1Q GAIN WILD-TYPE     28     51     21      0
D2V9, multiclass
        clus
vv       1Q GAIN MUTATED 1Q GAIN WILD-TYPE
  CLUS_1               0                28
  CLUS_2               0                51
  CLUS_3              22                21
  CLUS_4               1                 0
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  1Q GAIN MUTATED        7      0     16      0
  1Q GAIN WILD-TYPE     20     33     19     28
D2V10, multiclass
        clus
vv       1Q GAIN MUTATED 1Q GAIN WILD-TYPE
  CLUS_1               7                20
  CLUS_2               0                33
  CLUS_3              16                19
  CLUS_4               0                28
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(3) Variable = 3Q GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  3Q GAIN MUTATED        1      1      1      1      1
  3Q GAIN WILD-TYPE     35     26     18     30      9
D3V1, multiclass
        clus
vv       3Q GAIN MUTATED 3Q GAIN WILD-TYPE
  CLUS_1               1                35
  CLUS_2               1                26
  CLUS_3               1                18
  CLUS_4               1                30
  CLUS_5               1                 9
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  3Q GAIN MUTATED        1      1      1      2      0      0      0      0
  3Q GAIN WILD-TYPE     36     22     18      8     18      8      2      6
D3V2, multiclass
        clus
vv       3Q GAIN MUTATED 3Q GAIN WILD-TYPE
  CLUS_1               1                36
  CLUS_2               1                22
  CLUS_3               1                18
  CLUS_4               2                 8
  CLUS_5               0                18
  CLUS_6               0                 8
  CLUS_7               0                 2
  CLUS_8               0                 6
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  3Q GAIN MUTATED        3      0      0
  3Q GAIN WILD-TYPE     28     25     34
D3V3, multiclass
        clus
vv       3Q GAIN MUTATED 3Q GAIN WILD-TYPE
  CLUS_1               3                28
  CLUS_2               0                25
  CLUS_3               0                34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  3Q GAIN MUTATED        0      0      0      3
  3Q GAIN WILD-TYPE     16     23     31     17
D3V4, multiclass
        clus
vv       3Q GAIN MUTATED 3Q GAIN WILD-TYPE
  CLUS_1               0                16
  CLUS_2               0                23
  CLUS_3               0                31
  CLUS_4               3                17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  3Q GAIN MUTATED        2      0      1      2
  3Q GAIN WILD-TYPE     43     30     29     12
D3V5, multiclass
        clus
vv       3Q GAIN MUTATED 3Q GAIN WILD-TYPE
  CLUS_1               2                43
  CLUS_2               0                30
  CLUS_3               1                29
  CLUS_4               2                12
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  3Q GAIN MUTATED        2      0      1      2
  3Q GAIN WILD-TYPE     45     42     19      8
D3V6, multiclass
        clus
vv       3Q GAIN MUTATED 3Q GAIN WILD-TYPE
  CLUS_1               2                45
  CLUS_2               0                42
  CLUS_3               1                19
  CLUS_4               2                 8
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  3Q GAIN MUTATED        3      2      0      0
  3Q GAIN WILD-TYPE     53     59      5      1
D3V7, multiclass
        clus
vv       3Q GAIN MUTATED 3Q GAIN WILD-TYPE
  CLUS_1               3                53
  CLUS_2               2                59
  CLUS_3               0                 5
  CLUS_4               0                 1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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
  3Q GAIN MUTATED        0      0      1      2      2      0
  3Q GAIN WILD-TYPE     27     18     27      5     14     27
D3V8, multiclass
        clus
vv       3Q GAIN MUTATED 3Q GAIN WILD-TYPE
  CLUS_1               0                27
  CLUS_2               0                18
  CLUS_3               1                27
  CLUS_4               2                 5
  CLUS_5               2                14
  CLUS_6               0                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
  3Q GAIN MUTATED        0      1      4      0
  3Q GAIN WILD-TYPE     28     50     39      1
D3V9, multiclass
        clus
vv       3Q GAIN MUTATED 3Q GAIN WILD-TYPE
  CLUS_1               0                28
  CLUS_2               1                50
  CLUS_3               4                39
  CLUS_4               0                 1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  3Q GAIN MUTATED        0      2      3      0
  3Q GAIN WILD-TYPE     27     31     32     28
D3V10, multiclass
        clus
vv       3Q GAIN MUTATED 3Q GAIN WILD-TYPE
  CLUS_1               0                27
  CLUS_2               2                31
  CLUS_3               3                32
  CLUS_4               0                28
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(4) Variable = 5P GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  5P GAIN MUTATED        6      0      3      2      0
  5P GAIN WILD-TYPE     30     27     16     29     10
D4V1, multiclass
        clus
vv       5P GAIN MUTATED 5P GAIN WILD-TYPE
  CLUS_1               6                30
  CLUS_2               0                27
  CLUS_3               3                16
  CLUS_4               2                29
  CLUS_5               0                10
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  5P GAIN MUTATED        0      0      8      2      0      0      0      1
  5P GAIN WILD-TYPE     37     23     11      8     18      8      2      5
D4V2, multiclass
        clus
vv       5P GAIN MUTATED 5P GAIN WILD-TYPE
  CLUS_1               0                37
  CLUS_2               0                23
  CLUS_3               8                11
  CLUS_4               2                 8
  CLUS_5               0                18
  CLUS_6               0                 8
  CLUS_7               0                 2
  CLUS_8               1                 5
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  5P GAIN MUTATED        6      1      1
  5P GAIN WILD-TYPE     25     24     33
D4V3, multiclass
        clus
vv       5P GAIN MUTATED 5P GAIN WILD-TYPE
  CLUS_1               6                25
  CLUS_2               1                24
  CLUS_3               1                33
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  5P GAIN MUTATED        1      0      1      6
  5P GAIN WILD-TYPE     15     23     30     14
D4V4, multiclass
        clus
vv       5P GAIN MUTATED 5P GAIN WILD-TYPE
  CLUS_1               1                15
  CLUS_2               0                23
  CLUS_3               1                30
  CLUS_4               6                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
  5P GAIN MUTATED        8      0      0      3
  5P GAIN WILD-TYPE     37     30     30     11
D4V5, multiclass
        clus
vv       5P GAIN MUTATED 5P GAIN WILD-TYPE
  CLUS_1               8                37
  CLUS_2               0                30
  CLUS_3               0                30
  CLUS_4               3                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"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  5P GAIN MUTATED        9      0      0      2
  5P GAIN WILD-TYPE     38     42     20      8
D4V6, multiclass
        clus
vv       5P GAIN MUTATED 5P GAIN WILD-TYPE
  CLUS_1               9                38
  CLUS_2               0                42
  CLUS_3               0                20
  CLUS_4               2                 8
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  5P GAIN MUTATED        9      0      2      0
  5P GAIN WILD-TYPE     47     61      3      1
D4V7, multiclass
        clus
vv       5P GAIN MUTATED 5P GAIN WILD-TYPE
  CLUS_1               9                47
  CLUS_2               0                61
  CLUS_3               2                 3
  CLUS_4               0                 1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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
  5P GAIN MUTATED        6      0      4      1      0      0
  5P GAIN WILD-TYPE     21     18     24      6     16     27
D4V8, multiclass
        clus
vv       5P GAIN MUTATED 5P GAIN WILD-TYPE
  CLUS_1               6                21
  CLUS_2               0                18
  CLUS_3               4                24
  CLUS_4               1                 6
  CLUS_5               0                16
  CLUS_6               0                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
  5P GAIN MUTATED        0      0     10      1
  5P GAIN WILD-TYPE     28     51     33      0
D4V9, multiclass
        clus
vv       5P GAIN MUTATED 5P GAIN WILD-TYPE
  CLUS_1               0                28
  CLUS_2               0                51
  CLUS_3              10                33
  CLUS_4               1                 0
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  5P GAIN MUTATED        5      0      6      0
  5P GAIN WILD-TYPE     22     33     29     28
D4V10, multiclass
        clus
vv       5P GAIN MUTATED 5P GAIN WILD-TYPE
  CLUS_1               5                22
  CLUS_2               0                33
  CLUS_3               6                29
  CLUS_4               0                28
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(5) Variable = 5Q GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  5Q GAIN MUTATED        5      0      2      2      0
  5Q GAIN WILD-TYPE     31     27     17     29     10
D5V1, multiclass
        clus
vv       5Q GAIN MUTATED 5Q GAIN WILD-TYPE
  CLUS_1               5                31
  CLUS_2               0                27
  CLUS_3               2                17
  CLUS_4               2                29
  CLUS_5               0                10
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  5Q GAIN MUTATED        0      0      7      1      0      0      0      1
  5Q GAIN WILD-TYPE     37     23     12      9     18      8      2      5
D5V2, multiclass
        clus
vv       5Q GAIN MUTATED 5Q GAIN WILD-TYPE
  CLUS_1               0                37
  CLUS_2               0                23
  CLUS_3               7                12
  CLUS_4               1                 9
  CLUS_5               0                18
  CLUS_6               0                 8
  CLUS_7               0                 2
  CLUS_8               1                 5
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  5Q GAIN MUTATED        5      1      1
  5Q GAIN WILD-TYPE     26     24     33
D5V3, multiclass
        clus
vv       5Q GAIN MUTATED 5Q GAIN WILD-TYPE
  CLUS_1               5                26
  CLUS_2               1                24
  CLUS_3               1                33
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  5Q GAIN MUTATED        1      0      1      5
  5Q GAIN WILD-TYPE     15     23     30     15
D5V4, multiclass
        clus
vv       5Q GAIN MUTATED 5Q GAIN WILD-TYPE
  CLUS_1               1                15
  CLUS_2               0                23
  CLUS_3               1                30
  CLUS_4               5                15
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  5Q GAIN MUTATED        7      0      0      2
  5Q GAIN WILD-TYPE     38     30     30     12
D5V5, multiclass
        clus
vv       5Q GAIN MUTATED 5Q GAIN WILD-TYPE
  CLUS_1               7                38
  CLUS_2               0                30
  CLUS_3               0                30
  CLUS_4               2                12
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  5Q GAIN MUTATED        8      0      0      1
  5Q GAIN WILD-TYPE     39     42     20      9
D5V6, multiclass
        clus
vv       5Q GAIN MUTATED 5Q GAIN WILD-TYPE
  CLUS_1               8                39
  CLUS_2               0                42
  CLUS_3               0                20
  CLUS_4               1                 9
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  5Q GAIN MUTATED        7      0      2      0
  5Q GAIN WILD-TYPE     49     61      3      1
D5V7, multiclass
        clus
vv       5Q GAIN MUTATED 5Q GAIN WILD-TYPE
  CLUS_1               7                49
  CLUS_2               0                61
  CLUS_3               2                 3
  CLUS_4               0                 1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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
  5Q GAIN MUTATED        6      0      3      0      0      0
  5Q GAIN WILD-TYPE     21     18     25      7     16     27
D5V8, multiclass
        clus
vv       5Q GAIN MUTATED 5Q GAIN WILD-TYPE
  CLUS_1               6                21
  CLUS_2               0                18
  CLUS_3               3                25
  CLUS_4               0                 7
  CLUS_5               0                16
  CLUS_6               0                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
  5Q GAIN MUTATED        0      0      8      1
  5Q GAIN WILD-TYPE     28     51     35      0
D5V9, multiclass
        clus
vv       5Q GAIN MUTATED 5Q GAIN WILD-TYPE
  CLUS_1               0                28
  CLUS_2               0                51
  CLUS_3               8                35
  CLUS_4               1                 0
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  5Q GAIN MUTATED        5      0      4      0
  5Q GAIN WILD-TYPE     22     33     31     28
D5V10, multiclass
        clus
vv       5Q GAIN MUTATED 5Q GAIN WILD-TYPE
  CLUS_1               5                22
  CLUS_2               0                33
  CLUS_3               4                31
  CLUS_4               0                28
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(6) Variable = 7P GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  7P GAIN MUTATED       12      0      2      2      0
  7P GAIN WILD-TYPE     24     27     17     29     10
D6V1, multiclass
        clus
vv       7P GAIN MUTATED 7P GAIN WILD-TYPE
  CLUS_1              12                24
  CLUS_2               0                27
  CLUS_3               2                17
  CLUS_4               2                29
  CLUS_5               0                10
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  7P GAIN MUTATED        1      0     13      1      0      0      0      1
  7P GAIN WILD-TYPE     36     23      6      9     18      8      2      5
D6V2, multiclass
        clus
vv       7P GAIN MUTATED 7P GAIN WILD-TYPE
  CLUS_1               1                36
  CLUS_2               0                23
  CLUS_3              13                 6
  CLUS_4               1                 9
  CLUS_5               0                18
  CLUS_6               0                 8
  CLUS_7               0                 2
  CLUS_8               1                 5
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  7P GAIN MUTATED        8      1      2
  7P GAIN WILD-TYPE     23     24     32
D6V3, multiclass
        clus
vv       7P GAIN MUTATED 7P GAIN WILD-TYPE
  CLUS_1               8                23
  CLUS_2               1                24
  CLUS_3               2                32
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  7P GAIN MUTATED        1      0      3      7
  7P GAIN WILD-TYPE     15     23     28     13
D6V4, multiclass
        clus
vv       7P GAIN MUTATED 7P GAIN WILD-TYPE
  CLUS_1               1                15
  CLUS_2               0                23
  CLUS_3               3                28
  CLUS_4               7                13
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  7P GAIN MUTATED       16      0      0      0
  7P GAIN WILD-TYPE     29     30     30     14
D6V5, multiclass
        clus
vv       7P GAIN MUTATED 7P GAIN WILD-TYPE
  CLUS_1              16                29
  CLUS_2               0                30
  CLUS_3               0                30
  CLUS_4               0                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
  7P GAIN MUTATED       16      0      0      0
  7P GAIN WILD-TYPE     31     42     20     10
D6V6, multiclass
        clus
vv       7P GAIN MUTATED 7P GAIN WILD-TYPE
  CLUS_1              16                31
  CLUS_2               0                42
  CLUS_3               0                20
  CLUS_4               0                10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  7P GAIN MUTATED       12      0      4      0
  7P GAIN WILD-TYPE     44     61      1      1
D6V7, multiclass
        clus
vv       7P GAIN MUTATED 7P GAIN WILD-TYPE
  CLUS_1              12                44
  CLUS_2               0                61
  CLUS_3               4                 1
  CLUS_4               0                 1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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
  7P GAIN MUTATED        9      0      7      0      0      0
  7P GAIN WILD-TYPE     18     18     21      7     16     27
D6V8, multiclass
        clus
vv       7P GAIN MUTATED 7P GAIN WILD-TYPE
  CLUS_1               9                18
  CLUS_2               0                18
  CLUS_3               7                21
  CLUS_4               0                 7
  CLUS_5               0                16
  CLUS_6               0                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
  7P GAIN MUTATED        0      0     15      1
  7P GAIN WILD-TYPE     28     51     28      0
D6V9, multiclass
        clus
vv       7P GAIN MUTATED 7P GAIN WILD-TYPE
  CLUS_1               0                28
  CLUS_2               0                51
  CLUS_3              15                28
  CLUS_4               1                 0
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  7P GAIN MUTATED        8      0      8      0
  7P GAIN WILD-TYPE     19     33     27     28
D6V10, multiclass
        clus
vv       7P GAIN MUTATED 7P GAIN WILD-TYPE
  CLUS_1               8                19
  CLUS_2               0                33
  CLUS_3               8                27
  CLUS_4               0                28
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(7) Variable = 7Q GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  7Q GAIN MUTATED       12      0      2      2      0
  7Q GAIN WILD-TYPE     24     27     17     29     10
D7V1, multiclass
        clus
vv       7Q GAIN MUTATED 7Q GAIN WILD-TYPE
  CLUS_1              12                24
  CLUS_2               0                27
  CLUS_3               2                17
  CLUS_4               2                29
  CLUS_5               0                10
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  7Q GAIN MUTATED        1      0     13      1      0      0      0      1
  7Q GAIN WILD-TYPE     36     23      6      9     18      8      2      5
D7V2, multiclass
        clus
vv       7Q GAIN MUTATED 7Q GAIN WILD-TYPE
  CLUS_1               1                36
  CLUS_2               0                23
  CLUS_3              13                 6
  CLUS_4               1                 9
  CLUS_5               0                18
  CLUS_6               0                 8
  CLUS_7               0                 2
  CLUS_8               1                 5
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  7Q GAIN MUTATED        8      1      2
  7Q GAIN WILD-TYPE     23     24     32
D7V3, multiclass
        clus
vv       7Q GAIN MUTATED 7Q GAIN WILD-TYPE
  CLUS_1               8                23
  CLUS_2               1                24
  CLUS_3               2                32
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  7Q GAIN MUTATED        1      0      3      7
  7Q GAIN WILD-TYPE     15     23     28     13
D7V4, multiclass
        clus
vv       7Q GAIN MUTATED 7Q GAIN WILD-TYPE
  CLUS_1               1                15
  CLUS_2               0                23
  CLUS_3               3                28
  CLUS_4               7                13
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  7Q GAIN MUTATED       16      0      0      0
  7Q GAIN WILD-TYPE     29     30     30     14
D7V5, multiclass
        clus
vv       7Q GAIN MUTATED 7Q GAIN WILD-TYPE
  CLUS_1              16                29
  CLUS_2               0                30
  CLUS_3               0                30
  CLUS_4               0                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
  7Q GAIN MUTATED       16      0      0      0
  7Q GAIN WILD-TYPE     31     42     20     10
D7V6, multiclass
        clus
vv       7Q GAIN MUTATED 7Q GAIN WILD-TYPE
  CLUS_1              16                31
  CLUS_2               0                42
  CLUS_3               0                20
  CLUS_4               0                10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  7Q GAIN MUTATED       12      0      4      0
  7Q GAIN WILD-TYPE     44     61      1      1
D7V7, multiclass
        clus
vv       7Q GAIN MUTATED 7Q GAIN WILD-TYPE
  CLUS_1              12                44
  CLUS_2               0                61
  CLUS_3               4                 1
  CLUS_4               0                 1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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
  7Q GAIN MUTATED        9      0      7      0      0      0
  7Q GAIN WILD-TYPE     18     18     21      7     16     27
D7V8, multiclass
        clus
vv       7Q GAIN MUTATED 7Q GAIN WILD-TYPE
  CLUS_1               9                18
  CLUS_2               0                18
  CLUS_3               7                21
  CLUS_4               0                 7
  CLUS_5               0                16
  CLUS_6               0                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
  7Q GAIN MUTATED        0      0     15      1
  7Q GAIN WILD-TYPE     28     51     28      0
D7V9, multiclass
        clus
vv       7Q GAIN MUTATED 7Q GAIN WILD-TYPE
  CLUS_1               0                28
  CLUS_2               0                51
  CLUS_3              15                28
  CLUS_4               1                 0
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  7Q GAIN MUTATED        8      0      8      0
  7Q GAIN WILD-TYPE     19     33     27     28
D7V10, multiclass
        clus
vv       7Q GAIN MUTATED 7Q GAIN WILD-TYPE
  CLUS_1               8                19
  CLUS_2               0                33
  CLUS_3               8                27
  CLUS_4               0                28
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(8) Variable = 8P GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  8P GAIN MUTATED        5      0      4      2      1
  8P GAIN WILD-TYPE     31     27     15     29      9
D8V1, multiclass
        clus
vv       8P GAIN MUTATED 8P GAIN WILD-TYPE
  CLUS_1               5                31
  CLUS_2               0                27
  CLUS_3               4                15
  CLUS_4               2                29
  CLUS_5               1                 9
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  8P GAIN MUTATED        1      0      7      4      0      0      0      0
  8P GAIN WILD-TYPE     36     23     12      6     18      8      2      6
D8V2, multiclass
        clus
vv       8P GAIN MUTATED 8P GAIN WILD-TYPE
  CLUS_1               1                36
  CLUS_2               0                23
  CLUS_3               7                12
  CLUS_4               4                 6
  CLUS_5               0                18
  CLUS_6               0                 8
  CLUS_7               0                 2
  CLUS_8               0                 6
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  8P GAIN MUTATED        6      2      3
  8P GAIN WILD-TYPE     25     23     31
D8V3, multiclass
        clus
vv       8P GAIN MUTATED 8P GAIN WILD-TYPE
  CLUS_1               6                25
  CLUS_2               2                23
  CLUS_3               3                31
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  8P GAIN MUTATED        1      0      3      7
  8P GAIN WILD-TYPE     15     23     28     13
D8V4, multiclass
        clus
vv       8P GAIN MUTATED 8P GAIN WILD-TYPE
  CLUS_1               1                15
  CLUS_2               0                23
  CLUS_3               3                28
  CLUS_4               7                13
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  8P GAIN MUTATED        8      0      0      4
  8P GAIN WILD-TYPE     37     30     30     10
D8V5, multiclass
        clus
vv       8P GAIN MUTATED 8P GAIN WILD-TYPE
  CLUS_1               8                37
  CLUS_2               0                30
  CLUS_3               0                30
  CLUS_4               4                10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  8P GAIN MUTATED        8      0      0      4
  8P GAIN WILD-TYPE     39     42     20      6
D8V6, multiclass
        clus
vv       8P GAIN MUTATED 8P GAIN WILD-TYPE
  CLUS_1               8                39
  CLUS_2               0                42
  CLUS_3               0                20
  CLUS_4               4                 6
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  8P GAIN MUTATED       11      0      1      0
  8P GAIN WILD-TYPE     45     61      4      1
D8V7, multiclass
        clus
vv       8P GAIN MUTATED 8P GAIN WILD-TYPE
  CLUS_1              11                45
  CLUS_2               0                61
  CLUS_3               1                 4
  CLUS_4               0                 1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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
  8P GAIN MUTATED        4      0      5      3      0      0
  8P GAIN WILD-TYPE     23     18     23      4     16     27
D8V8, multiclass
        clus
vv       8P GAIN MUTATED 8P GAIN WILD-TYPE
  CLUS_1               4                23
  CLUS_2               0                18
  CLUS_3               5                23
  CLUS_4               3                 4
  CLUS_5               0                16
  CLUS_6               0                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
  8P GAIN MUTATED        1      0     11      0
  8P GAIN WILD-TYPE     27     51     32      1
D8V9, multiclass
        clus
vv       8P GAIN MUTATED 8P GAIN WILD-TYPE
  CLUS_1               1                27
  CLUS_2               0                51
  CLUS_3              11                32
  CLUS_4               0                 1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  8P GAIN MUTATED        4      0      8      0
  8P GAIN WILD-TYPE     23     33     27     28
D8V10, multiclass
        clus
vv       8P GAIN MUTATED 8P GAIN WILD-TYPE
  CLUS_1               4                23
  CLUS_2               0                33
  CLUS_3               8                27
  CLUS_4               0                28
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(9) Variable = 8Q GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  8Q GAIN MUTATED        5      0      4      2      1
  8Q GAIN WILD-TYPE     31     27     15     29      9
D9V1, multiclass
        clus
vv       8Q GAIN MUTATED 8Q GAIN WILD-TYPE
  CLUS_1               5                31
  CLUS_2               0                27
  CLUS_3               4                15
  CLUS_4               2                29
  CLUS_5               1                 9
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  8Q GAIN MUTATED        1      0      7      4      0      0      0      0
  8Q GAIN WILD-TYPE     36     23     12      6     18      8      2      6
D9V2, multiclass
        clus
vv       8Q GAIN MUTATED 8Q GAIN WILD-TYPE
  CLUS_1               1                36
  CLUS_2               0                23
  CLUS_3               7                12
  CLUS_4               4                 6
  CLUS_5               0                18
  CLUS_6               0                 8
  CLUS_7               0                 2
  CLUS_8               0                 6
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  8Q GAIN MUTATED        6      2      3
  8Q GAIN WILD-TYPE     25     23     31
D9V3, multiclass
        clus
vv       8Q GAIN MUTATED 8Q GAIN WILD-TYPE
  CLUS_1               6                25
  CLUS_2               2                23
  CLUS_3               3                31
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  8Q GAIN MUTATED        1      0      3      7
  8Q GAIN WILD-TYPE     15     23     28     13
D9V4, multiclass
        clus
vv       8Q GAIN MUTATED 8Q GAIN WILD-TYPE
  CLUS_1               1                15
  CLUS_2               0                23
  CLUS_3               3                28
  CLUS_4               7                13
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  8Q GAIN MUTATED        8      0      0      4
  8Q GAIN WILD-TYPE     37     30     30     10
D9V5, multiclass
        clus
vv       8Q GAIN MUTATED 8Q GAIN WILD-TYPE
  CLUS_1               8                37
  CLUS_2               0                30
  CLUS_3               0                30
  CLUS_4               4                10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  8Q GAIN MUTATED        8      0      0      4
  8Q GAIN WILD-TYPE     39     42     20      6
D9V6, multiclass
        clus
vv       8Q GAIN MUTATED 8Q GAIN WILD-TYPE
  CLUS_1               8                39
  CLUS_2               0                42
  CLUS_3               0                20
  CLUS_4               4                 6
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  8Q GAIN MUTATED       11      0      1      0
  8Q GAIN WILD-TYPE     45     61      4      1
D9V7, multiclass
        clus
vv       8Q GAIN MUTATED 8Q GAIN WILD-TYPE
  CLUS_1              11                45
  CLUS_2               0                61
  CLUS_3               1                 4
  CLUS_4               0                 1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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
  8Q GAIN MUTATED        4      0      5      3      0      0
  8Q GAIN WILD-TYPE     23     18     23      4     16     27
D9V8, multiclass
        clus
vv       8Q GAIN MUTATED 8Q GAIN WILD-TYPE
  CLUS_1               4                23
  CLUS_2               0                18
  CLUS_3               5                23
  CLUS_4               3                 4
  CLUS_5               0                16
  CLUS_6               0                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
  8Q GAIN MUTATED        1      0     11      0
  8Q GAIN WILD-TYPE     27     51     32      1
D9V9, multiclass
        clus
vv       8Q GAIN MUTATED 8Q GAIN WILD-TYPE
  CLUS_1               1                27
  CLUS_2               0                51
  CLUS_3              11                32
  CLUS_4               0                 1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  8Q GAIN MUTATED        4      0      8      0
  8Q GAIN WILD-TYPE     23     33     27     28
D9V10, multiclass
        clus
vv       8Q GAIN MUTATED 8Q GAIN WILD-TYPE
  CLUS_1               4                23
  CLUS_2               0                33
  CLUS_3               8                27
  CLUS_4               0                28
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(10) Variable = 9P GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  9P GAIN MUTATED       10      0      0      1      0
  9P GAIN WILD-TYPE     26     27     19     30     10
D10V1, multiclass
        clus
vv       9P GAIN MUTATED 9P GAIN WILD-TYPE
  CLUS_1              10                26
  CLUS_2               0                27
  CLUS_3               0                19
  CLUS_4               1                30
  CLUS_5               0                10
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  9P GAIN MUTATED        1      0      8      1      1      0      0      0
  9P GAIN WILD-TYPE     36     23     11      9     17      8      2      6
D10V2, multiclass
        clus
vv       9P GAIN MUTATED 9P GAIN WILD-TYPE
  CLUS_1               1                36
  CLUS_2               0                23
  CLUS_3               8                11
  CLUS_4               1                 9
  CLUS_5               1                17
  CLUS_6               0                 8
  CLUS_7               0                 2
  CLUS_8               0                 6
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  9P GAIN MUTATED        4      1      2
  9P GAIN WILD-TYPE     27     24     32
D10V3, multiclass
        clus
vv       9P GAIN MUTATED 9P GAIN WILD-TYPE
  CLUS_1               4                27
  CLUS_2               1                24
  CLUS_3               2                32
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  9P GAIN MUTATED        0      1      3      3
  9P GAIN WILD-TYPE     16     22     28     17
D10V4, multiclass
        clus
vv       9P GAIN MUTATED 9P GAIN WILD-TYPE
  CLUS_1               0                16
  CLUS_2               1                22
  CLUS_3               3                28
  CLUS_4               3                17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  9P GAIN MUTATED       10      0      0      0
  9P GAIN WILD-TYPE     35     30     30     14
D10V5, multiclass
        clus
vv       9P GAIN MUTATED 9P GAIN WILD-TYPE
  CLUS_1              10                35
  CLUS_2               0                30
  CLUS_3               0                30
  CLUS_4               0                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
  9P GAIN MUTATED       10      0      0      0
  9P GAIN WILD-TYPE     37     42     20     10
D10V6, multiclass
        clus
vv       9P GAIN MUTATED 9P GAIN WILD-TYPE
  CLUS_1              10                37
  CLUS_2               0                42
  CLUS_3               0                20
  CLUS_4               0                10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  9P GAIN MUTATED        6      1      4      0
  9P GAIN WILD-TYPE     50     60      1      1
D10V7, multiclass
        clus
vv       9P GAIN MUTATED 9P GAIN WILD-TYPE
  CLUS_1               6                50
  CLUS_2               1                60
  CLUS_3               4                 1
  CLUS_4               0                 1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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
  9P GAIN MUTATED        8      0      2      0      0      1
  9P GAIN WILD-TYPE     19     18     26      7     16     26
D10V8, multiclass
        clus
vv       9P GAIN MUTATED 9P GAIN WILD-TYPE
  CLUS_1               8                19
  CLUS_2               0                18
  CLUS_3               2                26
  CLUS_4               0                 7
  CLUS_5               0                16
  CLUS_6               1                26
[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
  9P GAIN MUTATED        0      1      9      1
  9P GAIN WILD-TYPE     28     50     34      0
D10V9, multiclass
        clus
vv       9P GAIN MUTATED 9P GAIN WILD-TYPE
  CLUS_1               0                28
  CLUS_2               1                50
  CLUS_3               9                34
  CLUS_4               1                 0
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  9P GAIN MUTATED        7      0      3      1
  9P GAIN WILD-TYPE     20     33     32     27
D10V10, multiclass
        clus
vv       9P GAIN MUTATED 9P GAIN WILD-TYPE
  CLUS_1               7                20
  CLUS_2               0                33
  CLUS_3               3                32
  CLUS_4               1                27
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(11) Variable = 9Q GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  9Q GAIN MUTATED       10      0      0      1      0
  9Q GAIN WILD-TYPE     26     27     19     30     10
D11V1, multiclass
        clus
vv       9Q GAIN MUTATED 9Q GAIN WILD-TYPE
  CLUS_1              10                26
  CLUS_2               0                27
  CLUS_3               0                19
  CLUS_4               1                30
  CLUS_5               0                10
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  9Q GAIN MUTATED        1      0      8      1      1      0      0      0
  9Q GAIN WILD-TYPE     36     23     11      9     17      8      2      6
D11V2, multiclass
        clus
vv       9Q GAIN MUTATED 9Q GAIN WILD-TYPE
  CLUS_1               1                36
  CLUS_2               0                23
  CLUS_3               8                11
  CLUS_4               1                 9
  CLUS_5               1                17
  CLUS_6               0                 8
  CLUS_7               0                 2
  CLUS_8               0                 6
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  9Q GAIN MUTATED        4      1      2
  9Q GAIN WILD-TYPE     27     24     32
D11V3, multiclass
        clus
vv       9Q GAIN MUTATED 9Q GAIN WILD-TYPE
  CLUS_1               4                27
  CLUS_2               1                24
  CLUS_3               2                32
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  9Q GAIN MUTATED        0      1      3      3
  9Q GAIN WILD-TYPE     16     22     28     17
D11V4, multiclass
        clus
vv       9Q GAIN MUTATED 9Q GAIN WILD-TYPE
  CLUS_1               0                16
  CLUS_2               1                22
  CLUS_3               3                28
  CLUS_4               3                17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  9Q GAIN MUTATED       10      0      0      0
  9Q GAIN WILD-TYPE     35     30     30     14
D11V5, multiclass
        clus
vv       9Q GAIN MUTATED 9Q GAIN WILD-TYPE
  CLUS_1              10                35
  CLUS_2               0                30
  CLUS_3               0                30
  CLUS_4               0                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
  9Q GAIN MUTATED       10      0      0      0
  9Q GAIN WILD-TYPE     37     42     20     10
D11V6, multiclass
        clus
vv       9Q GAIN MUTATED 9Q GAIN WILD-TYPE
  CLUS_1              10                37
  CLUS_2               0                42
  CLUS_3               0                20
  CLUS_4               0                10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  9Q GAIN MUTATED        6      1      4      0
  9Q GAIN WILD-TYPE     50     60      1      1
D11V7, multiclass
        clus
vv       9Q GAIN MUTATED 9Q GAIN WILD-TYPE
  CLUS_1               6                50
  CLUS_2               1                60
  CLUS_3               4                 1
  CLUS_4               0                 1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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
  9Q GAIN MUTATED        8      0      2      0      0      1
  9Q GAIN WILD-TYPE     19     18     26      7     16     26
D11V8, multiclass
        clus
vv       9Q GAIN MUTATED 9Q GAIN WILD-TYPE
  CLUS_1               8                19
  CLUS_2               0                18
  CLUS_3               2                26
  CLUS_4               0                 7
  CLUS_5               0                16
  CLUS_6               1                26
[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
  9Q GAIN MUTATED        0      1      9      1
  9Q GAIN WILD-TYPE     28     50     34      0
D11V9, multiclass
        clus
vv       9Q GAIN MUTATED 9Q GAIN WILD-TYPE
  CLUS_1               0                28
  CLUS_2               1                50
  CLUS_3               9                34
  CLUS_4               1                 0
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  9Q GAIN MUTATED        7      0      3      1
  9Q GAIN WILD-TYPE     20     33     32     27
D11V10, multiclass
        clus
vv       9Q GAIN MUTATED 9Q GAIN WILD-TYPE
  CLUS_1               7                20
  CLUS_2               0                33
  CLUS_3               3                32
  CLUS_4               1                27
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(12) Variable = 12P GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  12P GAIN MUTATED        0      0      3      1      0
  12P GAIN WILD-TYPE     36     27     16     30     10
D12V1, multiclass
        clus
vv       12P GAIN MUTATED 12P GAIN WILD-TYPE
  CLUS_1                0                 36
  CLUS_2                0                 27
  CLUS_3                3                 16
  CLUS_4                1                 30
  CLUS_5                0                 10
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  12P GAIN MUTATED        0      0      1      3      0      0      0      0
  12P GAIN WILD-TYPE     37     23     18      7     18      8      2      6
D12V2, multiclass
        clus
vv       12P GAIN MUTATED 12P GAIN WILD-TYPE
  CLUS_1                0                 37
  CLUS_2                0                 23
  CLUS_3                1                 18
  CLUS_4                3                  7
  CLUS_5                0                 18
  CLUS_6                0                  8
  CLUS_7                0                  2
  CLUS_8                0                  6
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  12P GAIN MUTATED        2      2      0
  12P GAIN WILD-TYPE     29     23     34
D12V3, multiclass
        clus
vv       12P GAIN MUTATED 12P GAIN WILD-TYPE
  CLUS_1                2                 29
  CLUS_2                2                 23
  CLUS_3                0                 34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  12P GAIN MUTATED        1      0      0      3
  12P GAIN WILD-TYPE     15     23     31     17
D12V4, multiclass
        clus
vv       12P GAIN MUTATED 12P GAIN WILD-TYPE
  CLUS_1                1                 15
  CLUS_2                0                 23
  CLUS_3                0                 31
  CLUS_4                3                 17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  12P GAIN MUTATED        1      0      0      3
  12P GAIN WILD-TYPE     44     30     30     11
D12V5, multiclass
        clus
vv       12P GAIN MUTATED 12P GAIN WILD-TYPE
  CLUS_1                1                 44
  CLUS_2                0                 30
  CLUS_3                0                 30
  CLUS_4                3                 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"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  12P GAIN MUTATED        1      0      0      3
  12P GAIN WILD-TYPE     46     42     20      7
D12V6, multiclass
        clus
vv       12P GAIN MUTATED 12P GAIN WILD-TYPE
  CLUS_1                1                 46
  CLUS_2                0                 42
  CLUS_3                0                 20
  CLUS_4                3                  7
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  12P GAIN MUTATED        4      0      0      0
  12P GAIN WILD-TYPE     52     61      5      1
D12V7, multiclass
        clus
vv       12P GAIN MUTATED 12P GAIN WILD-TYPE
  CLUS_1                4                 52
  CLUS_2                0                 61
  CLUS_3                0                  5
  CLUS_4                0                  1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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
  12P GAIN MUTATED        1      0      1      2      0      0
  12P GAIN WILD-TYPE     26     18     27      5     16     27
D12V8, multiclass
        clus
vv       12P GAIN MUTATED 12P GAIN WILD-TYPE
  CLUS_1                1                 26
  CLUS_2                0                 18
  CLUS_3                1                 27
  CLUS_4                2                  5
  CLUS_5                0                 16
  CLUS_6                0                 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
  12P GAIN MUTATED        0      0      4      0
  12P GAIN WILD-TYPE     28     51     39      1
D12V9, multiclass
        clus
vv       12P GAIN MUTATED 12P GAIN WILD-TYPE
  CLUS_1                0                 28
  CLUS_2                0                 51
  CLUS_3                4                 39
  CLUS_4                0                  1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  12P GAIN MUTATED        1      0      3      0
  12P GAIN WILD-TYPE     26     33     32     28
D12V10, multiclass
        clus
vv       12P GAIN MUTATED 12P GAIN WILD-TYPE
  CLUS_1                1                 26
  CLUS_2                0                 33
  CLUS_3                3                 32
  CLUS_4                0                 28
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(13) Variable = 12Q GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  12Q GAIN MUTATED        0      0      3      1      0
  12Q GAIN WILD-TYPE     36     27     16     30     10
D13V1, multiclass
        clus
vv       12Q GAIN MUTATED 12Q GAIN WILD-TYPE
  CLUS_1                0                 36
  CLUS_2                0                 27
  CLUS_3                3                 16
  CLUS_4                1                 30
  CLUS_5                0                 10
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  12Q GAIN MUTATED        0      0      1      3      0      0      0      0
  12Q GAIN WILD-TYPE     37     23     18      7     18      8      2      6
D13V2, multiclass
        clus
vv       12Q GAIN MUTATED 12Q GAIN WILD-TYPE
  CLUS_1                0                 37
  CLUS_2                0                 23
  CLUS_3                1                 18
  CLUS_4                3                  7
  CLUS_5                0                 18
  CLUS_6                0                  8
  CLUS_7                0                  2
  CLUS_8                0                  6
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  12Q GAIN MUTATED        2      2      0
  12Q GAIN WILD-TYPE     29     23     34
D13V3, multiclass
        clus
vv       12Q GAIN MUTATED 12Q GAIN WILD-TYPE
  CLUS_1                2                 29
  CLUS_2                2                 23
  CLUS_3                0                 34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  12Q GAIN MUTATED        1      0      0      3
  12Q GAIN WILD-TYPE     15     23     31     17
D13V4, multiclass
        clus
vv       12Q GAIN MUTATED 12Q GAIN WILD-TYPE
  CLUS_1                1                 15
  CLUS_2                0                 23
  CLUS_3                0                 31
  CLUS_4                3                 17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  12Q GAIN MUTATED        1      0      0      3
  12Q GAIN WILD-TYPE     44     30     30     11
D13V5, multiclass
        clus
vv       12Q GAIN MUTATED 12Q GAIN WILD-TYPE
  CLUS_1                1                 44
  CLUS_2                0                 30
  CLUS_3                0                 30
  CLUS_4                3                 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"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  12Q GAIN MUTATED        1      0      0      3
  12Q GAIN WILD-TYPE     46     42     20      7
D13V6, multiclass
        clus
vv       12Q GAIN MUTATED 12Q GAIN WILD-TYPE
  CLUS_1                1                 46
  CLUS_2                0                 42
  CLUS_3                0                 20
  CLUS_4                3                  7
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  12Q GAIN MUTATED        4      0      0      0
  12Q GAIN WILD-TYPE     52     61      5      1
D13V7, multiclass
        clus
vv       12Q GAIN MUTATED 12Q GAIN WILD-TYPE
  CLUS_1                4                 52
  CLUS_2                0                 61
  CLUS_3                0                  5
  CLUS_4                0                  1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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
  12Q GAIN MUTATED        1      0      1      2      0      0
  12Q GAIN WILD-TYPE     26     18     27      5     16     27
D13V8, multiclass
        clus
vv       12Q GAIN MUTATED 12Q GAIN WILD-TYPE
  CLUS_1                1                 26
  CLUS_2                0                 18
  CLUS_3                1                 27
  CLUS_4                2                  5
  CLUS_5                0                 16
  CLUS_6                0                 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
  12Q GAIN MUTATED        0      0      4      0
  12Q GAIN WILD-TYPE     28     51     39      1
D13V9, multiclass
        clus
vv       12Q GAIN MUTATED 12Q GAIN WILD-TYPE
  CLUS_1                0                 28
  CLUS_2                0                 51
  CLUS_3                4                 39
  CLUS_4                0                  1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  12Q GAIN MUTATED        1      0      3      0
  12Q GAIN WILD-TYPE     26     33     32     28
D13V10, multiclass
        clus
vv       12Q GAIN MUTATED 12Q GAIN WILD-TYPE
  CLUS_1                1                 26
  CLUS_2                0                 33
  CLUS_3                3                 32
  CLUS_4                0                 28
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(14) Variable = 14Q GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  14Q GAIN MUTATED       11      0      1      1      0
  14Q GAIN WILD-TYPE     25     27     18     30     10
D14V1, multiclass
        clus
vv       14Q GAIN MUTATED 14Q GAIN WILD-TYPE
  CLUS_1               11                 25
  CLUS_2                0                 27
  CLUS_3                1                 18
  CLUS_4                1                 30
  CLUS_5                0                 10
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  14Q GAIN MUTATED        2      0     10      0      0      0      0      1
  14Q GAIN WILD-TYPE     35     23      9     10     18      8      2      5
D14V2, multiclass
        clus
vv       14Q GAIN MUTATED 14Q GAIN WILD-TYPE
  CLUS_1                2                 35
  CLUS_2                0                 23
  CLUS_3               10                  9
  CLUS_4                0                 10
  CLUS_5                0                 18
  CLUS_6                0                  8
  CLUS_7                0                  2
  CLUS_8                1                  5
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  14Q GAIN MUTATED        5      1      2
  14Q GAIN WILD-TYPE     26     24     32
D14V3, multiclass
        clus
vv       14Q GAIN MUTATED 14Q GAIN WILD-TYPE
  CLUS_1                5                 26
  CLUS_2                1                 24
  CLUS_3                2                 32
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  14Q GAIN MUTATED        1      0      2      5
  14Q GAIN WILD-TYPE     15     23     29     15
D14V4, multiclass
        clus
vv       14Q GAIN MUTATED 14Q GAIN WILD-TYPE
  CLUS_1                1                 15
  CLUS_2                0                 23
  CLUS_3                2                 29
  CLUS_4                5                 15
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  14Q GAIN MUTATED       13      0      0      0
  14Q GAIN WILD-TYPE     32     30     30     14
D14V5, multiclass
        clus
vv       14Q GAIN MUTATED 14Q GAIN WILD-TYPE
  CLUS_1               13                 32
  CLUS_2                0                 30
  CLUS_3                0                 30
  CLUS_4                0                 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
  14Q GAIN MUTATED       13      0      0      0
  14Q GAIN WILD-TYPE     34     42     20     10
D14V6, multiclass
        clus
vv       14Q GAIN MUTATED 14Q GAIN WILD-TYPE
  CLUS_1               13                 34
  CLUS_2                0                 42
  CLUS_3                0                 20
  CLUS_4                0                 10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  14Q GAIN MUTATED       10      0      3      0
  14Q GAIN WILD-TYPE     46     61      2      1
D14V7, multiclass
        clus
vv       14Q GAIN MUTATED 14Q GAIN WILD-TYPE
  CLUS_1               10                 46
  CLUS_2                0                 61
  CLUS_3                3                  2
  CLUS_4                0                  1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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
  14Q GAIN MUTATED       10      0      3      0      0      0
  14Q GAIN WILD-TYPE     17     18     25      7     16     27
D14V8, multiclass
        clus
vv       14Q GAIN MUTATED 14Q GAIN WILD-TYPE
  CLUS_1               10                 17
  CLUS_2                0                 18
  CLUS_3                3                 25
  CLUS_4                0                  7
  CLUS_5                0                 16
  CLUS_6                0                 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
  14Q GAIN MUTATED        0      0     12      1
  14Q GAIN WILD-TYPE     28     51     31      0
D14V9, multiclass
        clus
vv       14Q GAIN MUTATED 14Q GAIN WILD-TYPE
  CLUS_1                0                 28
  CLUS_2                0                 51
  CLUS_3               12                 31
  CLUS_4                1                  0
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  14Q GAIN MUTATED        9      0      4      0
  14Q GAIN WILD-TYPE     18     33     31     28
D14V10, multiclass
        clus
vv       14Q GAIN MUTATED 14Q GAIN WILD-TYPE
  CLUS_1                9                 18
  CLUS_2                0                 33
  CLUS_3                4                 31
  CLUS_4                0                 28
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(15) Variable = 15Q GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  15Q GAIN MUTATED        7      1      2      2      0
  15Q GAIN WILD-TYPE     29     26     17     29     10
D15V1, multiclass
        clus
vv       15Q GAIN MUTATED 15Q GAIN WILD-TYPE
  CLUS_1                7                 29
  CLUS_2                1                 26
  CLUS_3                2                 17
  CLUS_4                2                 29
  CLUS_5                0                 10
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  15Q GAIN MUTATED        1      1      8      1      0      0      0      1
  15Q GAIN WILD-TYPE     36     22     11      9     18      8      2      5
D15V2, multiclass
        clus
vv       15Q GAIN MUTATED 15Q GAIN WILD-TYPE
  CLUS_1                1                 36
  CLUS_2                1                 22
  CLUS_3                8                 11
  CLUS_4                1                  9
  CLUS_5                0                 18
  CLUS_6                0                  8
  CLUS_7                0                  2
  CLUS_8                1                  5
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  15Q GAIN MUTATED        3      2      2
  15Q GAIN WILD-TYPE     28     23     32
D15V3, multiclass
        clus
vv       15Q GAIN MUTATED 15Q GAIN WILD-TYPE
  CLUS_1                3                 28
  CLUS_2                2                 23
  CLUS_3                2                 32
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  15Q GAIN MUTATED        1      1      2      3
  15Q GAIN WILD-TYPE     15     22     29     17
D15V4, multiclass
        clus
vv       15Q GAIN MUTATED 15Q GAIN WILD-TYPE
  CLUS_1                1                 15
  CLUS_2                1                 22
  CLUS_3                2                 29
  CLUS_4                3                 17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  15Q GAIN MUTATED        8      0      1      2
  15Q GAIN WILD-TYPE     37     30     29     12
D15V5, multiclass
        clus
vv       15Q GAIN MUTATED 15Q GAIN WILD-TYPE
  CLUS_1                8                 37
  CLUS_2                0                 30
  CLUS_3                1                 29
  CLUS_4                2                 12
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  15Q GAIN MUTATED        9      0      1      1
  15Q GAIN WILD-TYPE     38     42     19      9
D15V6, multiclass
        clus
vv       15Q GAIN MUTATED 15Q GAIN WILD-TYPE
  CLUS_1                9                 38
  CLUS_2                0                 42
  CLUS_3                1                 19
  CLUS_4                1                  9
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  15Q GAIN MUTATED        9      1      2      0
  15Q GAIN WILD-TYPE     47     60      3      1
D15V7, multiclass
        clus
vv       15Q GAIN MUTATED 15Q GAIN WILD-TYPE
  CLUS_1                9                 47
  CLUS_2                1                 60
  CLUS_3                2                  3
  CLUS_4                0                  1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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
  15Q GAIN MUTATED        6      0      5      0      1      0
  15Q GAIN WILD-TYPE     21     18     23      7     15     27
D15V8, multiclass
        clus
vv       15Q GAIN MUTATED 15Q GAIN WILD-TYPE
  CLUS_1                6                 21
  CLUS_2                0                 18
  CLUS_3                5                 23
  CLUS_4                0                  7
  CLUS_5                1                 15
  CLUS_6                0                 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
  15Q GAIN MUTATED        1      1      9      1
  15Q GAIN WILD-TYPE     27     50     34      0
D15V9, multiclass
        clus
vv       15Q GAIN MUTATED 15Q GAIN WILD-TYPE
  CLUS_1                1                 27
  CLUS_2                1                 50
  CLUS_3                9                 34
  CLUS_4                1                  0
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  15Q GAIN MUTATED        5      1      6      0
  15Q GAIN WILD-TYPE     22     32     29     28
D15V10, multiclass
        clus
vv       15Q GAIN MUTATED 15Q GAIN WILD-TYPE
  CLUS_1                5                 22
  CLUS_2                1                 32
  CLUS_3                6                 29
  CLUS_4                0                 28
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(16) Variable = 17Q GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  17Q GAIN MUTATED        0      2      5      0      0
  17Q GAIN WILD-TYPE     36     25     14     31     10
D16V1, multiclass
        clus
vv       17Q GAIN MUTATED 17Q GAIN WILD-TYPE
  CLUS_1                0                 36
  CLUS_2                2                 25
  CLUS_3                5                 14
  CLUS_4                0                 31
  CLUS_5                0                 10
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  17Q GAIN MUTATED        1      2      1      3      0      0      0      0
  17Q GAIN WILD-TYPE     36     21     18      7     18      8      2      6
D16V2, multiclass
        clus
vv       17Q GAIN MUTATED 17Q GAIN WILD-TYPE
  CLUS_1                1                 36
  CLUS_2                2                 21
  CLUS_3                1                 18
  CLUS_4                3                  7
  CLUS_5                0                 18
  CLUS_6                0                  8
  CLUS_7                0                  2
  CLUS_8                0                  6
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  17Q GAIN MUTATED        4      2      0
  17Q GAIN WILD-TYPE     27     23     34
D16V3, multiclass
        clus
vv       17Q GAIN MUTATED 17Q GAIN WILD-TYPE
  CLUS_1                4                 27
  CLUS_2                2                 23
  CLUS_3                0                 34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  17Q GAIN MUTATED        1      2      0      3
  17Q GAIN WILD-TYPE     15     21     31     17
D16V4, multiclass
        clus
vv       17Q GAIN MUTATED 17Q GAIN WILD-TYPE
  CLUS_1                1                 15
  CLUS_2                2                 21
  CLUS_3                0                 31
  CLUS_4                3                 17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  17Q GAIN MUTATED        2      0      2      3
  17Q GAIN WILD-TYPE     43     30     28     11
D16V5, multiclass
        clus
vv       17Q GAIN MUTATED 17Q GAIN WILD-TYPE
  CLUS_1                2                 43
  CLUS_2                0                 30
  CLUS_3                2                 28
  CLUS_4                3                 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"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  17Q GAIN MUTATED        2      0      2      3
  17Q GAIN WILD-TYPE     45     42     18      7
D16V6, multiclass
        clus
vv       17Q GAIN MUTATED 17Q GAIN WILD-TYPE
  CLUS_1                2                 45
  CLUS_2                0                 42
  CLUS_3                2                 18
  CLUS_4                3                  7
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  17Q GAIN MUTATED        4      3      0      0
  17Q GAIN WILD-TYPE     52     58      5      1
D16V7, multiclass
        clus
vv       17Q GAIN MUTATED 17Q GAIN WILD-TYPE
  CLUS_1                4                 52
  CLUS_2                3                 58
  CLUS_3                0                  5
  CLUS_4                0                  1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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
  17Q GAIN MUTATED        1      0      2      1      3      0
  17Q GAIN WILD-TYPE     26     18     26      6     13     27
D16V8, multiclass
        clus
vv       17Q GAIN MUTATED 17Q GAIN WILD-TYPE
  CLUS_1                1                 26
  CLUS_2                0                 18
  CLUS_3                2                 26
  CLUS_4                1                  6
  CLUS_5                3                 13
  CLUS_6                0                 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
  17Q GAIN MUTATED        0      2      5      0
  17Q GAIN WILD-TYPE     28     49     38      1
D16V9, multiclass
        clus
vv       17Q GAIN MUTATED 17Q GAIN WILD-TYPE
  CLUS_1                0                 28
  CLUS_2                2                 49
  CLUS_3                5                 38
  CLUS_4                0                  1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  17Q GAIN MUTATED        1      3      3      0
  17Q GAIN WILD-TYPE     26     30     32     28
D16V10, multiclass
        clus
vv       17Q GAIN MUTATED 17Q GAIN WILD-TYPE
  CLUS_1                1                 26
  CLUS_2                3                 30
  CLUS_3                3                 32
  CLUS_4                0                 28
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(17) Variable = 18P GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  18P GAIN MUTATED        1      0      2      0      0
  18P GAIN WILD-TYPE     35     27     17     31     10
D17V1, multiclass
        clus
vv       18P GAIN MUTATED 18P GAIN WILD-TYPE
  CLUS_1                1                 35
  CLUS_2                0                 27
  CLUS_3                2                 17
  CLUS_4                0                 31
  CLUS_5                0                 10
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  18P GAIN MUTATED        0      0      1      2      0      0      0      0
  18P GAIN WILD-TYPE     37     23     18      8     18      8      2      6
D17V2, multiclass
        clus
vv       18P GAIN MUTATED 18P GAIN WILD-TYPE
  CLUS_1                0                 37
  CLUS_2                0                 23
  CLUS_3                1                 18
  CLUS_4                2                  8
  CLUS_5                0                 18
  CLUS_6                0                  8
  CLUS_7                0                  2
  CLUS_8                0                  6
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  18P GAIN MUTATED        1      1      0
  18P GAIN WILD-TYPE     30     24     34
D17V3, multiclass
[1] "Remove cluster labels:" "18P GAIN MUTATED"      
clus
  18P GAIN MUTATED 18P GAIN WILD-TYPE 
                 2                 88 
        TCGA-3G-AB0O         TCGA-3G-AB0Q         TCGA-3G-AB0T 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-3G-AB14         TCGA-3G-AB19         TCGA-3Q-A9WF 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-3S-AAYX         TCGA-4V-A9QL         TCGA-4V-A9QN 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-4V-A9QS         TCGA-4V-A9QW         TCGA-4V-A9QX 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-4X-A9F9         TCGA-4X-A9FB         TCGA-4X-A9FC 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-5G-A9ZZ         TCGA-5K-AAAP         TCGA-5U-AB0E 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-5U-AB0F         TCGA-5V-A9RR         TCGA-X7-A8D6 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-X7-A8D7         TCGA-X7-A8D9         TCGA-X7-A8DB 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-X7-A8DC         TCGA-X7-A8DD         TCGA-X7-A8DE 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-X7-A8DF         TCGA-X7-A8DG         TCGA-X7-A8DI 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-X7-A8DJ         TCGA-X7-A8M0         TCGA-X7-A8M1 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-X7-A8M3         TCGA-X7-A8M4         TCGA-X7-A8M5 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-X7-A8M6         TCGA-X7-A8M7         TCGA-XM-A8R8 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-XM-A8RB         TCGA-XM-A8RC         TCGA-XM-A8RD 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-XM-A8RE         TCGA-XM-A8RF         TCGA-XM-A8RG 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-XM-A8RH         TCGA-XM-A8RI         TCGA-XM-A8RL 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-XM-AAZ1         TCGA-XM-AAZ2         TCGA-XM-AAZ3 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-XU-A92Q         TCGA-XU-A92R         TCGA-XU-A92U 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-XU-A92V         TCGA-XU-A92X         TCGA-XU-A92Z 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-XU-A931         TCGA-XU-A932         TCGA-XU-A933 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-XU-AAY0         TCGA-XU-AAY1         TCGA-YT-A95D 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-YT-A95E         TCGA-YT-A95F         TCGA-YT-A95G 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-YT-A95H         TCGA-ZB-A961         TCGA-ZB-A962 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-ZB-A963         TCGA-ZB-A964         TCGA-ZB-A965 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-ZB-A966         TCGA-ZB-A969         TCGA-ZB-A96A 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-ZB-A96B         TCGA-ZB-A96C         TCGA-ZB-A96D 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-ZB-A96I         TCGA-ZB-A96P         TCGA-ZB-A96Q 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-ZB-A96R         TCGA-ZB-A96V         TCGA-ZC-AAA7 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-ZC-AAAA         TCGA-ZC-AAAF         TCGA-ZC-AAAH 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-ZL-A9V6 
"18P GAIN WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  18P GAIN MUTATED        0      0      0      2
  18P GAIN WILD-TYPE     16     23     31     18
D17V4, multiclass
[1] "Remove cluster labels:" "18P GAIN MUTATED"      
clus
  18P GAIN MUTATED 18P GAIN WILD-TYPE 
                 2                 88 
        TCGA-3G-AB0O         TCGA-3G-AB0Q         TCGA-3G-AB0T 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-3G-AB14         TCGA-3G-AB19         TCGA-3Q-A9WF 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-3S-AAYX         TCGA-4V-A9QL         TCGA-4V-A9QN 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-4V-A9QS         TCGA-4V-A9QW         TCGA-4V-A9QX 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-4X-A9F9         TCGA-4X-A9FB         TCGA-4X-A9FC 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-5G-A9ZZ         TCGA-5K-AAAP         TCGA-5U-AB0E 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-5U-AB0F         TCGA-5V-A9RR         TCGA-X7-A8D6 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-X7-A8D7         TCGA-X7-A8D9         TCGA-X7-A8DB 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-X7-A8DC         TCGA-X7-A8DD         TCGA-X7-A8DE 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-X7-A8DF         TCGA-X7-A8DG         TCGA-X7-A8DI 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-X7-A8DJ         TCGA-X7-A8M0         TCGA-X7-A8M1 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-X7-A8M3         TCGA-X7-A8M4         TCGA-X7-A8M5 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-X7-A8M6         TCGA-X7-A8M7         TCGA-XM-A8R8 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-XM-A8RB         TCGA-XM-A8RC         TCGA-XM-A8RD 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-XM-A8RE         TCGA-XM-A8RF         TCGA-XM-A8RG 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-XM-A8RH         TCGA-XM-A8RI         TCGA-XM-A8RL 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-XM-AAZ1         TCGA-XM-AAZ2         TCGA-XM-AAZ3 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-XU-A92Q         TCGA-XU-A92R         TCGA-XU-A92U 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-XU-A92V         TCGA-XU-A92X         TCGA-XU-A92Z 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-XU-A931         TCGA-XU-A932         TCGA-XU-A933 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-XU-AAY0         TCGA-XU-AAY1         TCGA-YT-A95D 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-YT-A95E         TCGA-YT-A95F         TCGA-YT-A95G 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-YT-A95H         TCGA-ZB-A961         TCGA-ZB-A962 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-ZB-A963         TCGA-ZB-A964         TCGA-ZB-A965 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-ZB-A966         TCGA-ZB-A969         TCGA-ZB-A96A 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-ZB-A96B         TCGA-ZB-A96C         TCGA-ZB-A96D 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-ZB-A96I         TCGA-ZB-A96P         TCGA-ZB-A96Q 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-ZB-A96R         TCGA-ZB-A96V         TCGA-ZC-AAA7 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-ZC-AAAA         TCGA-ZC-AAAF         TCGA-ZC-AAAH 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-ZL-A9V6 
"18P GAIN WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  18P GAIN MUTATED        1      0      0      2
  18P GAIN WILD-TYPE     44     30     30     12
D17V5, multiclass
        clus
vv       18P GAIN MUTATED 18P GAIN WILD-TYPE
  CLUS_1                1                 44
  CLUS_2                0                 30
  CLUS_3                0                 30
  CLUS_4                2                 12
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  18P GAIN MUTATED        1      0      0      2
  18P GAIN WILD-TYPE     46     42     20      8
D17V6, multiclass
        clus
vv       18P GAIN MUTATED 18P GAIN WILD-TYPE
  CLUS_1                1                 46
  CLUS_2                0                 42
  CLUS_3                0                 20
  CLUS_4                2                  8
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  18P GAIN MUTATED        3      0      0      0
  18P GAIN WILD-TYPE     53     61      5      1
D17V7, multiclass
        clus
vv       18P GAIN MUTATED 18P GAIN WILD-TYPE
  CLUS_1                3                 53
  CLUS_2                0                 61
  CLUS_3                0                  5
  CLUS_4                0                  1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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
  18P GAIN MUTATED        1      0      1      1      0      0
  18P GAIN WILD-TYPE     26     18     27      6     16     27
D17V8, multiclass
        clus
vv       18P GAIN MUTATED 18P GAIN WILD-TYPE
  CLUS_1                1                 26
  CLUS_2                0                 18
  CLUS_3                1                 27
  CLUS_4                1                  6
  CLUS_5                0                 16
  CLUS_6                0                 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
  18P GAIN MUTATED        0      0      3      0
  18P GAIN WILD-TYPE     28     51     40      1
D17V9, multiclass
        clus
vv       18P GAIN MUTATED 18P GAIN WILD-TYPE
  CLUS_1                0                 28
  CLUS_2                0                 51
  CLUS_3                3                 40
  CLUS_4                0                  1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  18P GAIN MUTATED        1      0      2      0
  18P GAIN WILD-TYPE     26     33     33     28
D17V10, multiclass
        clus
vv       18P GAIN MUTATED 18P GAIN WILD-TYPE
  CLUS_1                1                 26
  CLUS_2                0                 33
  CLUS_3                2                 33
  CLUS_4                0                 28
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(18) Variable = 18Q GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  18Q GAIN MUTATED        1      0      2      0      0
  18Q GAIN WILD-TYPE     35     27     17     31     10
D18V1, multiclass
        clus
vv       18Q GAIN MUTATED 18Q GAIN WILD-TYPE
  CLUS_1                1                 35
  CLUS_2                0                 27
  CLUS_3                2                 17
  CLUS_4                0                 31
  CLUS_5                0                 10
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  18Q GAIN MUTATED        0      0      1      2      0      0      0      0
  18Q GAIN WILD-TYPE     37     23     18      8     18      8      2      6
D18V2, multiclass
        clus
vv       18Q GAIN MUTATED 18Q GAIN WILD-TYPE
  CLUS_1                0                 37
  CLUS_2                0                 23
  CLUS_3                1                 18
  CLUS_4                2                  8
  CLUS_5                0                 18
  CLUS_6                0                  8
  CLUS_7                0                  2
  CLUS_8                0                  6
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  18Q GAIN MUTATED        1      1      0
  18Q GAIN WILD-TYPE     30     24     34
D18V3, multiclass
[1] "Remove cluster labels:" "18Q GAIN MUTATED"      
clus
  18Q GAIN MUTATED 18Q GAIN WILD-TYPE 
                 2                 88 
        TCGA-3G-AB0O         TCGA-3G-AB0Q         TCGA-3G-AB0T 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-3G-AB14         TCGA-3G-AB19         TCGA-3Q-A9WF 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-3S-AAYX         TCGA-4V-A9QL         TCGA-4V-A9QN 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-4V-A9QS         TCGA-4V-A9QW         TCGA-4V-A9QX 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-4X-A9F9         TCGA-4X-A9FB         TCGA-4X-A9FC 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-5G-A9ZZ         TCGA-5K-AAAP         TCGA-5U-AB0E 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-5U-AB0F         TCGA-5V-A9RR         TCGA-X7-A8D6 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-X7-A8D7         TCGA-X7-A8D9         TCGA-X7-A8DB 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-X7-A8DC         TCGA-X7-A8DD         TCGA-X7-A8DE 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-X7-A8DF         TCGA-X7-A8DG         TCGA-X7-A8DI 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-X7-A8DJ         TCGA-X7-A8M0         TCGA-X7-A8M1 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-X7-A8M3         TCGA-X7-A8M4         TCGA-X7-A8M5 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-X7-A8M6         TCGA-X7-A8M7         TCGA-XM-A8R8 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-XM-A8RB         TCGA-XM-A8RC         TCGA-XM-A8RD 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-XM-A8RE         TCGA-XM-A8RF         TCGA-XM-A8RG 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-XM-A8RH         TCGA-XM-A8RI         TCGA-XM-A8RL 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-XM-AAZ1         TCGA-XM-AAZ2         TCGA-XM-AAZ3 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-XU-A92Q         TCGA-XU-A92R         TCGA-XU-A92U 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-XU-A92V         TCGA-XU-A92X         TCGA-XU-A92Z 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-XU-A931         TCGA-XU-A932         TCGA-XU-A933 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-XU-AAY0         TCGA-XU-AAY1         TCGA-YT-A95D 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-YT-A95E         TCGA-YT-A95F         TCGA-YT-A95G 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-YT-A95H         TCGA-ZB-A961         TCGA-ZB-A962 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-ZB-A963         TCGA-ZB-A964         TCGA-ZB-A965 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-ZB-A966         TCGA-ZB-A969         TCGA-ZB-A96A 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-ZB-A96B         TCGA-ZB-A96C         TCGA-ZB-A96D 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-ZB-A96I         TCGA-ZB-A96P         TCGA-ZB-A96Q 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-ZB-A96R         TCGA-ZB-A96V         TCGA-ZC-AAA7 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-ZC-AAAA         TCGA-ZC-AAAF         TCGA-ZC-AAAH 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-ZL-A9V6 
"18Q GAIN WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  18Q GAIN MUTATED        0      0      0      2
  18Q GAIN WILD-TYPE     16     23     31     18
D18V4, multiclass
[1] "Remove cluster labels:" "18Q GAIN MUTATED"      
clus
  18Q GAIN MUTATED 18Q GAIN WILD-TYPE 
                 2                 88 
        TCGA-3G-AB0O         TCGA-3G-AB0Q         TCGA-3G-AB0T 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-3G-AB14         TCGA-3G-AB19         TCGA-3Q-A9WF 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-3S-AAYX         TCGA-4V-A9QL         TCGA-4V-A9QN 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-4V-A9QS         TCGA-4V-A9QW         TCGA-4V-A9QX 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-4X-A9F9         TCGA-4X-A9FB         TCGA-4X-A9FC 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-5G-A9ZZ         TCGA-5K-AAAP         TCGA-5U-AB0E 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-5U-AB0F         TCGA-5V-A9RR         TCGA-X7-A8D6 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-X7-A8D7         TCGA-X7-A8D9         TCGA-X7-A8DB 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-X7-A8DC         TCGA-X7-A8DD         TCGA-X7-A8DE 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-X7-A8DF         TCGA-X7-A8DG         TCGA-X7-A8DI 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-X7-A8DJ         TCGA-X7-A8M0         TCGA-X7-A8M1 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-X7-A8M3         TCGA-X7-A8M4         TCGA-X7-A8M5 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-X7-A8M6         TCGA-X7-A8M7         TCGA-XM-A8R8 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-XM-A8RB         TCGA-XM-A8RC         TCGA-XM-A8RD 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-XM-A8RE         TCGA-XM-A8RF         TCGA-XM-A8RG 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-XM-A8RH         TCGA-XM-A8RI         TCGA-XM-A8RL 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-XM-AAZ1         TCGA-XM-AAZ2         TCGA-XM-AAZ3 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-XU-A92Q         TCGA-XU-A92R         TCGA-XU-A92U 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-XU-A92V         TCGA-XU-A92X         TCGA-XU-A92Z 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-XU-A931         TCGA-XU-A932         TCGA-XU-A933 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-XU-AAY0         TCGA-XU-AAY1         TCGA-YT-A95D 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-YT-A95E         TCGA-YT-A95F         TCGA-YT-A95G 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-YT-A95H         TCGA-ZB-A961         TCGA-ZB-A962 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-ZB-A963         TCGA-ZB-A964         TCGA-ZB-A965 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-ZB-A966         TCGA-ZB-A969         TCGA-ZB-A96A 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-ZB-A96B         TCGA-ZB-A96C         TCGA-ZB-A96D 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-ZB-A96I         TCGA-ZB-A96P         TCGA-ZB-A96Q 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-ZB-A96R         TCGA-ZB-A96V         TCGA-ZC-AAA7 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-ZC-AAAA         TCGA-ZC-AAAF         TCGA-ZC-AAAH 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-ZL-A9V6 
"18Q GAIN WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  18Q GAIN MUTATED        1      0      0      2
  18Q GAIN WILD-TYPE     44     30     30     12
D18V5, multiclass
        clus
vv       18Q GAIN MUTATED 18Q GAIN WILD-TYPE
  CLUS_1                1                 44
  CLUS_2                0                 30
  CLUS_3                0                 30
  CLUS_4                2                 12
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  18Q GAIN MUTATED        1      0      0      2
  18Q GAIN WILD-TYPE     46     42     20      8
D18V6, multiclass
        clus
vv       18Q GAIN MUTATED 18Q GAIN WILD-TYPE
  CLUS_1                1                 46
  CLUS_2                0                 42
  CLUS_3                0                 20
  CLUS_4                2                  8
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  18Q GAIN MUTATED        3      0      0      0
  18Q GAIN WILD-TYPE     53     61      5      1
D18V7, multiclass
        clus
vv       18Q GAIN MUTATED 18Q GAIN WILD-TYPE
  CLUS_1                3                 53
  CLUS_2                0                 61
  CLUS_3                0                  5
  CLUS_4                0                  1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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
  18Q GAIN MUTATED        1      0      1      1      0      0
  18Q GAIN WILD-TYPE     26     18     27      6     16     27
D18V8, multiclass
        clus
vv       18Q GAIN MUTATED 18Q GAIN WILD-TYPE
  CLUS_1                1                 26
  CLUS_2                0                 18
  CLUS_3                1                 27
  CLUS_4                1                  6
  CLUS_5                0                 16
  CLUS_6                0                 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
  18Q GAIN MUTATED        0      0      3      0
  18Q GAIN WILD-TYPE     28     51     40      1
D18V9, multiclass
        clus
vv       18Q GAIN MUTATED 18Q GAIN WILD-TYPE
  CLUS_1                0                 28
  CLUS_2                0                 51
  CLUS_3                3                 40
  CLUS_4                0                  1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  18Q GAIN MUTATED        1      0      2      0
  18Q GAIN WILD-TYPE     26     33     33     28
D18V10, multiclass
        clus
vv       18Q GAIN MUTATED 18Q GAIN WILD-TYPE
  CLUS_1                1                 26
  CLUS_2                0                 33
  CLUS_3                2                 33
  CLUS_4                0                 28
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(19) Variable = 19P GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  19P GAIN MUTATED        3      0      0      0      0
  19P GAIN WILD-TYPE     33     27     19     31     10
D19V1, multiclass
        clus
vv       19P GAIN MUTATED 19P GAIN WILD-TYPE
  CLUS_1                3                 33
  CLUS_2                0                 27
  CLUS_3                0                 19
  CLUS_4                0                 31
  CLUS_5                0                 10
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  19P GAIN MUTATED        0      0      2      1      0      0      0      0
  19P GAIN WILD-TYPE     37     23     17      9     18      8      2      6
D19V2, multiclass
        clus
vv       19P GAIN MUTATED 19P GAIN WILD-TYPE
  CLUS_1                0                 37
  CLUS_2                0                 23
  CLUS_3                2                 17
  CLUS_4                1                  9
  CLUS_5                0                 18
  CLUS_6                0                  8
  CLUS_7                0                  2
  CLUS_8                0                  6
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  19P GAIN MUTATED        1      0      0
  19P GAIN WILD-TYPE     30     25     34
D19V3, multiclass
[1] "Remove cluster labels:" "19P GAIN MUTATED"      
clus
  19P GAIN MUTATED 19P GAIN WILD-TYPE 
                 1                 89 
        TCGA-3G-AB0O         TCGA-3G-AB0Q         TCGA-3G-AB0T 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-3G-AB14         TCGA-3G-AB19         TCGA-3Q-A9WF 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-3S-A8YW         TCGA-3S-AAYX         TCGA-4V-A9QL 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-4V-A9QN         TCGA-4V-A9QS         TCGA-4V-A9QW 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-4V-A9QX         TCGA-4X-A9F9         TCGA-4X-A9FB 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-4X-A9FC         TCGA-5G-A9ZZ         TCGA-5K-AAAP 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-5U-AB0E         TCGA-5U-AB0F         TCGA-5V-A9RR 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-X7-A8D6         TCGA-X7-A8D7         TCGA-X7-A8D9 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-X7-A8DB         TCGA-X7-A8DC         TCGA-X7-A8DD 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-X7-A8DE         TCGA-X7-A8DF         TCGA-X7-A8DG 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-X7-A8DI         TCGA-X7-A8DJ         TCGA-X7-A8M0 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-X7-A8M1         TCGA-X7-A8M4         TCGA-X7-A8M5 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-X7-A8M6         TCGA-X7-A8M7         TCGA-XM-A8R8 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-XM-A8RB         TCGA-XM-A8RC         TCGA-XM-A8RD 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-XM-A8RE         TCGA-XM-A8RF         TCGA-XM-A8RG 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-XM-A8RH         TCGA-XM-A8RI         TCGA-XM-A8RL 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-XM-AAZ1         TCGA-XM-AAZ2         TCGA-XM-AAZ3 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-XU-A92Q         TCGA-XU-A92R         TCGA-XU-A92U 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-XU-A92V         TCGA-XU-A92X         TCGA-XU-A92Z 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-XU-A931         TCGA-XU-A932         TCGA-XU-A933 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-XU-A936         TCGA-XU-AAY0         TCGA-XU-AAY1 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-YT-A95D         TCGA-YT-A95E         TCGA-YT-A95F 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-YT-A95G         TCGA-YT-A95H         TCGA-ZB-A961 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-ZB-A962         TCGA-ZB-A963         TCGA-ZB-A964 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-ZB-A965         TCGA-ZB-A966         TCGA-ZB-A969 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-ZB-A96A         TCGA-ZB-A96B         TCGA-ZB-A96C 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-ZB-A96D         TCGA-ZB-A96I         TCGA-ZB-A96P 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-ZB-A96Q         TCGA-ZB-A96R         TCGA-ZB-A96V 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-ZC-AAA7         TCGA-ZC-AAAA         TCGA-ZC-AAAF 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-ZC-AAAH         TCGA-ZL-A9V6 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  19P GAIN MUTATED        0      0      0      1
  19P GAIN WILD-TYPE     16     23     31     19
D19V4, multiclass
[1] "Remove cluster labels:" "19P GAIN MUTATED"      
clus
  19P GAIN MUTATED 19P GAIN WILD-TYPE 
                 1                 89 
        TCGA-3G-AB0O         TCGA-3G-AB0Q         TCGA-3G-AB0T 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-3G-AB14         TCGA-3G-AB19         TCGA-3Q-A9WF 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-3S-A8YW         TCGA-3S-AAYX         TCGA-4V-A9QL 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-4V-A9QN         TCGA-4V-A9QS         TCGA-4V-A9QW 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-4V-A9QX         TCGA-4X-A9F9         TCGA-4X-A9FB 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-4X-A9FC         TCGA-5G-A9ZZ         TCGA-5K-AAAP 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-5U-AB0E         TCGA-5U-AB0F         TCGA-5V-A9RR 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-X7-A8D6         TCGA-X7-A8D7         TCGA-X7-A8D9 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-X7-A8DB         TCGA-X7-A8DC         TCGA-X7-A8DD 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-X7-A8DE         TCGA-X7-A8DF         TCGA-X7-A8DG 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-X7-A8DI         TCGA-X7-A8DJ         TCGA-X7-A8M0 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-X7-A8M1         TCGA-X7-A8M4         TCGA-X7-A8M5 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-X7-A8M6         TCGA-X7-A8M7         TCGA-XM-A8R8 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-XM-A8RB         TCGA-XM-A8RC         TCGA-XM-A8RD 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-XM-A8RE         TCGA-XM-A8RF         TCGA-XM-A8RG 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-XM-A8RH         TCGA-XM-A8RI         TCGA-XM-A8RL 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-XM-AAZ1         TCGA-XM-AAZ2         TCGA-XM-AAZ3 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-XU-A92Q         TCGA-XU-A92R         TCGA-XU-A92U 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-XU-A92V         TCGA-XU-A92X         TCGA-XU-A92Z 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-XU-A931         TCGA-XU-A932         TCGA-XU-A933 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-XU-A936         TCGA-XU-AAY0         TCGA-XU-AAY1 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-YT-A95D         TCGA-YT-A95E         TCGA-YT-A95F 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-YT-A95G         TCGA-YT-A95H         TCGA-ZB-A961 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-ZB-A962         TCGA-ZB-A963         TCGA-ZB-A964 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-ZB-A965         TCGA-ZB-A966         TCGA-ZB-A969 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-ZB-A96A         TCGA-ZB-A96B         TCGA-ZB-A96C 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-ZB-A96D         TCGA-ZB-A96I         TCGA-ZB-A96P 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-ZB-A96Q         TCGA-ZB-A96R         TCGA-ZB-A96V 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-ZC-AAA7         TCGA-ZC-AAAA         TCGA-ZC-AAAF 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
        TCGA-ZC-AAAH         TCGA-ZL-A9V6 
"19P GAIN WILD-TYPE" "19P GAIN WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  19P GAIN MUTATED        3      0      0      0
  19P GAIN WILD-TYPE     42     30     30     14
D19V5, multiclass
        clus
vv       19P GAIN MUTATED 19P GAIN WILD-TYPE
  CLUS_1                3                 42
  CLUS_2                0                 30
  CLUS_3                0                 30
  CLUS_4                0                 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
  19P GAIN MUTATED        3      0      0      0
  19P GAIN WILD-TYPE     44     42     20     10
D19V6, multiclass
        clus
vv       19P GAIN MUTATED 19P GAIN WILD-TYPE
  CLUS_1                3                 44
  CLUS_2                0                 42
  CLUS_3                0                 20
  CLUS_4                0                 10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  19P GAIN MUTATED        2      0      1      0
  19P GAIN WILD-TYPE     54     61      4      1
D19V7, multiclass
        clus
vv       19P GAIN MUTATED 19P GAIN WILD-TYPE
  CLUS_1                2                 54
  CLUS_2                0                 61
  CLUS_3                1                  4
  CLUS_4                0                  1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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
  19P GAIN MUTATED        2      0      1      0      0      0
  19P GAIN WILD-TYPE     25     18     27      7     16     27
D19V8, multiclass
        clus
vv       19P GAIN MUTATED 19P GAIN WILD-TYPE
  CLUS_1                2                 25
  CLUS_2                0                 18
  CLUS_3                1                 27
  CLUS_4                0                  7
  CLUS_5                0                 16
  CLUS_6                0                 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
  19P GAIN MUTATED        0      0      3      0
  19P GAIN WILD-TYPE     28     51     40      1
D19V9, multiclass
        clus
vv       19P GAIN MUTATED 19P GAIN WILD-TYPE
  CLUS_1                0                 28
  CLUS_2                0                 51
  CLUS_3                3                 40
  CLUS_4                0                  1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  19P GAIN MUTATED        1      0      2      0
  19P GAIN WILD-TYPE     26     33     33     28
D19V10, multiclass
        clus
vv       19P GAIN MUTATED 19P GAIN WILD-TYPE
  CLUS_1                1                 26
  CLUS_2                0                 33
  CLUS_3                2                 33
  CLUS_4                0                 28
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(20) Variable = 19Q GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  19Q GAIN MUTATED        3      0      0      0      0
  19Q GAIN WILD-TYPE     33     27     19     31     10
D20V1, multiclass
        clus
vv       19Q GAIN MUTATED 19Q GAIN WILD-TYPE
  CLUS_1                3                 33
  CLUS_2                0                 27
  CLUS_3                0                 19
  CLUS_4                0                 31
  CLUS_5                0                 10
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  19Q GAIN MUTATED        0      0      2      1      0      0      0      0
  19Q GAIN WILD-TYPE     37     23     17      9     18      8      2      6
D20V2, multiclass
        clus
vv       19Q GAIN MUTATED 19Q GAIN WILD-TYPE
  CLUS_1                0                 37
  CLUS_2                0                 23
  CLUS_3                2                 17
  CLUS_4                1                  9
  CLUS_5                0                 18
  CLUS_6                0                  8
  CLUS_7                0                  2
  CLUS_8                0                  6
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  19Q GAIN MUTATED        1      0      0
  19Q GAIN WILD-TYPE     30     25     34
D20V3, multiclass
[1] "Remove cluster labels:" "19Q GAIN MUTATED"      
clus
  19Q GAIN MUTATED 19Q GAIN WILD-TYPE 
                 1                 89 
        TCGA-3G-AB0O         TCGA-3G-AB0Q         TCGA-3G-AB0T 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-3G-AB14         TCGA-3G-AB19         TCGA-3Q-A9WF 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-3S-A8YW         TCGA-3S-AAYX         TCGA-4V-A9QL 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-4V-A9QN         TCGA-4V-A9QS         TCGA-4V-A9QW 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-4V-A9QX         TCGA-4X-A9F9         TCGA-4X-A9FB 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-4X-A9FC         TCGA-5G-A9ZZ         TCGA-5K-AAAP 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-5U-AB0E         TCGA-5U-AB0F         TCGA-5V-A9RR 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-X7-A8D6         TCGA-X7-A8D7         TCGA-X7-A8D9 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-X7-A8DB         TCGA-X7-A8DC         TCGA-X7-A8DD 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-X7-A8DE         TCGA-X7-A8DF         TCGA-X7-A8DG 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-X7-A8DI         TCGA-X7-A8DJ         TCGA-X7-A8M0 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-X7-A8M1         TCGA-X7-A8M4         TCGA-X7-A8M5 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-X7-A8M6         TCGA-X7-A8M7         TCGA-XM-A8R8 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-XM-A8RB         TCGA-XM-A8RC         TCGA-XM-A8RD 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-XM-A8RE         TCGA-XM-A8RF         TCGA-XM-A8RG 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-XM-A8RH         TCGA-XM-A8RI         TCGA-XM-A8RL 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-XM-AAZ1         TCGA-XM-AAZ2         TCGA-XM-AAZ3 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-XU-A92Q         TCGA-XU-A92R         TCGA-XU-A92U 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-XU-A92V         TCGA-XU-A92X         TCGA-XU-A92Z 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-XU-A931         TCGA-XU-A932         TCGA-XU-A933 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-XU-A936         TCGA-XU-AAY0         TCGA-XU-AAY1 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-YT-A95D         TCGA-YT-A95E         TCGA-YT-A95F 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-YT-A95G         TCGA-YT-A95H         TCGA-ZB-A961 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-ZB-A962         TCGA-ZB-A963         TCGA-ZB-A964 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-ZB-A965         TCGA-ZB-A966         TCGA-ZB-A969 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-ZB-A96A         TCGA-ZB-A96B         TCGA-ZB-A96C 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-ZB-A96D         TCGA-ZB-A96I         TCGA-ZB-A96P 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-ZB-A96Q         TCGA-ZB-A96R         TCGA-ZB-A96V 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-ZC-AAA7         TCGA-ZC-AAAA         TCGA-ZC-AAAF 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-ZC-AAAH         TCGA-ZL-A9V6 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  19Q GAIN MUTATED        0      0      0      1
  19Q GAIN WILD-TYPE     16     23     31     19
D20V4, multiclass
[1] "Remove cluster labels:" "19Q GAIN MUTATED"      
clus
  19Q GAIN MUTATED 19Q GAIN WILD-TYPE 
                 1                 89 
        TCGA-3G-AB0O         TCGA-3G-AB0Q         TCGA-3G-AB0T 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-3G-AB14         TCGA-3G-AB19         TCGA-3Q-A9WF 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-3S-A8YW         TCGA-3S-AAYX         TCGA-4V-A9QL 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-4V-A9QN         TCGA-4V-A9QS         TCGA-4V-A9QW 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-4V-A9QX         TCGA-4X-A9F9         TCGA-4X-A9FB 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-4X-A9FC         TCGA-5G-A9ZZ         TCGA-5K-AAAP 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-5U-AB0E         TCGA-5U-AB0F         TCGA-5V-A9RR 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-X7-A8D6         TCGA-X7-A8D7         TCGA-X7-A8D9 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-X7-A8DB         TCGA-X7-A8DC         TCGA-X7-A8DD 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-X7-A8DE         TCGA-X7-A8DF         TCGA-X7-A8DG 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-X7-A8DI         TCGA-X7-A8DJ         TCGA-X7-A8M0 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-X7-A8M1         TCGA-X7-A8M4         TCGA-X7-A8M5 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-X7-A8M6         TCGA-X7-A8M7         TCGA-XM-A8R8 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-XM-A8RB         TCGA-XM-A8RC         TCGA-XM-A8RD 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-XM-A8RE         TCGA-XM-A8RF         TCGA-XM-A8RG 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-XM-A8RH         TCGA-XM-A8RI         TCGA-XM-A8RL 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-XM-AAZ1         TCGA-XM-AAZ2         TCGA-XM-AAZ3 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-XU-A92Q         TCGA-XU-A92R         TCGA-XU-A92U 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-XU-A92V         TCGA-XU-A92X         TCGA-XU-A92Z 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-XU-A931         TCGA-XU-A932         TCGA-XU-A933 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-XU-A936         TCGA-XU-AAY0         TCGA-XU-AAY1 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-YT-A95D         TCGA-YT-A95E         TCGA-YT-A95F 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-YT-A95G         TCGA-YT-A95H         TCGA-ZB-A961 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-ZB-A962         TCGA-ZB-A963         TCGA-ZB-A964 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-ZB-A965         TCGA-ZB-A966         TCGA-ZB-A969 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-ZB-A96A         TCGA-ZB-A96B         TCGA-ZB-A96C 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-ZB-A96D         TCGA-ZB-A96I         TCGA-ZB-A96P 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-ZB-A96Q         TCGA-ZB-A96R         TCGA-ZB-A96V 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-ZC-AAA7         TCGA-ZC-AAAA         TCGA-ZC-AAAF 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
        TCGA-ZC-AAAH         TCGA-ZL-A9V6 
"19Q GAIN WILD-TYPE" "19Q GAIN WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  19Q GAIN MUTATED        3      0      0      0
  19Q GAIN WILD-TYPE     42     30     30     14
D20V5, multiclass
        clus
vv       19Q GAIN MUTATED 19Q GAIN WILD-TYPE
  CLUS_1                3                 42
  CLUS_2                0                 30
  CLUS_3                0                 30
  CLUS_4                0                 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
  19Q GAIN MUTATED        3      0      0      0
  19Q GAIN WILD-TYPE     44     42     20     10
D20V6, multiclass
        clus
vv       19Q GAIN MUTATED 19Q GAIN WILD-TYPE
  CLUS_1                3                 44
  CLUS_2                0                 42
  CLUS_3                0                 20
  CLUS_4                0                 10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  19Q GAIN MUTATED        2      0      1      0
  19Q GAIN WILD-TYPE     54     61      4      1
D20V7, multiclass
        clus
vv       19Q GAIN MUTATED 19Q GAIN WILD-TYPE
  CLUS_1                2                 54
  CLUS_2                0                 61
  CLUS_3                1                  4
  CLUS_4                0                  1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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
  19Q GAIN MUTATED        2      0      1      0      0      0
  19Q GAIN WILD-TYPE     25     18     27      7     16     27
D20V8, multiclass
        clus
vv       19Q GAIN MUTATED 19Q GAIN WILD-TYPE
  CLUS_1                2                 25
  CLUS_2                0                 18
  CLUS_3                1                 27
  CLUS_4                0                  7
  CLUS_5                0                 16
  CLUS_6                0                 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
  19Q GAIN MUTATED        0      0      3      0
  19Q GAIN WILD-TYPE     28     51     40      1
D20V9, multiclass
        clus
vv       19Q GAIN MUTATED 19Q GAIN WILD-TYPE
  CLUS_1                0                 28
  CLUS_2                0                 51
  CLUS_3                3                 40
  CLUS_4                0                  1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  19Q GAIN MUTATED        1      0      2      0
  19Q GAIN WILD-TYPE     26     33     33     28
D20V10, multiclass
        clus
vv       19Q GAIN MUTATED 19Q GAIN WILD-TYPE
  CLUS_1                1                 26
  CLUS_2                0                 33
  CLUS_3                2                 33
  CLUS_4                0                 28
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(21) Variable = 20P GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  20P GAIN MUTATED        4      1      4      1      0
  20P GAIN WILD-TYPE     32     26     15     30     10
D21V1, multiclass
        clus
vv       20P GAIN MUTATED 20P GAIN WILD-TYPE
  CLUS_1                4                 32
  CLUS_2                1                 26
  CLUS_3                4                 15
  CLUS_4                1                 30
  CLUS_5                0                 10
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  20P GAIN MUTATED        1      0      5      4      0      0      0      0
  20P GAIN WILD-TYPE     36     23     14      6     18      8      2      6
D21V2, multiclass
        clus
vv       20P GAIN MUTATED 20P GAIN WILD-TYPE
  CLUS_1                1                 36
  CLUS_2                0                 23
  CLUS_3                5                 14
  CLUS_4                4                  6
  CLUS_5                0                 18
  CLUS_6                0                  8
  CLUS_7                0                  2
  CLUS_8                0                  6
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  20P GAIN MUTATED        6      1      0
  20P GAIN WILD-TYPE     25     24     34
D21V3, multiclass
        clus
vv       20P GAIN MUTATED 20P GAIN WILD-TYPE
  CLUS_1                6                 25
  CLUS_2                1                 24
  CLUS_3                0                 34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  20P GAIN MUTATED        1      0      0      6
  20P GAIN WILD-TYPE     15     23     31     14
D21V4, multiclass
        clus
vv       20P GAIN MUTATED 20P GAIN WILD-TYPE
  CLUS_1                1                 15
  CLUS_2                0                 23
  CLUS_3                0                 31
  CLUS_4                6                 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
  20P GAIN MUTATED        6      0      0      4
  20P GAIN WILD-TYPE     39     30     30     10
D21V5, multiclass
        clus
vv       20P GAIN MUTATED 20P GAIN WILD-TYPE
  CLUS_1                6                 39
  CLUS_2                0                 30
  CLUS_3                0                 30
  CLUS_4                4                 10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  20P GAIN MUTATED        6      0      0      4
  20P GAIN WILD-TYPE     41     42     20      6
D21V6, multiclass
        clus
vv       20P GAIN MUTATED 20P GAIN WILD-TYPE
  CLUS_1                6                 41
  CLUS_2                0                 42
  CLUS_3                0                 20
  CLUS_4                4                  6
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  20P GAIN MUTATED        9      1      0      0
  20P GAIN WILD-TYPE     47     60      5      1
D21V7, multiclass
        clus
vv       20P GAIN MUTATED 20P GAIN WILD-TYPE
  CLUS_1                9                 47
  CLUS_2                1                 60
  CLUS_3                0                  5
  CLUS_4                0                  1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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
  20P GAIN MUTATED        3      0      3      3      1      0
  20P GAIN WILD-TYPE     24     18     25      4     15     27
D21V8, multiclass
        clus
vv       20P GAIN MUTATED 20P GAIN WILD-TYPE
  CLUS_1                3                 24
  CLUS_2                0                 18
  CLUS_3                3                 25
  CLUS_4                3                  4
  CLUS_5                1                 15
  CLUS_6                0                 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
  20P GAIN MUTATED        0      0     10      0
  20P GAIN WILD-TYPE     28     51     33      1
D21V9, multiclass
        clus
vv       20P GAIN MUTATED 20P GAIN WILD-TYPE
  CLUS_1                0                 28
  CLUS_2                0                 51
  CLUS_3               10                 33
  CLUS_4                0                  1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  20P GAIN MUTATED        2      1      7      0
  20P GAIN WILD-TYPE     25     32     28     28
D21V10, multiclass
        clus
vv       20P GAIN MUTATED 20P GAIN WILD-TYPE
  CLUS_1                2                 25
  CLUS_2                1                 32
  CLUS_3                7                 28
  CLUS_4                0                 28
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(22) Variable = 20Q GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  20Q GAIN MUTATED        4      1      4      1      0
  20Q GAIN WILD-TYPE     32     26     15     30     10
D22V1, multiclass
        clus
vv       20Q GAIN MUTATED 20Q GAIN WILD-TYPE
  CLUS_1                4                 32
  CLUS_2                1                 26
  CLUS_3                4                 15
  CLUS_4                1                 30
  CLUS_5                0                 10
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  20Q GAIN MUTATED        1      0      5      4      0      0      0      0
  20Q GAIN WILD-TYPE     36     23     14      6     18      8      2      6
D22V2, multiclass
        clus
vv       20Q GAIN MUTATED 20Q GAIN WILD-TYPE
  CLUS_1                1                 36
  CLUS_2                0                 23
  CLUS_3                5                 14
  CLUS_4                4                  6
  CLUS_5                0                 18
  CLUS_6                0                  8
  CLUS_7                0                  2
  CLUS_8                0                  6
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  20Q GAIN MUTATED        6      1      0
  20Q GAIN WILD-TYPE     25     24     34
D22V3, multiclass
        clus
vv       20Q GAIN MUTATED 20Q GAIN WILD-TYPE
  CLUS_1                6                 25
  CLUS_2                1                 24
  CLUS_3                0                 34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  20Q GAIN MUTATED        1      0      0      6
  20Q GAIN WILD-TYPE     15     23     31     14
D22V4, multiclass
        clus
vv       20Q GAIN MUTATED 20Q GAIN WILD-TYPE
  CLUS_1                1                 15
  CLUS_2                0                 23
  CLUS_3                0                 31
  CLUS_4                6                 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
  20Q GAIN MUTATED        6      0      0      4
  20Q GAIN WILD-TYPE     39     30     30     10
D22V5, multiclass
        clus
vv       20Q GAIN MUTATED 20Q GAIN WILD-TYPE
  CLUS_1                6                 39
  CLUS_2                0                 30
  CLUS_3                0                 30
  CLUS_4                4                 10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  20Q GAIN MUTATED        6      0      0      4
  20Q GAIN WILD-TYPE     41     42     20      6
D22V6, multiclass
        clus
vv       20Q GAIN MUTATED 20Q GAIN WILD-TYPE
  CLUS_1                6                 41
  CLUS_2                0                 42
  CLUS_3                0                 20
  CLUS_4                4                  6
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  20Q GAIN MUTATED        9      1      0      0
  20Q GAIN WILD-TYPE     47     60      5      1
D22V7, multiclass
        clus
vv       20Q GAIN MUTATED 20Q GAIN WILD-TYPE
  CLUS_1                9                 47
  CLUS_2                1                 60
  CLUS_3                0                  5
  CLUS_4                0                  1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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
  20Q GAIN MUTATED        3      0      3      3      1      0
  20Q GAIN WILD-TYPE     24     18     25      4     15     27
D22V8, multiclass
        clus
vv       20Q GAIN MUTATED 20Q GAIN WILD-TYPE
  CLUS_1                3                 24
  CLUS_2                0                 18
  CLUS_3                3                 25
  CLUS_4                3                  4
  CLUS_5                1                 15
  CLUS_6                0                 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
  20Q GAIN MUTATED        0      0     10      0
  20Q GAIN WILD-TYPE     28     51     33      1
D22V9, multiclass
        clus
vv       20Q GAIN MUTATED 20Q GAIN WILD-TYPE
  CLUS_1                0                 28
  CLUS_2                0                 51
  CLUS_3               10                 33
  CLUS_4                0                  1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  20Q GAIN MUTATED        2      1      7      0
  20Q GAIN WILD-TYPE     25     32     28     28
D22V10, multiclass
        clus
vv       20Q GAIN MUTATED 20Q GAIN WILD-TYPE
  CLUS_1                2                 25
  CLUS_2                1                 32
  CLUS_3                7                 28
  CLUS_4                0                 28
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(23) Variable = 21Q GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  21Q GAIN MUTATED        1      0      2      0      0
  21Q GAIN WILD-TYPE     35     27     17     31     10
D23V1, multiclass
        clus
vv       21Q GAIN MUTATED 21Q GAIN WILD-TYPE
  CLUS_1                1                 35
  CLUS_2                0                 27
  CLUS_3                2                 17
  CLUS_4                0                 31
  CLUS_5                0                 10
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  21Q GAIN MUTATED        0      1      1      1      0      0      0      0
  21Q GAIN WILD-TYPE     37     22     18      9     18      8      2      6
D23V2, multiclass
        clus
vv       21Q GAIN MUTATED 21Q GAIN WILD-TYPE
  CLUS_1                0                 37
  CLUS_2                1                 22
  CLUS_3                1                 18
  CLUS_4                1                  9
  CLUS_5                0                 18
  CLUS_6                0                  8
  CLUS_7                0                  2
  CLUS_8                0                  6
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  21Q GAIN MUTATED        2      1      0
  21Q GAIN WILD-TYPE     29     24     34
D23V3, multiclass
        clus
vv       21Q GAIN MUTATED 21Q GAIN WILD-TYPE
  CLUS_1                2                 29
  CLUS_2                1                 24
  CLUS_3                0                 34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  21Q GAIN MUTATED        0      1      0      2
  21Q GAIN WILD-TYPE     16     22     31     18
D23V4, multiclass
        clus
vv       21Q GAIN MUTATED 21Q GAIN WILD-TYPE
  CLUS_1                0                 16
  CLUS_2                1                 22
  CLUS_3                0                 31
  CLUS_4                2                 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"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  21Q GAIN MUTATED        1      0      1      1
  21Q GAIN WILD-TYPE     44     30     29     13
D23V5, multiclass
        clus
vv       21Q GAIN MUTATED 21Q GAIN WILD-TYPE
  CLUS_1                1                 44
  CLUS_2                0                 30
  CLUS_3                1                 29
  CLUS_4                1                 13
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  21Q GAIN MUTATED        1      0      1      1
  21Q GAIN WILD-TYPE     46     42     19      9
D23V6, multiclass
        clus
vv       21Q GAIN MUTATED 21Q GAIN WILD-TYPE
  CLUS_1                1                 46
  CLUS_2                0                 42
  CLUS_3                1                 19
  CLUS_4                1                  9
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  21Q GAIN MUTATED        2      1      0      0
  21Q GAIN WILD-TYPE     54     60      5      1
D23V7, multiclass
        clus
vv       21Q GAIN MUTATED 21Q GAIN WILD-TYPE
  CLUS_1                2                 54
  CLUS_2                1                 60
  CLUS_3                0                  5
  CLUS_4                0                  1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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
  21Q GAIN MUTATED        0      0      2      0      1      0
  21Q GAIN WILD-TYPE     27     18     26      7     15     27
D23V8, multiclass
        clus
vv       21Q GAIN MUTATED 21Q GAIN WILD-TYPE
  CLUS_1                0                 27
  CLUS_2                0                 18
  CLUS_3                2                 26
  CLUS_4                0                  7
  CLUS_5                1                 15
  CLUS_6                0                 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
  21Q GAIN MUTATED        0      1      2      0
  21Q GAIN WILD-TYPE     28     50     41      1
D23V9, multiclass
        clus
vv       21Q GAIN MUTATED 21Q GAIN WILD-TYPE
  CLUS_1                0                 28
  CLUS_2                1                 50
  CLUS_3                2                 41
  CLUS_4                0                  1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  21Q GAIN MUTATED        0      1      2      0
  21Q GAIN WILD-TYPE     27     32     33     28
D23V10, multiclass
        clus
vv       21Q GAIN MUTATED 21Q GAIN WILD-TYPE
  CLUS_1                0                 27
  CLUS_2                1                 32
  CLUS_3                2                 33
  CLUS_4                0                 28
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(24) Variable = 22Q GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  22Q GAIN MUTATED        4      0      0      0      0
  22Q GAIN WILD-TYPE     32     27     19     31     10
D24V1, multiclass
        clus
vv       22Q GAIN MUTATED 22Q GAIN WILD-TYPE
  CLUS_1                4                 32
  CLUS_2                0                 27
  CLUS_3                0                 19
  CLUS_4                0                 31
  CLUS_5                0                 10
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  22Q GAIN MUTATED        0      0      4      0      0      0      0      0
  22Q GAIN WILD-TYPE     37     23     15     10     18      8      2      6
D24V2, multiclass
        clus
vv       22Q GAIN MUTATED 22Q GAIN WILD-TYPE
  CLUS_1                0                 37
  CLUS_2                0                 23
  CLUS_3                4                 15
  CLUS_4                0                 10
  CLUS_5                0                 18
  CLUS_6                0                  8
  CLUS_7                0                  2
  CLUS_8                0                  6
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  22Q GAIN MUTATED        2      0      0
  22Q GAIN WILD-TYPE     29     25     34
D24V3, multiclass
[1] "Remove cluster labels:" "22Q GAIN MUTATED"      
clus
  22Q GAIN MUTATED 22Q GAIN WILD-TYPE 
                 2                 88 
        TCGA-3G-AB0O         TCGA-3G-AB0Q         TCGA-3G-AB0T 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-3G-AB14         TCGA-3G-AB19         TCGA-3Q-A9WF 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-3S-A8YW         TCGA-3S-AAYX         TCGA-4V-A9QL 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-4V-A9QN         TCGA-4V-A9QS         TCGA-4V-A9QW 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-4V-A9QX         TCGA-4X-A9F9         TCGA-4X-A9FB 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-4X-A9FC         TCGA-5G-A9ZZ         TCGA-5K-AAAP 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-5U-AB0E         TCGA-5U-AB0F         TCGA-5V-A9RR 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-X7-A8D6         TCGA-X7-A8D7         TCGA-X7-A8D9 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-X7-A8DB         TCGA-X7-A8DC         TCGA-X7-A8DD 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-X7-A8DE         TCGA-X7-A8DF         TCGA-X7-A8DG 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-X7-A8DI         TCGA-X7-A8DJ         TCGA-X7-A8M0 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-X7-A8M1         TCGA-X7-A8M4         TCGA-X7-A8M5 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-X7-A8M6         TCGA-X7-A8M7         TCGA-XM-A8R8 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-XM-A8RB         TCGA-XM-A8RC         TCGA-XM-A8RD 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-XM-A8RE         TCGA-XM-A8RF         TCGA-XM-A8RG 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-XM-A8RH         TCGA-XM-A8RI         TCGA-XM-A8RL 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-XM-AAZ1         TCGA-XM-AAZ2         TCGA-XM-AAZ3 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-XU-A92Q         TCGA-XU-A92R         TCGA-XU-A92U 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-XU-A92V         TCGA-XU-A92Z         TCGA-XU-A931 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-XU-A932         TCGA-XU-A933         TCGA-XU-A936 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-XU-AAY0         TCGA-XU-AAY1         TCGA-YT-A95D 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-YT-A95E         TCGA-YT-A95F         TCGA-YT-A95G 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-YT-A95H         TCGA-ZB-A961         TCGA-ZB-A962 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-ZB-A963         TCGA-ZB-A964         TCGA-ZB-A965 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-ZB-A966         TCGA-ZB-A969         TCGA-ZB-A96A 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-ZB-A96B         TCGA-ZB-A96C         TCGA-ZB-A96D 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-ZB-A96I         TCGA-ZB-A96P         TCGA-ZB-A96Q 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-ZB-A96R         TCGA-ZB-A96V         TCGA-ZC-AAA7 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-ZC-AAAA         TCGA-ZC-AAAF         TCGA-ZC-AAAH 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-ZL-A9V6 
"22Q GAIN WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  22Q GAIN MUTATED        0      0      0      2
  22Q GAIN WILD-TYPE     16     23     31     18
D24V4, multiclass
[1] "Remove cluster labels:" "22Q GAIN MUTATED"      
clus
  22Q GAIN MUTATED 22Q GAIN WILD-TYPE 
                 2                 88 
        TCGA-3G-AB0O         TCGA-3G-AB0Q         TCGA-3G-AB0T 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-3G-AB14         TCGA-3G-AB19         TCGA-3Q-A9WF 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-3S-A8YW         TCGA-3S-AAYX         TCGA-4V-A9QL 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-4V-A9QN         TCGA-4V-A9QS         TCGA-4V-A9QW 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-4V-A9QX         TCGA-4X-A9F9         TCGA-4X-A9FB 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-4X-A9FC         TCGA-5G-A9ZZ         TCGA-5K-AAAP 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-5U-AB0E         TCGA-5U-AB0F         TCGA-5V-A9RR 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-X7-A8D6         TCGA-X7-A8D7         TCGA-X7-A8D9 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-X7-A8DB         TCGA-X7-A8DC         TCGA-X7-A8DD 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-X7-A8DE         TCGA-X7-A8DF         TCGA-X7-A8DG 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-X7-A8DI         TCGA-X7-A8DJ         TCGA-X7-A8M0 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-X7-A8M1         TCGA-X7-A8M4         TCGA-X7-A8M5 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-X7-A8M6         TCGA-X7-A8M7         TCGA-XM-A8R8 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-XM-A8RB         TCGA-XM-A8RC         TCGA-XM-A8RD 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-XM-A8RE         TCGA-XM-A8RF         TCGA-XM-A8RG 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-XM-A8RH         TCGA-XM-A8RI         TCGA-XM-A8RL 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-XM-AAZ1         TCGA-XM-AAZ2         TCGA-XM-AAZ3 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-XU-A92Q         TCGA-XU-A92R         TCGA-XU-A92U 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-XU-A92V         TCGA-XU-A92Z         TCGA-XU-A931 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-XU-A932         TCGA-XU-A933         TCGA-XU-A936 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-XU-AAY0         TCGA-XU-AAY1         TCGA-YT-A95D 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-YT-A95E         TCGA-YT-A95F         TCGA-YT-A95G 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-YT-A95H         TCGA-ZB-A961         TCGA-ZB-A962 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-ZB-A963         TCGA-ZB-A964         TCGA-ZB-A965 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-ZB-A966         TCGA-ZB-A969         TCGA-ZB-A96A 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-ZB-A96B         TCGA-ZB-A96C         TCGA-ZB-A96D 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-ZB-A96I         TCGA-ZB-A96P         TCGA-ZB-A96Q 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-ZB-A96R         TCGA-ZB-A96V         TCGA-ZC-AAA7 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-ZC-AAAA         TCGA-ZC-AAAF         TCGA-ZC-AAAH 
"22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" "22Q GAIN WILD-TYPE" 
        TCGA-ZL-A9V6 
"22Q GAIN WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  22Q GAIN MUTATED        4      0      0      0
  22Q GAIN WILD-TYPE     41     30     30     14
D24V5, multiclass
        clus
vv       22Q GAIN MUTATED 22Q GAIN WILD-TYPE
  CLUS_1                4                 41
  CLUS_2                0                 30
  CLUS_3                0                 30
  CLUS_4                0                 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
  22Q GAIN MUTATED        4      0      0      0
  22Q GAIN WILD-TYPE     43     42     20     10
D24V6, multiclass
        clus
vv       22Q GAIN MUTATED 22Q GAIN WILD-TYPE
  CLUS_1                4                 43
  CLUS_2                0                 42
  CLUS_3                0                 20
  CLUS_4                0                 10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  22Q GAIN MUTATED        4      0      0      0
  22Q GAIN WILD-TYPE     52     61      5      1
D24V7, multiclass
        clus
vv       22Q GAIN MUTATED 22Q GAIN WILD-TYPE
  CLUS_1                4                 52
  CLUS_2                0                 61
  CLUS_3                0                  5
  CLUS_4                0                  1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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
  22Q GAIN MUTATED        2      0      2      0      0      0
  22Q GAIN WILD-TYPE     25     18     26      7     16     27
D24V8, multiclass
        clus
vv       22Q GAIN MUTATED 22Q GAIN WILD-TYPE
  CLUS_1                2                 25
  CLUS_2                0                 18
  CLUS_3                2                 26
  CLUS_4                0                  7
  CLUS_5                0                 16
  CLUS_6                0                 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
  22Q GAIN MUTATED        0      0      4      0
  22Q GAIN WILD-TYPE     28     51     39      1
D24V9, multiclass
        clus
vv       22Q GAIN MUTATED 22Q GAIN WILD-TYPE
  CLUS_1                0                 28
  CLUS_2                0                 51
  CLUS_3                4                 39
  CLUS_4                0                  1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  22Q GAIN MUTATED        1      0      3      0
  22Q GAIN WILD-TYPE     26     33     32     28
D24V10, multiclass
        clus
vv       22Q GAIN MUTATED 22Q GAIN WILD-TYPE
  CLUS_1                1                 26
  CLUS_2                0                 33
  CLUS_3                3                 32
  CLUS_4                0                 28
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(25) Variable = XQ GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  XQ GAIN MUTATED        4      0      0      0      0
  XQ GAIN WILD-TYPE     32     27     19     31     10
D25V1, multiclass
        clus
vv       XQ GAIN MUTATED XQ GAIN WILD-TYPE
  CLUS_1               4                32
  CLUS_2               0                27
  CLUS_3               0                19
  CLUS_4               0                31
  CLUS_5               0                10
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  XQ GAIN MUTATED        0      0      4      0      0      0      0      0
  XQ GAIN WILD-TYPE     37     23     15     10     18      8      2      6
D25V2, multiclass
        clus
vv       XQ GAIN MUTATED XQ GAIN WILD-TYPE
  CLUS_1               0                37
  CLUS_2               0                23
  CLUS_3               4                15
  CLUS_4               0                10
  CLUS_5               0                18
  CLUS_6               0                 8
  CLUS_7               0                 2
  CLUS_8               0                 6
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  XQ GAIN MUTATED        1      0      1
  XQ GAIN WILD-TYPE     30     25     33
D25V3, multiclass
[1] "Remove cluster labels:" "XQ GAIN MUTATED"       
clus
  XQ GAIN MUTATED XQ GAIN WILD-TYPE 
                2                88 
       TCGA-3G-AB0O        TCGA-3G-AB0Q        TCGA-3G-AB14        TCGA-3G-AB19 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-3Q-A9WF        TCGA-3S-A8YW        TCGA-3S-AAYX        TCGA-4V-A9QL 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-4V-A9QN        TCGA-4V-A9QS        TCGA-4V-A9QW        TCGA-4V-A9QX 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-4X-A9F9        TCGA-4X-A9FB        TCGA-4X-A9FC        TCGA-5G-A9ZZ 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-5K-AAAP        TCGA-5U-AB0E        TCGA-5U-AB0F        TCGA-5V-A9RR 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-X7-A8D6        TCGA-X7-A8D7        TCGA-X7-A8D9        TCGA-X7-A8DB 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-X7-A8DC        TCGA-X7-A8DD        TCGA-X7-A8DE        TCGA-X7-A8DF 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-X7-A8DG        TCGA-X7-A8DI        TCGA-X7-A8DJ        TCGA-X7-A8M0 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-X7-A8M1        TCGA-X7-A8M4        TCGA-X7-A8M5        TCGA-X7-A8M6 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-X7-A8M7        TCGA-XM-A8R8        TCGA-XM-A8RB        TCGA-XM-A8RC 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-XM-A8RD        TCGA-XM-A8RE        TCGA-XM-A8RF        TCGA-XM-A8RG 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-XM-A8RH        TCGA-XM-A8RI        TCGA-XM-A8RL        TCGA-XM-AAZ1 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-XM-AAZ2        TCGA-XM-AAZ3        TCGA-XU-A92Q        TCGA-XU-A92R 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-XU-A92U        TCGA-XU-A92V        TCGA-XU-A92X        TCGA-XU-A92Z 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-XU-A931        TCGA-XU-A932        TCGA-XU-A933        TCGA-XU-A936 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-XU-AAY0        TCGA-XU-AAY1        TCGA-YT-A95D        TCGA-YT-A95E 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-YT-A95F        TCGA-YT-A95G        TCGA-YT-A95H        TCGA-ZB-A961 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-ZB-A962        TCGA-ZB-A963        TCGA-ZB-A964        TCGA-ZB-A965 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-ZB-A966        TCGA-ZB-A969        TCGA-ZB-A96A        TCGA-ZB-A96B 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-ZB-A96C        TCGA-ZB-A96D        TCGA-ZB-A96I        TCGA-ZB-A96P 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-ZB-A96Q        TCGA-ZB-A96R        TCGA-ZB-A96V        TCGA-ZC-AAA7 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-ZC-AAAA        TCGA-ZC-AAAF        TCGA-ZC-AAAH        TCGA-ZL-A9V6 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  XQ GAIN MUTATED        0      0      1      1
  XQ GAIN WILD-TYPE     16     23     30     19
D25V4, multiclass
[1] "Remove cluster labels:" "XQ GAIN MUTATED"       
clus
  XQ GAIN MUTATED XQ GAIN WILD-TYPE 
                2                88 
       TCGA-3G-AB0O        TCGA-3G-AB0Q        TCGA-3G-AB14        TCGA-3G-AB19 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-3Q-A9WF        TCGA-3S-A8YW        TCGA-3S-AAYX        TCGA-4V-A9QL 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-4V-A9QN        TCGA-4V-A9QS        TCGA-4V-A9QW        TCGA-4V-A9QX 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-4X-A9F9        TCGA-4X-A9FB        TCGA-4X-A9FC        TCGA-5G-A9ZZ 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-5K-AAAP        TCGA-5U-AB0E        TCGA-5U-AB0F        TCGA-5V-A9RR 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-X7-A8D6        TCGA-X7-A8D7        TCGA-X7-A8D9        TCGA-X7-A8DB 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-X7-A8DC        TCGA-X7-A8DD        TCGA-X7-A8DE        TCGA-X7-A8DF 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-X7-A8DG        TCGA-X7-A8DI        TCGA-X7-A8DJ        TCGA-X7-A8M0 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-X7-A8M1        TCGA-X7-A8M4        TCGA-X7-A8M5        TCGA-X7-A8M6 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-X7-A8M7        TCGA-XM-A8R8        TCGA-XM-A8RB        TCGA-XM-A8RC 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-XM-A8RD        TCGA-XM-A8RE        TCGA-XM-A8RF        TCGA-XM-A8RG 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-XM-A8RH        TCGA-XM-A8RI        TCGA-XM-A8RL        TCGA-XM-AAZ1 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-XM-AAZ2        TCGA-XM-AAZ3        TCGA-XU-A92Q        TCGA-XU-A92R 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-XU-A92U        TCGA-XU-A92V        TCGA-XU-A92X        TCGA-XU-A92Z 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-XU-A931        TCGA-XU-A932        TCGA-XU-A933        TCGA-XU-A936 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-XU-AAY0        TCGA-XU-AAY1        TCGA-YT-A95D        TCGA-YT-A95E 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-YT-A95F        TCGA-YT-A95G        TCGA-YT-A95H        TCGA-ZB-A961 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-ZB-A962        TCGA-ZB-A963        TCGA-ZB-A964        TCGA-ZB-A965 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-ZB-A966        TCGA-ZB-A969        TCGA-ZB-A96A        TCGA-ZB-A96B 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-ZB-A96C        TCGA-ZB-A96D        TCGA-ZB-A96I        TCGA-ZB-A96P 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-ZB-A96Q        TCGA-ZB-A96R        TCGA-ZB-A96V        TCGA-ZC-AAA7 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-ZC-AAAA        TCGA-ZC-AAAF        TCGA-ZC-AAAH        TCGA-ZL-A9V6 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  XQ GAIN MUTATED        4      0      0      0
  XQ GAIN WILD-TYPE     41     30     30     14
D25V5, multiclass
        clus
vv       XQ GAIN MUTATED XQ GAIN WILD-TYPE
  CLUS_1               4                41
  CLUS_2               0                30
  CLUS_3               0                30
  CLUS_4               0                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
  XQ GAIN MUTATED        4      0      0      0
  XQ GAIN WILD-TYPE     43     42     20     10
D25V6, multiclass
        clus
vv       XQ GAIN MUTATED XQ GAIN WILD-TYPE
  CLUS_1               4                43
  CLUS_2               0                42
  CLUS_3               0                20
  CLUS_4               0                10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  XQ GAIN MUTATED        3      0      1      0
  XQ GAIN WILD-TYPE     53     61      4      1
D25V7, multiclass
        clus
vv       XQ GAIN MUTATED XQ GAIN WILD-TYPE
  CLUS_1               3                53
  CLUS_2               0                61
  CLUS_3               1                 4
  CLUS_4               0                 1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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
  XQ GAIN MUTATED        3      0      1      0      0      0
  XQ GAIN WILD-TYPE     24     18     27      7     16     27
D25V8, multiclass
        clus
vv       XQ GAIN MUTATED XQ GAIN WILD-TYPE
  CLUS_1               3                24
  CLUS_2               0                18
  CLUS_3               1                27
  CLUS_4               0                 7
  CLUS_5               0                16
  CLUS_6               0                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
  XQ GAIN MUTATED        0      0      4      0
  XQ GAIN WILD-TYPE     28     51     39      1
D25V9, multiclass
        clus
vv       XQ GAIN MUTATED XQ GAIN WILD-TYPE
  CLUS_1               0                28
  CLUS_2               0                51
  CLUS_3               4                39
  CLUS_4               0                 1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  XQ GAIN MUTATED        2      0      2      0
  XQ GAIN WILD-TYPE     25     33     33     28
D25V10, multiclass
        clus
vv       XQ GAIN MUTATED XQ GAIN WILD-TYPE
  CLUS_1               2                25
  CLUS_2               0                33
  CLUS_3               2                33
  CLUS_4               0                28
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(26) Variable = 1P LOSS MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  1P LOSS MUTATED        3      0      2      0      0
  1P LOSS WILD-TYPE     33     27     17     31     10
D26V1, multiclass
        clus
vv       1P LOSS MUTATED 1P LOSS WILD-TYPE
  CLUS_1               3                33
  CLUS_2               0                27
  CLUS_3               2                17
  CLUS_4               0                31
  CLUS_5               0                10
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  1P LOSS MUTATED        0      0      2      3      0      0      0      0
  1P LOSS WILD-TYPE     37     23     17      7     18      8      2      6
D26V2, multiclass
        clus
vv       1P LOSS MUTATED 1P LOSS WILD-TYPE
  CLUS_1               0                37
  CLUS_2               0                23
  CLUS_3               2                17
  CLUS_4               3                 7
  CLUS_5               0                18
  CLUS_6               0                 8
  CLUS_7               0                 2
  CLUS_8               0                 6
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  1P LOSS MUTATED        2      1      0
  1P LOSS WILD-TYPE     29     24     34
D26V3, multiclass
        clus
vv       1P LOSS MUTATED 1P LOSS WILD-TYPE
  CLUS_1               2                29
  CLUS_2               1                24
  CLUS_3               0                34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  1P LOSS MUTATED        0      0      0      3
  1P LOSS WILD-TYPE     16     23     31     17
D26V4, multiclass
        clus
vv       1P LOSS MUTATED 1P LOSS WILD-TYPE
  CLUS_1               0                16
  CLUS_2               0                23
  CLUS_3               0                31
  CLUS_4               3                17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  1P LOSS MUTATED        2      0      0      3
  1P LOSS WILD-TYPE     43     30     30     11
D26V5, multiclass
        clus
vv       1P LOSS MUTATED 1P LOSS WILD-TYPE
  CLUS_1               2                43
  CLUS_2               0                30
  CLUS_3               0                30
  CLUS_4               3                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"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  1P LOSS MUTATED        3      0      0      2
  1P LOSS WILD-TYPE     44     42     20      8
D26V6, multiclass
        clus
vv       1P LOSS MUTATED 1P LOSS WILD-TYPE
  CLUS_1               3                44
  CLUS_2               0                42
  CLUS_3               0                20
  CLUS_4               2                 8
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  1P LOSS MUTATED        4      0      1      0
  1P LOSS WILD-TYPE     52     61      4      1
D26V7, multiclass
        clus
vv       1P LOSS MUTATED 1P LOSS WILD-TYPE
  CLUS_1               4                52
  CLUS_2               0                61
  CLUS_3               1                 4
  CLUS_4               0                 1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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
  1P LOSS MUTATED        2      0      2      1      0      0
  1P LOSS WILD-TYPE     25     18     26      6     16     27
D26V8, multiclass
        clus
vv       1P LOSS MUTATED 1P LOSS WILD-TYPE
  CLUS_1               2                25
  CLUS_2               0                18
  CLUS_3               2                26
  CLUS_4               1                 6
  CLUS_5               0                16
  CLUS_6               0                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
  1P LOSS MUTATED        0      0      5      0
  1P LOSS WILD-TYPE     28     51     38      1
D26V9, multiclass
        clus
vv       1P LOSS MUTATED 1P LOSS WILD-TYPE
  CLUS_1               0                28
  CLUS_2               0                51
  CLUS_3               5                38
  CLUS_4               0                 1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  1P LOSS MUTATED        2      0      3      0
  1P LOSS WILD-TYPE     25     33     32     28
D26V10, multiclass
        clus
vv       1P LOSS MUTATED 1P LOSS WILD-TYPE
  CLUS_1               2                25
  CLUS_2               0                33
  CLUS_3               3                32
  CLUS_4               0                28
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(27) Variable = 3P LOSS MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  3P LOSS MUTATED        7      0      4      0      1
  3P LOSS WILD-TYPE     29     27     15     31      9
D27V1, multiclass
        clus
vv       3P LOSS MUTATED 3P LOSS WILD-TYPE
  CLUS_1               7                29
  CLUS_2               0                27
  CLUS_3               4                15
  CLUS_4               0                31
  CLUS_5               1                 9
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  3P LOSS MUTATED        0      0      9      3      0      0      0      0
  3P LOSS WILD-TYPE     37     23     10      7     18      8      2      6
D27V2, multiclass
        clus
vv       3P LOSS MUTATED 3P LOSS WILD-TYPE
  CLUS_1               0                37
  CLUS_2               0                23
  CLUS_3               9                10
  CLUS_4               3                 7
  CLUS_5               0                18
  CLUS_6               0                 8
  CLUS_7               0                 2
  CLUS_8               0                 6
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  3P LOSS MUTATED        7      2      1
  3P LOSS WILD-TYPE     24     23     33
D27V3, multiclass
        clus
vv       3P LOSS MUTATED 3P LOSS WILD-TYPE
  CLUS_1               7                24
  CLUS_2               2                23
  CLUS_3               1                33
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  3P LOSS MUTATED        2      0      0      8
  3P LOSS WILD-TYPE     14     23     31     12
D27V4, multiclass
        clus
vv       3P LOSS MUTATED 3P LOSS WILD-TYPE
  CLUS_1               2                14
  CLUS_2               0                23
  CLUS_3               0                31
  CLUS_4               8                12
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  3P LOSS MUTATED        9      0      0      3
  3P LOSS WILD-TYPE     36     30     30     11
D27V5, multiclass
        clus
vv       3P LOSS MUTATED 3P LOSS WILD-TYPE
  CLUS_1               9                36
  CLUS_2               0                30
  CLUS_3               0                30
  CLUS_4               3                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"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  3P LOSS MUTATED       10      0      0      2
  3P LOSS WILD-TYPE     37     42     20      8
D27V6, multiclass
        clus
vv       3P LOSS MUTATED 3P LOSS WILD-TYPE
  CLUS_1              10                37
  CLUS_2               0                42
  CLUS_3               0                20
  CLUS_4               2                 8
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  3P LOSS MUTATED       11      0      1      0
  3P LOSS WILD-TYPE     45     61      4      1
D27V7, multiclass
        clus
vv       3P LOSS MUTATED 3P LOSS WILD-TYPE
  CLUS_1              11                45
  CLUS_2               0                61
  CLUS_3               1                 4
  CLUS_4               0                 1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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
  3P LOSS MUTATED        6      0      4      2      0      0
  3P LOSS WILD-TYPE     21     18     24      5     16     27
D27V8, multiclass
        clus
vv       3P LOSS MUTATED 3P LOSS WILD-TYPE
  CLUS_1               6                21
  CLUS_2               0                18
  CLUS_3               4                24
  CLUS_4               2                 5
  CLUS_5               0                16
  CLUS_6               0                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
  3P LOSS MUTATED        0      0     12      0
  3P LOSS WILD-TYPE     28     51     31      1
D27V9, multiclass
        clus
vv       3P LOSS MUTATED 3P LOSS WILD-TYPE
  CLUS_1               0                28
  CLUS_2               0                51
  CLUS_3              12                31
  CLUS_4               0                 1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  3P LOSS MUTATED        6      0      6      0
  3P LOSS WILD-TYPE     21     33     29     28
D27V10, multiclass
        clus
vv       3P LOSS MUTATED 3P LOSS WILD-TYPE
  CLUS_1               6                21
  CLUS_2               0                33
  CLUS_3               6                29
  CLUS_4               0                28
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(28) Variable = 3Q LOSS MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  3Q LOSS MUTATED        4      0      3      0      0
  3Q LOSS WILD-TYPE     32     27     16     31     10
D28V1, multiclass
        clus
vv       3Q LOSS MUTATED 3Q LOSS WILD-TYPE
  CLUS_1               4                32
  CLUS_2               0                27
  CLUS_3               3                16
  CLUS_4               0                31
  CLUS_5               0                10
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  3Q LOSS MUTATED        0      0      5      2      0      0      0      0
  3Q LOSS WILD-TYPE     37     23     14      8     18      8      2      6
D28V2, multiclass
        clus
vv       3Q LOSS MUTATED 3Q LOSS WILD-TYPE
  CLUS_1               0                37
  CLUS_2               0                23
  CLUS_3               5                14
  CLUS_4               2                 8
  CLUS_5               0                18
  CLUS_6               0                 8
  CLUS_7               0                 2
  CLUS_8               0                 6
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  3Q LOSS MUTATED        4      2      0
  3Q LOSS WILD-TYPE     27     23     34
D28V3, multiclass
        clus
vv       3Q LOSS MUTATED 3Q LOSS WILD-TYPE
  CLUS_1               4                27
  CLUS_2               2                23
  CLUS_3               0                34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  3Q LOSS MUTATED        1      0      0      5
  3Q LOSS WILD-TYPE     15     23     31     15
D28V4, multiclass
        clus
vv       3Q LOSS MUTATED 3Q LOSS WILD-TYPE
  CLUS_1               1                15
  CLUS_2               0                23
  CLUS_3               0                31
  CLUS_4               5                15
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  3Q LOSS MUTATED        6      0      0      1
  3Q LOSS WILD-TYPE     39     30     30     13
D28V5, multiclass
        clus
vv       3Q LOSS MUTATED 3Q LOSS WILD-TYPE
  CLUS_1               6                39
  CLUS_2               0                30
  CLUS_3               0                30
  CLUS_4               1                13
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  3Q LOSS MUTATED        6      0      0      1
  3Q LOSS WILD-TYPE     41     42     20      9
D28V6, multiclass
        clus
vv       3Q LOSS MUTATED 3Q LOSS WILD-TYPE
  CLUS_1               6                41
  CLUS_2               0                42
  CLUS_3               0                20
  CLUS_4               1                 9
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  3Q LOSS MUTATED        6      0      1      0
  3Q LOSS WILD-TYPE     50     61      4      1
D28V7, multiclass
        clus
vv       3Q LOSS MUTATED 3Q LOSS WILD-TYPE
  CLUS_1               6                50
  CLUS_2               0                61
  CLUS_3               1                 4
  CLUS_4               0                 1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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
  3Q LOSS MUTATED        4      0      2      1      0      0
  3Q LOSS WILD-TYPE     23     18     26      6     16     27
D28V8, multiclass
        clus
vv       3Q LOSS MUTATED 3Q LOSS WILD-TYPE
  CLUS_1               4                23
  CLUS_2               0                18
  CLUS_3               2                26
  CLUS_4               1                 6
  CLUS_5               0                16
  CLUS_6               0                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
  3Q LOSS MUTATED        0      0      7      0
  3Q LOSS WILD-TYPE     28     51     36      1
D28V9, multiclass
        clus
vv       3Q LOSS MUTATED 3Q LOSS WILD-TYPE
  CLUS_1               0                28
  CLUS_2               0                51
  CLUS_3               7                36
  CLUS_4               0                 1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  3Q LOSS MUTATED        4      0      3      0
  3Q LOSS WILD-TYPE     23     33     32     28
D28V10, multiclass
        clus
vv       3Q LOSS MUTATED 3Q LOSS WILD-TYPE
  CLUS_1               4                23
  CLUS_2               0                33
  CLUS_3               3                32
  CLUS_4               0                28
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(29) Variable = 4P LOSS MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  4P LOSS MUTATED        2      1      2      0      0
  4P LOSS WILD-TYPE     34     26     17     31     10
D29V1, multiclass
        clus
vv       4P LOSS MUTATED 4P LOSS WILD-TYPE
  CLUS_1               2                34
  CLUS_2               1                26
  CLUS_3               2                17
  CLUS_4               0                31
  CLUS_5               0                10
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  4P LOSS MUTATED        1      0      3      1      0      0      0      0
  4P LOSS WILD-TYPE     36     23     16      9     18      8      2      6
D29V2, multiclass
        clus
vv       4P LOSS MUTATED 4P LOSS WILD-TYPE
  CLUS_1               1                36
  CLUS_2               0                23
  CLUS_3               3                16
  CLUS_4               1                 9
  CLUS_5               0                18
  CLUS_6               0                 8
  CLUS_7               0                 2
  CLUS_8               0                 6
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  4P LOSS MUTATED        1      1      0
  4P LOSS WILD-TYPE     30     24     34
D29V3, multiclass
[1] "Remove cluster labels:" "4P LOSS MUTATED"       
clus
  4P LOSS MUTATED 4P LOSS WILD-TYPE 
                2                88 
       TCGA-3G-AB0O        TCGA-3G-AB0Q        TCGA-3G-AB0T        TCGA-3G-AB14 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-3G-AB19        TCGA-3Q-A9WF        TCGA-3S-A8YW        TCGA-3S-AAYX 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-4V-A9QL        TCGA-4V-A9QN        TCGA-4V-A9QS        TCGA-4V-A9QW 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-4V-A9QX        TCGA-4X-A9F9        TCGA-4X-A9FB        TCGA-4X-A9FC 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-5G-A9ZZ        TCGA-5K-AAAP        TCGA-5U-AB0E        TCGA-5U-AB0F 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-5V-A9RR        TCGA-X7-A8D6        TCGA-X7-A8D7        TCGA-X7-A8D9 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-X7-A8DB        TCGA-X7-A8DC        TCGA-X7-A8DD        TCGA-X7-A8DE 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-X7-A8DF        TCGA-X7-A8DG        TCGA-X7-A8DI        TCGA-X7-A8DJ 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-X7-A8M0        TCGA-X7-A8M1        TCGA-X7-A8M3        TCGA-X7-A8M4 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-X7-A8M5        TCGA-X7-A8M6        TCGA-X7-A8M7        TCGA-XM-A8R8 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-XM-A8RB        TCGA-XM-A8RD        TCGA-XM-A8RE        TCGA-XM-A8RF 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-XM-A8RG        TCGA-XM-A8RH        TCGA-XM-A8RI        TCGA-XM-A8RL 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-XM-AAZ1        TCGA-XM-AAZ2        TCGA-XM-AAZ3        TCGA-XU-A92Q 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-XU-A92R        TCGA-XU-A92U        TCGA-XU-A92V        TCGA-XU-A92X 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-XU-A92Z        TCGA-XU-A931        TCGA-XU-A932        TCGA-XU-A933 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-XU-A936        TCGA-XU-AAY0        TCGA-XU-AAY1        TCGA-YT-A95D 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-YT-A95E        TCGA-YT-A95F        TCGA-YT-A95H        TCGA-ZB-A961 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-ZB-A962        TCGA-ZB-A963        TCGA-ZB-A964        TCGA-ZB-A965 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-ZB-A966        TCGA-ZB-A969        TCGA-ZB-A96A        TCGA-ZB-A96B 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-ZB-A96C        TCGA-ZB-A96D        TCGA-ZB-A96I        TCGA-ZB-A96P 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-ZB-A96Q        TCGA-ZB-A96R        TCGA-ZB-A96V        TCGA-ZC-AAA7 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-ZC-AAAA        TCGA-ZC-AAAF        TCGA-ZC-AAAH        TCGA-ZL-A9V6 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  4P LOSS MUTATED        1      0      0      1
  4P LOSS WILD-TYPE     15     23     31     19
D29V4, multiclass
[1] "Remove cluster labels:" "4P LOSS MUTATED"       
clus
  4P LOSS MUTATED 4P LOSS WILD-TYPE 
                2                88 
       TCGA-3G-AB0O        TCGA-3G-AB0Q        TCGA-3G-AB0T        TCGA-3G-AB14 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-3G-AB19        TCGA-3Q-A9WF        TCGA-3S-A8YW        TCGA-3S-AAYX 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-4V-A9QL        TCGA-4V-A9QN        TCGA-4V-A9QS        TCGA-4V-A9QW 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-4V-A9QX        TCGA-4X-A9F9        TCGA-4X-A9FB        TCGA-4X-A9FC 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-5G-A9ZZ        TCGA-5K-AAAP        TCGA-5U-AB0E        TCGA-5U-AB0F 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-5V-A9RR        TCGA-X7-A8D6        TCGA-X7-A8D7        TCGA-X7-A8D9 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-X7-A8DB        TCGA-X7-A8DC        TCGA-X7-A8DD        TCGA-X7-A8DE 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-X7-A8DF        TCGA-X7-A8DG        TCGA-X7-A8DI        TCGA-X7-A8DJ 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-X7-A8M0        TCGA-X7-A8M1        TCGA-X7-A8M3        TCGA-X7-A8M4 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-X7-A8M5        TCGA-X7-A8M6        TCGA-X7-A8M7        TCGA-XM-A8R8 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-XM-A8RB        TCGA-XM-A8RD        TCGA-XM-A8RE        TCGA-XM-A8RF 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-XM-A8RG        TCGA-XM-A8RH        TCGA-XM-A8RI        TCGA-XM-A8RL 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-XM-AAZ1        TCGA-XM-AAZ2        TCGA-XM-AAZ3        TCGA-XU-A92Q 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-XU-A92R        TCGA-XU-A92U        TCGA-XU-A92V        TCGA-XU-A92X 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-XU-A92Z        TCGA-XU-A931        TCGA-XU-A932        TCGA-XU-A933 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-XU-A936        TCGA-XU-AAY0        TCGA-XU-AAY1        TCGA-YT-A95D 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-YT-A95E        TCGA-YT-A95F        TCGA-YT-A95H        TCGA-ZB-A961 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-ZB-A962        TCGA-ZB-A963        TCGA-ZB-A964        TCGA-ZB-A965 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-ZB-A966        TCGA-ZB-A969        TCGA-ZB-A96A        TCGA-ZB-A96B 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-ZB-A96C        TCGA-ZB-A96D        TCGA-ZB-A96I        TCGA-ZB-A96P 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-ZB-A96Q        TCGA-ZB-A96R        TCGA-ZB-A96V        TCGA-ZC-AAA7 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
       TCGA-ZC-AAAA        TCGA-ZC-AAAF        TCGA-ZC-AAAH        TCGA-ZL-A9V6 
"4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" "4P LOSS WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  4P LOSS MUTATED        5      0      0      0
  4P LOSS WILD-TYPE     40     30     30     14
D29V5, multiclass
        clus
vv       4P LOSS MUTATED 4P LOSS WILD-TYPE
  CLUS_1               5                40
  CLUS_2               0                30
  CLUS_3               0                30
  CLUS_4               0                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
  4P LOSS MUTATED        5      0      0      0
  4P LOSS WILD-TYPE     42     42     20     10
D29V6, multiclass
        clus
vv       4P LOSS MUTATED 4P LOSS WILD-TYPE
  CLUS_1               5                42
  CLUS_2               0                42
  CLUS_3               0                20
  CLUS_4               0                10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  4P LOSS MUTATED        3      1      1      0
  4P LOSS WILD-TYPE     53     60      4      1
D29V7, multiclass
        clus
vv       4P LOSS MUTATED 4P LOSS WILD-TYPE
  CLUS_1               3                53
  CLUS_2               1                60
  CLUS_3               1                 4
  CLUS_4               0                 1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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
  4P LOSS MUTATED        3      0      1      0      1      0
  4P LOSS WILD-TYPE     24     18     27      7     15     27
D29V8, multiclass
        clus
vv       4P LOSS MUTATED 4P LOSS WILD-TYPE
  CLUS_1               3                24
  CLUS_2               0                18
  CLUS_3               1                27
  CLUS_4               0                 7
  CLUS_5               1                15
  CLUS_6               0                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
  4P LOSS MUTATED        0      0      5      0
  4P LOSS WILD-TYPE     28     51     38      1
D29V9, multiclass
        clus
vv       4P LOSS MUTATED 4P LOSS WILD-TYPE
  CLUS_1               0                28
  CLUS_2               0                51
  CLUS_3               5                38
  CLUS_4               0                 1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  4P LOSS MUTATED        3      1      1      0
  4P LOSS WILD-TYPE     24     32     34     28
D29V10, multiclass
        clus
vv       4P LOSS MUTATED 4P LOSS WILD-TYPE
  CLUS_1               3                24
  CLUS_2               1                32
  CLUS_3               1                34
  CLUS_4               0                28
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(30) Variable = 4Q LOSS MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  4Q LOSS MUTATED        1      1      2      0      0
  4Q LOSS WILD-TYPE     35     26     17     31     10
D30V1, multiclass
        clus
vv       4Q LOSS MUTATED 4Q LOSS WILD-TYPE
  CLUS_1               1                35
  CLUS_2               1                26
  CLUS_3               2                17
  CLUS_4               0                31
  CLUS_5               0                10
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  4Q LOSS MUTATED        1      0      2      1      0      0      0      0
  4Q LOSS WILD-TYPE     36     23     17      9     18      8      2      6
D30V2, multiclass
        clus
vv       4Q LOSS MUTATED 4Q LOSS WILD-TYPE
  CLUS_1               1                36
  CLUS_2               0                23
  CLUS_3               2                17
  CLUS_4               1                 9
  CLUS_5               0                18
  CLUS_6               0                 8
  CLUS_7               0                 2
  CLUS_8               0                 6
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  4Q LOSS MUTATED        1      1      0
  4Q LOSS WILD-TYPE     30     24     34
D30V3, multiclass
[1] "Remove cluster labels:" "4Q LOSS MUTATED"       
clus
  4Q LOSS MUTATED 4Q LOSS WILD-TYPE 
                2                88 
       TCGA-3G-AB0O        TCGA-3G-AB0Q        TCGA-3G-AB0T        TCGA-3G-AB14 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-3G-AB19        TCGA-3Q-A9WF        TCGA-3S-A8YW        TCGA-3S-AAYX 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-4V-A9QL        TCGA-4V-A9QN        TCGA-4V-A9QS        TCGA-4V-A9QW 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-4V-A9QX        TCGA-4X-A9F9        TCGA-4X-A9FB        TCGA-4X-A9FC 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-5G-A9ZZ        TCGA-5K-AAAP        TCGA-5U-AB0E        TCGA-5U-AB0F 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-5V-A9RR        TCGA-X7-A8D6        TCGA-X7-A8D7        TCGA-X7-A8D9 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-X7-A8DB        TCGA-X7-A8DC        TCGA-X7-A8DD        TCGA-X7-A8DE 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-X7-A8DF        TCGA-X7-A8DG        TCGA-X7-A8DI        TCGA-X7-A8DJ 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-X7-A8M0        TCGA-X7-A8M1        TCGA-X7-A8M3        TCGA-X7-A8M4 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-X7-A8M5        TCGA-X7-A8M6        TCGA-X7-A8M7        TCGA-XM-A8R8 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-XM-A8RB        TCGA-XM-A8RD        TCGA-XM-A8RE        TCGA-XM-A8RF 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-XM-A8RG        TCGA-XM-A8RH        TCGA-XM-A8RI        TCGA-XM-A8RL 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-XM-AAZ1        TCGA-XM-AAZ2        TCGA-XM-AAZ3        TCGA-XU-A92Q 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-XU-A92R        TCGA-XU-A92U        TCGA-XU-A92V        TCGA-XU-A92X 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-XU-A92Z        TCGA-XU-A931        TCGA-XU-A932        TCGA-XU-A933 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-XU-A936        TCGA-XU-AAY0        TCGA-XU-AAY1        TCGA-YT-A95D 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-YT-A95E        TCGA-YT-A95F        TCGA-YT-A95H        TCGA-ZB-A961 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-ZB-A962        TCGA-ZB-A963        TCGA-ZB-A964        TCGA-ZB-A965 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-ZB-A966        TCGA-ZB-A969        TCGA-ZB-A96A        TCGA-ZB-A96B 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-ZB-A96C        TCGA-ZB-A96D        TCGA-ZB-A96I        TCGA-ZB-A96P 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-ZB-A96Q        TCGA-ZB-A96R        TCGA-ZB-A96V        TCGA-ZC-AAA7 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-ZC-AAAA        TCGA-ZC-AAAF        TCGA-ZC-AAAH        TCGA-ZL-A9V6 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  4Q LOSS MUTATED        1      0      0      1
  4Q LOSS WILD-TYPE     15     23     31     19
D30V4, multiclass
[1] "Remove cluster labels:" "4Q LOSS MUTATED"       
clus
  4Q LOSS MUTATED 4Q LOSS WILD-TYPE 
                2                88 
       TCGA-3G-AB0O        TCGA-3G-AB0Q        TCGA-3G-AB0T        TCGA-3G-AB14 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-3G-AB19        TCGA-3Q-A9WF        TCGA-3S-A8YW        TCGA-3S-AAYX 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-4V-A9QL        TCGA-4V-A9QN        TCGA-4V-A9QS        TCGA-4V-A9QW 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-4V-A9QX        TCGA-4X-A9F9        TCGA-4X-A9FB        TCGA-4X-A9FC 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-5G-A9ZZ        TCGA-5K-AAAP        TCGA-5U-AB0E        TCGA-5U-AB0F 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-5V-A9RR        TCGA-X7-A8D6        TCGA-X7-A8D7        TCGA-X7-A8D9 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-X7-A8DB        TCGA-X7-A8DC        TCGA-X7-A8DD        TCGA-X7-A8DE 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-X7-A8DF        TCGA-X7-A8DG        TCGA-X7-A8DI        TCGA-X7-A8DJ 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-X7-A8M0        TCGA-X7-A8M1        TCGA-X7-A8M3        TCGA-X7-A8M4 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-X7-A8M5        TCGA-X7-A8M6        TCGA-X7-A8M7        TCGA-XM-A8R8 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-XM-A8RB        TCGA-XM-A8RD        TCGA-XM-A8RE        TCGA-XM-A8RF 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-XM-A8RG        TCGA-XM-A8RH        TCGA-XM-A8RI        TCGA-XM-A8RL 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-XM-AAZ1        TCGA-XM-AAZ2        TCGA-XM-AAZ3        TCGA-XU-A92Q 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-XU-A92R        TCGA-XU-A92U        TCGA-XU-A92V        TCGA-XU-A92X 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-XU-A92Z        TCGA-XU-A931        TCGA-XU-A932        TCGA-XU-A933 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-XU-A936        TCGA-XU-AAY0        TCGA-XU-AAY1        TCGA-YT-A95D 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-YT-A95E        TCGA-YT-A95F        TCGA-YT-A95H        TCGA-ZB-A961 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-ZB-A962        TCGA-ZB-A963        TCGA-ZB-A964        TCGA-ZB-A965 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-ZB-A966        TCGA-ZB-A969        TCGA-ZB-A96A        TCGA-ZB-A96B 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-ZB-A96C        TCGA-ZB-A96D        TCGA-ZB-A96I        TCGA-ZB-A96P 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-ZB-A96Q        TCGA-ZB-A96R        TCGA-ZB-A96V        TCGA-ZC-AAA7 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
       TCGA-ZC-AAAA        TCGA-ZC-AAAF        TCGA-ZC-AAAH        TCGA-ZL-A9V6 
"4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" "4Q LOSS WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  4Q LOSS MUTATED        4      0      0      0
  4Q LOSS WILD-TYPE     41     30     30     14
D30V5, multiclass
        clus
vv       4Q LOSS MUTATED 4Q LOSS WILD-TYPE
  CLUS_1               4                41
  CLUS_2               0                30
  CLUS_3               0                30
  CLUS_4               0                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
  4Q LOSS MUTATED        4      0      0      0
  4Q LOSS WILD-TYPE     43     42     20     10
D30V6, multiclass
        clus
vv       4Q LOSS MUTATED 4Q LOSS WILD-TYPE
  CLUS_1               4                43
  CLUS_2               0                42
  CLUS_3               0                20
  CLUS_4               0                10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  4Q LOSS MUTATED        2      1      1      0
  4Q LOSS WILD-TYPE     54     60      4      1
D30V7, multiclass
        clus
vv       4Q LOSS MUTATED 4Q LOSS WILD-TYPE
  CLUS_1               2                54
  CLUS_2               1                60
  CLUS_3               1                 4
  CLUS_4               0                 1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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
  4Q LOSS MUTATED        3      0      0      0      1      0
  4Q LOSS WILD-TYPE     24     18     28      7     15     27
D30V8, multiclass
        clus
vv       4Q LOSS MUTATED 4Q LOSS WILD-TYPE
  CLUS_1               3                24
  CLUS_2               0                18
  CLUS_3               0                28
  CLUS_4               0                 7
  CLUS_5               1                15
  CLUS_6               0                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
  4Q LOSS MUTATED        0      0      4      0
  4Q LOSS WILD-TYPE     28     51     39      1
D30V9, multiclass
        clus
vv       4Q LOSS MUTATED 4Q LOSS WILD-TYPE
  CLUS_1               0                28
  CLUS_2               0                51
  CLUS_3               4                39
  CLUS_4               0                 1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  4Q LOSS MUTATED        3      1      0      0
  4Q LOSS WILD-TYPE     24     32     35     28
D30V10, multiclass
        clus
vv       4Q LOSS MUTATED 4Q LOSS WILD-TYPE
  CLUS_1               3                24
  CLUS_2               1                32
  CLUS_3               0                35
  CLUS_4               0                28
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(31) Variable = 6P LOSS MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  6P LOSS MUTATED       12      0      6      2      1
  6P LOSS WILD-TYPE     24     27     13     29      9
D31V1, multiclass
        clus
vv       6P LOSS MUTATED 6P LOSS WILD-TYPE
  CLUS_1              12                24
  CLUS_2               0                27
  CLUS_3               6                13
  CLUS_4               2                29
  CLUS_5               1                 9
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  6P LOSS MUTATED        1      0     13      6      1      0      0      0
  6P LOSS WILD-TYPE     36     23      6      4     17      8      2      6
D31V2, multiclass
        clus
vv       6P LOSS MUTATED 6P LOSS WILD-TYPE
  CLUS_1               1                36
  CLUS_2               0                23
  CLUS_3              13                 6
  CLUS_4               6                 4
  CLUS_5               1                17
  CLUS_6               0                 8
  CLUS_7               0                 2
  CLUS_8               0                 6
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  6P LOSS MUTATED       13      2      1
  6P LOSS WILD-TYPE     18     23     33
D31V3, multiclass
        clus
vv       6P LOSS MUTATED 6P LOSS WILD-TYPE
  CLUS_1              13                18
  CLUS_2               2                23
  CLUS_3               1                33
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  6P LOSS MUTATED        3      0      2     11
  6P LOSS WILD-TYPE     13     23     29      9
D31V4, multiclass
        clus
vv       6P LOSS MUTATED 6P LOSS WILD-TYPE
  CLUS_1               3                13
  CLUS_2               0                23
  CLUS_3               2                29
  CLUS_4              11                 9
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  6P LOSS MUTATED       14      1      0      6
  6P LOSS WILD-TYPE     31     29     30      8
D31V5, multiclass
        clus
vv       6P LOSS MUTATED 6P LOSS WILD-TYPE
  CLUS_1              14                31
  CLUS_2               1                29
  CLUS_3               0                30
  CLUS_4               6                 8
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  6P LOSS MUTATED       15      1      0      5
  6P LOSS WILD-TYPE     32     41     20      5
D31V6, multiclass
        clus
vv       6P LOSS MUTATED 6P LOSS WILD-TYPE
  CLUS_1              15                32
  CLUS_2               1                41
  CLUS_3               0                20
  CLUS_4               5                 5
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  6P LOSS MUTATED       18      1      2      0
  6P LOSS WILD-TYPE     38     60      3      1
D31V7, multiclass
        clus
vv       6P LOSS MUTATED 6P LOSS WILD-TYPE
  CLUS_1              18                38
  CLUS_2               1                60
  CLUS_3               2                 3
  CLUS_4               0                 1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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
  6P LOSS MUTATED        9      0      8      3      0      1
  6P LOSS WILD-TYPE     18     18     20      4     16     26
D31V8, multiclass
        clus
vv       6P LOSS MUTATED 6P LOSS WILD-TYPE
  CLUS_1               9                18
  CLUS_2               0                18
  CLUS_3               8                20
  CLUS_4               3                 4
  CLUS_5               0                16
  CLUS_6               1                26
[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
  6P LOSS MUTATED        0      1     20      0
  6P LOSS WILD-TYPE     28     50     23      1
D31V9, multiclass
        clus
vv       6P LOSS MUTATED 6P LOSS WILD-TYPE
  CLUS_1               0                28
  CLUS_2               1                50
  CLUS_3              20                23
  CLUS_4               0                 1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  6P LOSS MUTATED        8      0     12      1
  6P LOSS WILD-TYPE     19     33     23     27
D31V10, multiclass
        clus
vv       6P LOSS MUTATED 6P LOSS WILD-TYPE
  CLUS_1               8                19
  CLUS_2               0                33
  CLUS_3              12                23
  CLUS_4               1                27
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(32) Variable = 6Q LOSS MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  6Q LOSS MUTATED       11      0      7      2      0
  6Q LOSS WILD-TYPE     25     27     12     29     10
D32V1, multiclass
        clus
vv       6Q LOSS MUTATED 6Q LOSS WILD-TYPE
  CLUS_1              11                25
  CLUS_2               0                27
  CLUS_3               7                12
  CLUS_4               2                29
  CLUS_5               0                10
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  6Q LOSS MUTATED        1      0     11      6      1      0      0      1
  6Q LOSS WILD-TYPE     36     23      8      4     17      8      2      5
D32V2, multiclass
        clus
vv       6Q LOSS MUTATED 6Q LOSS WILD-TYPE
  CLUS_1               1                36
  CLUS_2               0                23
  CLUS_3              11                 8
  CLUS_4               6                 4
  CLUS_5               1                17
  CLUS_6               0                 8
  CLUS_7               0                 2
  CLUS_8               1                 5
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  6Q LOSS MUTATED       12      2      1
  6Q LOSS WILD-TYPE     19     23     33
D32V3, multiclass
        clus
vv       6Q LOSS MUTATED 6Q LOSS WILD-TYPE
  CLUS_1              12                19
  CLUS_2               2                23
  CLUS_3               1                33
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  6Q LOSS MUTATED        3      1      1     10
  6Q LOSS WILD-TYPE     13     22     30     10
D32V4, multiclass
        clus
vv       6Q LOSS MUTATED 6Q LOSS WILD-TYPE
  CLUS_1               3                13
  CLUS_2               1                22
  CLUS_3               1                30
  CLUS_4              10                10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  6Q LOSS MUTATED       12      1      0      7
  6Q LOSS WILD-TYPE     33     29     30      7
D32V5, multiclass
        clus
vv       6Q LOSS MUTATED 6Q LOSS WILD-TYPE
  CLUS_1              12                33
  CLUS_2               1                29
  CLUS_3               0                30
  CLUS_4               7                 7
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  6Q LOSS MUTATED       13      1      1      5
  6Q LOSS WILD-TYPE     34     41     19      5
D32V6, multiclass
        clus
vv       6Q LOSS MUTATED 6Q LOSS WILD-TYPE
  CLUS_1              13                34
  CLUS_2               1                41
  CLUS_3               1                19
  CLUS_4               5                 5
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  6Q LOSS MUTATED       16      2      2      0
  6Q LOSS WILD-TYPE     40     59      3      1
D32V7, multiclass
        clus
vv       6Q LOSS MUTATED 6Q LOSS WILD-TYPE
  CLUS_1              16                40
  CLUS_2               2                59
  CLUS_3               2                 3
  CLUS_4               0                 1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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
  6Q LOSS MUTATED        9      0      6      3      1      1
  6Q LOSS WILD-TYPE     18     18     22      4     15     26
D32V8, multiclass
        clus
vv       6Q LOSS MUTATED 6Q LOSS WILD-TYPE
  CLUS_1               9                18
  CLUS_2               0                18
  CLUS_3               6                22
  CLUS_4               3                 4
  CLUS_5               1                15
  CLUS_6               1                26
[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
  6Q LOSS MUTATED        0      1     19      0
  6Q LOSS WILD-TYPE     28     50     24      1
D32V9, multiclass
        clus
vv       6Q LOSS MUTATED 6Q LOSS WILD-TYPE
  CLUS_1               0                28
  CLUS_2               1                50
  CLUS_3              19                24
  CLUS_4               0                 1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  6Q LOSS MUTATED        8      1     10      1
  6Q LOSS WILD-TYPE     19     32     25     27
D32V10, multiclass
        clus
vv       6Q LOSS MUTATED 6Q LOSS WILD-TYPE
  CLUS_1               8                19
  CLUS_2               1                32
  CLUS_3              10                25
  CLUS_4               1                27
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(33) Variable = 9P LOSS MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  9P LOSS MUTATED        0      0      4      0      0
  9P LOSS WILD-TYPE     36     27     15     31     10
D33V1, multiclass
        clus
vv       9P LOSS MUTATED 9P LOSS WILD-TYPE
  CLUS_1               0                36
  CLUS_2               0                27
  CLUS_3               4                15
  CLUS_4               0                31
  CLUS_5               0                10
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  9P LOSS MUTATED        0      2      0      2      0      0      0      0
  9P LOSS WILD-TYPE     37     21     19      8     18      8      2      6
D33V2, multiclass
        clus
vv       9P LOSS MUTATED 9P LOSS WILD-TYPE
  CLUS_1               0                37
  CLUS_2               2                21
  CLUS_3               0                19
  CLUS_4               2                 8
  CLUS_5               0                18
  CLUS_6               0                 8
  CLUS_7               0                 2
  CLUS_8               0                 6
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  9P LOSS MUTATED        1      2      0
  9P LOSS WILD-TYPE     30     23     34
D33V3, multiclass
        clus
vv       9P LOSS MUTATED 9P LOSS WILD-TYPE
  CLUS_1               1                30
  CLUS_2               2                23
  CLUS_3               0                34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  9P LOSS MUTATED        0      1      0      2
  9P LOSS WILD-TYPE     16     22     31     18
D33V4, multiclass
        clus
vv       9P LOSS MUTATED 9P LOSS WILD-TYPE
  CLUS_1               0                16
  CLUS_2               1                22
  CLUS_3               0                31
  CLUS_4               2                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"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  9P LOSS MUTATED        0      0      2      2
  9P LOSS WILD-TYPE     45     30     28     12
D33V5, multiclass
        clus
vv       9P LOSS MUTATED 9P LOSS WILD-TYPE
  CLUS_1               0                45
  CLUS_2               0                30
  CLUS_3               2                28
  CLUS_4               2                12
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  9P LOSS MUTATED        0      0      2      2
  9P LOSS WILD-TYPE     47     42     18      8
D33V6, multiclass
        clus
vv       9P LOSS MUTATED 9P LOSS WILD-TYPE
  CLUS_1               0                47
  CLUS_2               0                42
  CLUS_3               2                18
  CLUS_4               2                 8
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  9P LOSS MUTATED        2      2      0      0
  9P LOSS WILD-TYPE     54     59      5      1
D33V7, multiclass
        clus
vv       9P LOSS MUTATED 9P LOSS WILD-TYPE
  CLUS_1               2                54
  CLUS_2               2                59
  CLUS_3               0                 5
  CLUS_4               0                 1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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
  9P LOSS MUTATED        0      0      1      1      2      0
  9P LOSS WILD-TYPE     27     18     27      6     14     27
D33V8, multiclass
        clus
vv       9P LOSS MUTATED 9P LOSS WILD-TYPE
  CLUS_1               0                27
  CLUS_2               0                18
  CLUS_3               1                27
  CLUS_4               1                 6
  CLUS_5               2                14
  CLUS_6               0                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
  9P LOSS MUTATED        0      2      2      0
  9P LOSS WILD-TYPE     28     49     41      1
D33V9, multiclass
        clus
vv       9P LOSS MUTATED 9P LOSS WILD-TYPE
  CLUS_1               0                28
  CLUS_2               2                49
  CLUS_3               2                41
  CLUS_4               0                 1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  9P LOSS MUTATED        0      2      2      0
  9P LOSS WILD-TYPE     27     31     33     28
D33V10, multiclass
        clus
vv       9P LOSS MUTATED 9P LOSS WILD-TYPE
  CLUS_1               0                27
  CLUS_2               2                31
  CLUS_3               2                33
  CLUS_4               0                28
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(34) Variable = 10P LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  10P LOSS MUTATED        0      1      2      0      0
  10P LOSS WILD-TYPE     36     26     17     31     10
D34V1, multiclass
        clus
vv       10P LOSS MUTATED 10P LOSS WILD-TYPE
  CLUS_1                0                 36
  CLUS_2                1                 26
  CLUS_3                2                 17
  CLUS_4                0                 31
  CLUS_5                0                 10
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  10P LOSS MUTATED        0      1      0      1      0      0      0      1
  10P LOSS WILD-TYPE     37     22     19      9     18      8      2      5
D34V2, multiclass
        clus
vv       10P LOSS MUTATED 10P LOSS WILD-TYPE
  CLUS_1                0                 37
  CLUS_2                1                 22
  CLUS_3                0                 19
  CLUS_4                1                  9
  CLUS_5                0                 18
  CLUS_6                0                  8
  CLUS_7                0                  2
  CLUS_8                1                  5
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  10P LOSS MUTATED        2      0      0
  10P LOSS WILD-TYPE     29     25     34
D34V3, multiclass
[1] "Remove cluster labels:" "10P LOSS MUTATED"      
clus
  10P LOSS MUTATED 10P LOSS WILD-TYPE 
                 2                 88 
        TCGA-3G-AB0O         TCGA-3G-AB0Q         TCGA-3G-AB0T 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-3G-AB14         TCGA-3G-AB19         TCGA-3Q-A9WF 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-3S-A8YW         TCGA-3S-AAYX         TCGA-4V-A9QL 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-4V-A9QN         TCGA-4V-A9QS         TCGA-4V-A9QW 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-4V-A9QX         TCGA-4X-A9F9         TCGA-4X-A9FB 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-4X-A9FC         TCGA-5G-A9ZZ         TCGA-5K-AAAP 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-5U-AB0E         TCGA-5U-AB0F         TCGA-5V-A9RR 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-X7-A8D6         TCGA-X7-A8D7         TCGA-X7-A8D9 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-X7-A8DB         TCGA-X7-A8DC         TCGA-X7-A8DD 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-X7-A8DE         TCGA-X7-A8DF         TCGA-X7-A8DG 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-X7-A8DI         TCGA-X7-A8DJ         TCGA-X7-A8M1 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-X7-A8M3         TCGA-X7-A8M4         TCGA-X7-A8M5 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-X7-A8M6         TCGA-X7-A8M7         TCGA-XM-A8R8 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-XM-A8RB         TCGA-XM-A8RC         TCGA-XM-A8RD 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-XM-A8RE         TCGA-XM-A8RF         TCGA-XM-A8RH 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-XM-A8RI         TCGA-XM-A8RL         TCGA-XM-AAZ1 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-XM-AAZ2         TCGA-XM-AAZ3         TCGA-XU-A92Q 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-XU-A92R         TCGA-XU-A92U         TCGA-XU-A92V 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-XU-A92X         TCGA-XU-A92Z         TCGA-XU-A931 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-XU-A932         TCGA-XU-A933         TCGA-XU-A936 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-XU-AAY0         TCGA-XU-AAY1         TCGA-YT-A95D 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-YT-A95E         TCGA-YT-A95F         TCGA-YT-A95G 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-YT-A95H         TCGA-ZB-A961         TCGA-ZB-A962 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-ZB-A963         TCGA-ZB-A964         TCGA-ZB-A965 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-ZB-A966         TCGA-ZB-A969         TCGA-ZB-A96A 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-ZB-A96B         TCGA-ZB-A96C         TCGA-ZB-A96D 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-ZB-A96I         TCGA-ZB-A96P         TCGA-ZB-A96Q 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-ZB-A96R         TCGA-ZB-A96V         TCGA-ZC-AAA7 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-ZC-AAAA         TCGA-ZC-AAAF         TCGA-ZC-AAAH 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-ZL-A9V6 
"10P LOSS WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  10P LOSS MUTATED        0      2      0      0
  10P LOSS WILD-TYPE     16     21     31     20
D34V4, multiclass
[1] "Remove cluster labels:" "10P LOSS MUTATED"      
clus
  10P LOSS MUTATED 10P LOSS WILD-TYPE 
                 2                 88 
        TCGA-3G-AB0O         TCGA-3G-AB0Q         TCGA-3G-AB0T 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-3G-AB14         TCGA-3G-AB19         TCGA-3Q-A9WF 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-3S-A8YW         TCGA-3S-AAYX         TCGA-4V-A9QL 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-4V-A9QN         TCGA-4V-A9QS         TCGA-4V-A9QW 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-4V-A9QX         TCGA-4X-A9F9         TCGA-4X-A9FB 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-4X-A9FC         TCGA-5G-A9ZZ         TCGA-5K-AAAP 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-5U-AB0E         TCGA-5U-AB0F         TCGA-5V-A9RR 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-X7-A8D6         TCGA-X7-A8D7         TCGA-X7-A8D9 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-X7-A8DB         TCGA-X7-A8DC         TCGA-X7-A8DD 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-X7-A8DE         TCGA-X7-A8DF         TCGA-X7-A8DG 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-X7-A8DI         TCGA-X7-A8DJ         TCGA-X7-A8M1 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-X7-A8M3         TCGA-X7-A8M4         TCGA-X7-A8M5 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-X7-A8M6         TCGA-X7-A8M7         TCGA-XM-A8R8 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-XM-A8RB         TCGA-XM-A8RC         TCGA-XM-A8RD 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-XM-A8RE         TCGA-XM-A8RF         TCGA-XM-A8RH 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-XM-A8RI         TCGA-XM-A8RL         TCGA-XM-AAZ1 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-XM-AAZ2         TCGA-XM-AAZ3         TCGA-XU-A92Q 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-XU-A92R         TCGA-XU-A92U         TCGA-XU-A92V 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-XU-A92X         TCGA-XU-A92Z         TCGA-XU-A931 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-XU-A932         TCGA-XU-A933         TCGA-XU-A936 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-XU-AAY0         TCGA-XU-AAY1         TCGA-YT-A95D 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-YT-A95E         TCGA-YT-A95F         TCGA-YT-A95G 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-YT-A95H         TCGA-ZB-A961         TCGA-ZB-A962 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-ZB-A963         TCGA-ZB-A964         TCGA-ZB-A965 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-ZB-A966         TCGA-ZB-A969         TCGA-ZB-A96A 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-ZB-A96B         TCGA-ZB-A96C         TCGA-ZB-A96D 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-ZB-A96I         TCGA-ZB-A96P         TCGA-ZB-A96Q 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-ZB-A96R         TCGA-ZB-A96V         TCGA-ZC-AAA7 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-ZC-AAAA         TCGA-ZC-AAAF         TCGA-ZC-AAAH 
"10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" "10P LOSS WILD-TYPE" 
        TCGA-ZL-A9V6 
"10P LOSS WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  10P LOSS MUTATED        0      0      1      2
  10P LOSS WILD-TYPE     45     30     29     12
D34V5, multiclass
        clus
vv       10P LOSS MUTATED 10P LOSS WILD-TYPE
  CLUS_1                0                 45
  CLUS_2                0                 30
  CLUS_3                1                 29
  CLUS_4                2                 12
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  10P LOSS MUTATED        0      0      2      1
  10P LOSS WILD-TYPE     47     42     18      9
D34V6, multiclass
        clus
vv       10P LOSS MUTATED 10P LOSS WILD-TYPE
  CLUS_1                0                 47
  CLUS_2                0                 42
  CLUS_3                2                 18
  CLUS_4                1                  9
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  10P LOSS MUTATED        1      2      0      0
  10P LOSS WILD-TYPE     55     59      5      1
D34V7, multiclass
        clus
vv       10P LOSS MUTATED 10P LOSS WILD-TYPE
  CLUS_1                1                 55
  CLUS_2                2                 59
  CLUS_3                0                  5
  CLUS_4                0                  1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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
  10P LOSS MUTATED        0      0      0      1      2      0
  10P LOSS WILD-TYPE     27     18     28      6     14     27
D34V8, multiclass
        clus
vv       10P LOSS MUTATED 10P LOSS WILD-TYPE
  CLUS_1                0                 27
  CLUS_2                0                 18
  CLUS_3                0                 28
  CLUS_4                1                  6
  CLUS_5                2                 14
  CLUS_6                0                 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
  10P LOSS MUTATED        0      1      2      0
  10P LOSS WILD-TYPE     28     50     41      1
D34V9, multiclass
        clus
vv       10P LOSS MUTATED 10P LOSS WILD-TYPE
  CLUS_1                0                 28
  CLUS_2                1                 50
  CLUS_3                2                 41
  CLUS_4                0                  1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  10P LOSS MUTATED        0      2      1      0
  10P LOSS WILD-TYPE     27     31     34     28
D34V10, multiclass
        clus
vv       10P LOSS MUTATED 10P LOSS WILD-TYPE
  CLUS_1                0                 27
  CLUS_2                2                 31
  CLUS_3                1                 34
  CLUS_4                0                 28
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(35) Variable = 11P LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  11P LOSS MUTATED        6      0      3      0      0
  11P LOSS WILD-TYPE     30     27     16     31     10
D35V1, multiclass
        clus
vv       11P LOSS MUTATED 11P LOSS WILD-TYPE
  CLUS_1                6                 30
  CLUS_2                0                 27
  CLUS_3                3                 16
  CLUS_4                0                 31
  CLUS_5                0                 10
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  11P LOSS MUTATED        0      0      7      2      0      0      0      0
  11P LOSS WILD-TYPE     37     23     12      8     18      8      2      6
D35V2, multiclass
        clus
vv       11P LOSS MUTATED 11P LOSS WILD-TYPE
  CLUS_1                0                 37
  CLUS_2                0                 23
  CLUS_3                7                 12
  CLUS_4                2                  8
  CLUS_5                0                 18
  CLUS_6                0                  8
  CLUS_7                0                  2
  CLUS_8                0                  6
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  11P LOSS MUTATED        5      1      0
  11P LOSS WILD-TYPE     26     24     34
D35V3, multiclass
        clus
vv       11P LOSS MUTATED 11P LOSS WILD-TYPE
  CLUS_1                5                 26
  CLUS_2                1                 24
  CLUS_3                0                 34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  11P LOSS MUTATED        1      0      0      5
  11P LOSS WILD-TYPE     15     23     31     15
D35V4, multiclass
        clus
vv       11P LOSS MUTATED 11P LOSS WILD-TYPE
  CLUS_1                1                 15
  CLUS_2                0                 23
  CLUS_3                0                 31
  CLUS_4                5                 15
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  11P LOSS MUTATED        7      0      0      2
  11P LOSS WILD-TYPE     38     30     30     12
D35V5, multiclass
        clus
vv       11P LOSS MUTATED 11P LOSS WILD-TYPE
  CLUS_1                7                 38
  CLUS_2                0                 30
  CLUS_3                0                 30
  CLUS_4                2                 12
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  11P LOSS MUTATED        8      0      0      1
  11P LOSS WILD-TYPE     39     42     20      9
D35V6, multiclass
        clus
vv       11P LOSS MUTATED 11P LOSS WILD-TYPE
  CLUS_1                8                 39
  CLUS_2                0                 42
  CLUS_3                0                 20
  CLUS_4                1                  9
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  11P LOSS MUTATED        8      0      1      0
  11P LOSS WILD-TYPE     48     61      4      1
D35V7, multiclass
        clus
vv       11P LOSS MUTATED 11P LOSS WILD-TYPE
  CLUS_1                8                 48
  CLUS_2                0                 61
  CLUS_3                1                  4
  CLUS_4                0                  1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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
  11P LOSS MUTATED        4      0      4      1      0      0
  11P LOSS WILD-TYPE     23     18     24      6     16     27
D35V8, multiclass
        clus
vv       11P LOSS MUTATED 11P LOSS WILD-TYPE
  CLUS_1                4                 23
  CLUS_2                0                 18
  CLUS_3                4                 24
  CLUS_4                1                  6
  CLUS_5                0                 16
  CLUS_6                0                 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
  11P LOSS MUTATED        0      0      9      0
  11P LOSS WILD-TYPE     28     51     34      1
D35V9, multiclass
        clus
vv       11P LOSS MUTATED 11P LOSS WILD-TYPE
  CLUS_1                0                 28
  CLUS_2                0                 51
  CLUS_3                9                 34
  CLUS_4                0                  1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  11P LOSS MUTATED        4      0      5      0
  11P LOSS WILD-TYPE     23     33     30     28
D35V10, multiclass
        clus
vv       11P LOSS MUTATED 11P LOSS WILD-TYPE
  CLUS_1                4                 23
  CLUS_2                0                 33
  CLUS_3                5                 30
  CLUS_4                0                 28
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(36) Variable = 11Q LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  11Q LOSS MUTATED        6      0      1      0      0
  11Q LOSS WILD-TYPE     30     27     18     31     10
D36V1, multiclass
        clus
vv       11Q LOSS MUTATED 11Q LOSS WILD-TYPE
  CLUS_1                6                 30
  CLUS_2                0                 27
  CLUS_3                1                 18
  CLUS_4                0                 31
  CLUS_5                0                 10
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  11Q LOSS MUTATED        0      0      6      1      0      0      0      0
  11Q LOSS WILD-TYPE     37     23     13      9     18      8      2      6
D36V2, multiclass
        clus
vv       11Q LOSS MUTATED 11Q LOSS WILD-TYPE
  CLUS_1                0                 37
  CLUS_2                0                 23
  CLUS_3                6                 13
  CLUS_4                1                  9
  CLUS_5                0                 18
  CLUS_6                0                  8
  CLUS_7                0                  2
  CLUS_8                0                  6
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  11Q LOSS MUTATED        4      1      0
  11Q LOSS WILD-TYPE     27     24     34
D36V3, multiclass
        clus
vv       11Q LOSS MUTATED 11Q LOSS WILD-TYPE
  CLUS_1                4                 27
  CLUS_2                1                 24
  CLUS_3                0                 34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  11Q LOSS MUTATED        1      0      0      4
  11Q LOSS WILD-TYPE     15     23     31     16
D36V4, multiclass
        clus
vv       11Q LOSS MUTATED 11Q LOSS WILD-TYPE
  CLUS_1                1                 15
  CLUS_2                0                 23
  CLUS_3                0                 31
  CLUS_4                4                 16
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  11Q LOSS MUTATED        6      0      0      1
  11Q LOSS WILD-TYPE     39     30     30     13
D36V5, multiclass
        clus
vv       11Q LOSS MUTATED 11Q LOSS WILD-TYPE
  CLUS_1                6                 39
  CLUS_2                0                 30
  CLUS_3                0                 30
  CLUS_4                1                 13
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  11Q LOSS MUTATED        7      0      0      0
  11Q LOSS WILD-TYPE     40     42     20     10
D36V6, multiclass
        clus
vv       11Q LOSS MUTATED 11Q LOSS WILD-TYPE
  CLUS_1                7                 40
  CLUS_2                0                 42
  CLUS_3                0                 20
  CLUS_4                0                 10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  11Q LOSS MUTATED        6      0      1      0
  11Q LOSS WILD-TYPE     50     61      4      1
D36V7, multiclass
        clus
vv       11Q LOSS MUTATED 11Q LOSS WILD-TYPE
  CLUS_1                6                 50
  CLUS_2                0                 61
  CLUS_3                1                  4
  CLUS_4                0                  1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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
  11Q LOSS MUTATED        4      0      3      0      0      0
  11Q LOSS WILD-TYPE     23     18     25      7     16     27
D36V8, multiclass
        clus
vv       11Q LOSS MUTATED 11Q LOSS WILD-TYPE
  CLUS_1                4                 23
  CLUS_2                0                 18
  CLUS_3                3                 25
  CLUS_4                0                  7
  CLUS_5                0                 16
  CLUS_6                0                 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
  11Q LOSS MUTATED        0      0      7      0
  11Q LOSS WILD-TYPE     28     51     36      1
D36V9, multiclass
        clus
vv       11Q LOSS MUTATED 11Q LOSS WILD-TYPE
  CLUS_1                0                 28
  CLUS_2                0                 51
  CLUS_3                7                 36
  CLUS_4                0                  1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  11Q LOSS MUTATED        4      0      3      0
  11Q LOSS WILD-TYPE     23     33     32     28
D36V10, multiclass
        clus
vv       11Q LOSS MUTATED 11Q LOSS WILD-TYPE
  CLUS_1                4                 23
  CLUS_2                0                 33
  CLUS_3                3                 32
  CLUS_4                0                 28
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(37) Variable = 12P LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  12P LOSS MUTATED        7      0      0      0      1
  12P LOSS WILD-TYPE     29     27     19     31      9
D37V1, multiclass
        clus
vv       12P LOSS MUTATED 12P LOSS WILD-TYPE
  CLUS_1                7                 29
  CLUS_2                0                 27
  CLUS_3                0                 19
  CLUS_4                0                 31
  CLUS_5                1                  9
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  12P LOSS MUTATED        1      0      6      1      0      0      0      0
  12P LOSS WILD-TYPE     36     23     13      9     18      8      2      6
D37V2, multiclass
        clus
vv       12P LOSS MUTATED 12P LOSS WILD-TYPE
  CLUS_1                1                 36
  CLUS_2                0                 23
  CLUS_3                6                 13
  CLUS_4                1                  9
  CLUS_5                0                 18
  CLUS_6                0                  8
  CLUS_7                0                  2
  CLUS_8                0                  6
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  12P LOSS MUTATED        4      0      0
  12P LOSS WILD-TYPE     27     25     34
D37V3, multiclass
        clus
vv       12P LOSS MUTATED 12P LOSS WILD-TYPE
  CLUS_1                4                 27
  CLUS_2                0                 25
  CLUS_3                0                 34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  12P LOSS MUTATED        0      0      0      4
  12P LOSS WILD-TYPE     16     23     31     16
D37V4, multiclass
        clus
vv       12P LOSS MUTATED 12P LOSS WILD-TYPE
  CLUS_1                0                 16
  CLUS_2                0                 23
  CLUS_3                0                 31
  CLUS_4                4                 16
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  12P LOSS MUTATED        7      0      0      0
  12P LOSS WILD-TYPE     38     30     30     14
D37V5, multiclass
        clus
vv       12P LOSS MUTATED 12P LOSS WILD-TYPE
  CLUS_1                7                 38
  CLUS_2                0                 30
  CLUS_3                0                 30
  CLUS_4                0                 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
  12P LOSS MUTATED        7      0      0      0
  12P LOSS WILD-TYPE     40     42     20     10
D37V6, multiclass
        clus
vv       12P LOSS MUTATED 12P LOSS WILD-TYPE
  CLUS_1                7                 40
  CLUS_2                0                 42
  CLUS_3                0                 20
  CLUS_4                0                 10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  12P LOSS MUTATED        7      0      1      0
  12P LOSS WILD-TYPE     49     61      4      1
D37V7, multiclass
        clus
vv       12P LOSS MUTATED 12P LOSS WILD-TYPE
  CLUS_1                7                 49
  CLUS_2                0                 61
  CLUS_3                1                  4
  CLUS_4                0                  1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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
  12P LOSS MUTATED        3      0      5      0      0      0
  12P LOSS WILD-TYPE     24     18     23      7     16     27
D37V8, multiclass
        clus
vv       12P LOSS MUTATED 12P LOSS WILD-TYPE
  CLUS_1                3                 24
  CLUS_2                0                 18
  CLUS_3                5                 23
  CLUS_4                0                  7
  CLUS_5                0                 16
  CLUS_6                0                 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
  12P LOSS MUTATED        1      0      7      0
  12P LOSS WILD-TYPE     27     51     36      1
D37V9, multiclass
        clus
vv       12P LOSS MUTATED 12P LOSS WILD-TYPE
  CLUS_1                1                 27
  CLUS_2                0                 51
  CLUS_3                7                 36
  CLUS_4                0                  1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  12P LOSS MUTATED        3      0      5      0
  12P LOSS WILD-TYPE     24     33     30     28
D37V10, multiclass
        clus
vv       12P LOSS MUTATED 12P LOSS WILD-TYPE
  CLUS_1                3                 24
  CLUS_2                0                 33
  CLUS_3                5                 30
  CLUS_4                0                 28
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(38) Variable = 12Q LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  12Q LOSS MUTATED        6      0      0      0      1
  12Q LOSS WILD-TYPE     30     27     19     31      9
D38V1, multiclass
        clus
vv       12Q LOSS MUTATED 12Q LOSS WILD-TYPE
  CLUS_1                6                 30
  CLUS_2                0                 27
  CLUS_3                0                 19
  CLUS_4                0                 31
  CLUS_5                1                  9
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  12Q LOSS MUTATED        0      0      6      1      0      0      0      0
  12Q LOSS WILD-TYPE     37     23     13      9     18      8      2      6
D38V2, multiclass
        clus
vv       12Q LOSS MUTATED 12Q LOSS WILD-TYPE
  CLUS_1                0                 37
  CLUS_2                0                 23
  CLUS_3                6                 13
  CLUS_4                1                  9
  CLUS_5                0                 18
  CLUS_6                0                  8
  CLUS_7                0                  2
  CLUS_8                0                  6
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  12Q LOSS MUTATED        4      0      0
  12Q LOSS WILD-TYPE     27     25     34
D38V3, multiclass
        clus
vv       12Q LOSS MUTATED 12Q LOSS WILD-TYPE
  CLUS_1                4                 27
  CLUS_2                0                 25
  CLUS_3                0                 34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  12Q LOSS MUTATED        0      0      0      4
  12Q LOSS WILD-TYPE     16     23     31     16
D38V4, multiclass
        clus
vv       12Q LOSS MUTATED 12Q LOSS WILD-TYPE
  CLUS_1                0                 16
  CLUS_2                0                 23
  CLUS_3                0                 31
  CLUS_4                4                 16
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  12Q LOSS MUTATED        7      0      0      0
  12Q LOSS WILD-TYPE     38     30     30     14
D38V5, multiclass
        clus
vv       12Q LOSS MUTATED 12Q LOSS WILD-TYPE
  CLUS_1                7                 38
  CLUS_2                0                 30
  CLUS_3                0                 30
  CLUS_4                0                 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
  12Q LOSS MUTATED        7      0      0      0
  12Q LOSS WILD-TYPE     40     42     20     10
D38V6, multiclass
        clus
vv       12Q LOSS MUTATED 12Q LOSS WILD-TYPE
  CLUS_1                7                 40
  CLUS_2                0                 42
  CLUS_3                0                 20
  CLUS_4                0                 10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  12Q LOSS MUTATED        6      0      1      0
  12Q LOSS WILD-TYPE     50     61      4      1
D38V7, multiclass
        clus
vv       12Q LOSS MUTATED 12Q LOSS WILD-TYPE
  CLUS_1                6                 50
  CLUS_2                0                 61
  CLUS_3                1                  4
  CLUS_4                0                  1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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
  12Q LOSS MUTATED        3      0      4      0      0      0
  12Q LOSS WILD-TYPE     24     18     24      7     16     27
D38V8, multiclass
        clus
vv       12Q LOSS MUTATED 12Q LOSS WILD-TYPE
  CLUS_1                3                 24
  CLUS_2                0                 18
  CLUS_3                4                 24
  CLUS_4                0                  7
  CLUS_5                0                 16
  CLUS_6                0                 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
  12Q LOSS MUTATED        0      0      7      0
  12Q LOSS WILD-TYPE     28     51     36      1
D38V9, multiclass
        clus
vv       12Q LOSS MUTATED 12Q LOSS WILD-TYPE
  CLUS_1                0                 28
  CLUS_2                0                 51
  CLUS_3                7                 36
  CLUS_4                0                  1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  12Q LOSS MUTATED        3      0      4      0
  12Q LOSS WILD-TYPE     24     33     31     28
D38V10, multiclass
        clus
vv       12Q LOSS MUTATED 12Q LOSS WILD-TYPE
  CLUS_1                3                 24
  CLUS_2                0                 33
  CLUS_3                4                 31
  CLUS_4                0                 28
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(39) Variable = 13Q LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  13Q LOSS MUTATED        6      2      6      0      0
  13Q LOSS WILD-TYPE     30     25     13     31     10
D39V1, multiclass
        clus
vv       13Q LOSS MUTATED 13Q LOSS WILD-TYPE
  CLUS_1                6                 30
  CLUS_2                2                 25
  CLUS_3                6                 13
  CLUS_4                0                 31
  CLUS_5                0                 10
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  13Q LOSS MUTATED        1      0      8      2      3      0      0      0
  13Q LOSS WILD-TYPE     36     23     11      8     15      8      2      6
D39V2, multiclass
        clus
vv       13Q LOSS MUTATED 13Q LOSS WILD-TYPE
  CLUS_1                1                 36
  CLUS_2                0                 23
  CLUS_3                8                 11
  CLUS_4                2                  8
  CLUS_5                3                 15
  CLUS_6                0                  8
  CLUS_7                0                  2
  CLUS_8                0                  6
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  13Q LOSS MUTATED        7      4      0
  13Q LOSS WILD-TYPE     24     21     34
D39V3, multiclass
        clus
vv       13Q LOSS MUTATED 13Q LOSS WILD-TYPE
  CLUS_1                7                 24
  CLUS_2                4                 21
  CLUS_3                0                 34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  13Q LOSS MUTATED        2      2      1      6
  13Q LOSS WILD-TYPE     14     21     30     14
D39V4, multiclass
        clus
vv       13Q LOSS MUTATED 13Q LOSS WILD-TYPE
  CLUS_1                2                 14
  CLUS_2                2                 21
  CLUS_3                1                 30
  CLUS_4                6                 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
  13Q LOSS MUTATED       10      1      2      1
  13Q LOSS WILD-TYPE     35     29     28     13
D39V5, multiclass
        clus
vv       13Q LOSS MUTATED 13Q LOSS WILD-TYPE
  CLUS_1               10                 35
  CLUS_2                1                 29
  CLUS_3                2                 28
  CLUS_4                1                 13
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  13Q LOSS MUTATED       10      3      0      1
  13Q LOSS WILD-TYPE     37     39     20      9
D39V6, multiclass
        clus
vv       13Q LOSS MUTATED 13Q LOSS WILD-TYPE
  CLUS_1               10                 37
  CLUS_2                3                 39
  CLUS_3                0                 20
  CLUS_4                1                  9
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  13Q LOSS MUTATED        9      4      1      0
  13Q LOSS WILD-TYPE     47     57      4      1
D39V7, multiclass
        clus
vv       13Q LOSS MUTATED 13Q LOSS WILD-TYPE
  CLUS_1                9                 47
  CLUS_2                4                 57
  CLUS_3                1                  4
  CLUS_4                0                  1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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
  13Q LOSS MUTATED        4      2      5      1      1      1
  13Q LOSS WILD-TYPE     23     16     23      6     15     26
D39V8, multiclass
        clus
vv       13Q LOSS MUTATED 13Q LOSS WILD-TYPE
  CLUS_1                4                 23
  CLUS_2                2                 16
  CLUS_3                5                 23
  CLUS_4                1                  6
  CLUS_5                1                 15
  CLUS_6                1                 26
[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
  13Q LOSS MUTATED        0      3     11      0
  13Q LOSS WILD-TYPE     28     48     32      1
D39V9, multiclass
        clus
vv       13Q LOSS MUTATED 13Q LOSS WILD-TYPE
  CLUS_1                0                 28
  CLUS_2                3                 48
  CLUS_3               11                 32
  CLUS_4                0                  1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  13Q LOSS MUTATED        4      3      6      1
  13Q LOSS WILD-TYPE     23     30     29     27
D39V10, multiclass
        clus
vv       13Q LOSS MUTATED 13Q LOSS WILD-TYPE
  CLUS_1                4                 23
  CLUS_2                3                 30
  CLUS_3                6                 29
  CLUS_4                1                 27
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(40) Variable = 16P LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  16P LOSS MUTATED        2      0      2      0      1
  16P LOSS WILD-TYPE     34     27     17     31      9
D40V1, multiclass
        clus
vv       16P LOSS MUTATED 16P LOSS WILD-TYPE
  CLUS_1                2                 34
  CLUS_2                0                 27
  CLUS_3                2                 17
  CLUS_4                0                 31
  CLUS_5                1                  9
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  16P LOSS MUTATED        1      0      1      3      0      0      0      0
  16P LOSS WILD-TYPE     36     23     18      7     18      8      2      6
D40V2, multiclass
        clus
vv       16P LOSS MUTATED 16P LOSS WILD-TYPE
  CLUS_1                1                 36
  CLUS_2                0                 23
  CLUS_3                1                 18
  CLUS_4                3                  7
  CLUS_5                0                 18
  CLUS_6                0                  8
  CLUS_7                0                  2
  CLUS_8                0                  6
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  16P LOSS MUTATED        2      1      0
  16P LOSS WILD-TYPE     29     24     34
D40V3, multiclass
        clus
vv       16P LOSS MUTATED 16P LOSS WILD-TYPE
  CLUS_1                2                 29
  CLUS_2                1                 24
  CLUS_3                0                 34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  16P LOSS MUTATED        0      0      0      3
  16P LOSS WILD-TYPE     16     23     31     17
D40V4, multiclass
        clus
vv       16P LOSS MUTATED 16P LOSS WILD-TYPE
  CLUS_1                0                 16
  CLUS_2                0                 23
  CLUS_3                0                 31
  CLUS_4                3                 17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  16P LOSS MUTATED        2      1      0      2
  16P LOSS WILD-TYPE     43     29     30     12
D40V5, multiclass
        clus
vv       16P LOSS MUTATED 16P LOSS WILD-TYPE
  CLUS_1                2                 43
  CLUS_2                1                 29
  CLUS_3                0                 30
  CLUS_4                2                 12
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  16P LOSS MUTATED        2      1      0      2
  16P LOSS WILD-TYPE     45     41     20      8
D40V6, multiclass
        clus
vv       16P LOSS MUTATED 16P LOSS WILD-TYPE
  CLUS_1                2                 45
  CLUS_2                1                 41
  CLUS_3                0                 20
  CLUS_4                2                  8
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  16P LOSS MUTATED        3      1      1      0
  16P LOSS WILD-TYPE     53     60      4      1
D40V7, multiclass
        clus
vv       16P LOSS MUTATED 16P LOSS WILD-TYPE
  CLUS_1                3                 53
  CLUS_2                1                 60
  CLUS_3                1                  4
  CLUS_4                0                  1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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
  16P LOSS MUTATED        1      0      2      1      0      1
  16P LOSS WILD-TYPE     26     18     26      6     16     26
D40V8, multiclass
        clus
vv       16P LOSS MUTATED 16P LOSS WILD-TYPE
  CLUS_1                1                 26
  CLUS_2                0                 18
  CLUS_3                2                 26
  CLUS_4                1                  6
  CLUS_5                0                 16
  CLUS_6                1                 26
[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
  16P LOSS MUTATED        0      1      4      0
  16P LOSS WILD-TYPE     28     50     39      1
D40V9, multiclass
        clus
vv       16P LOSS MUTATED 16P LOSS WILD-TYPE
  CLUS_1                0                 28
  CLUS_2                1                 50
  CLUS_3                4                 39
  CLUS_4                0                  1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  16P LOSS MUTATED        1      0      3      1
  16P LOSS WILD-TYPE     26     33     32     27
D40V10, multiclass
        clus
vv       16P LOSS MUTATED 16P LOSS WILD-TYPE
  CLUS_1                1                 26
  CLUS_2                0                 33
  CLUS_3                3                 32
  CLUS_4                1                 27
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(41) Variable = 16Q LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  16Q LOSS MUTATED        3      0      6      1      3
  16Q LOSS WILD-TYPE     33     27     13     30      7
D41V1, multiclass
        clus
vv       16Q LOSS MUTATED 16Q LOSS WILD-TYPE
  CLUS_1                3                 33
  CLUS_2                0                 27
  CLUS_3                6                 13
  CLUS_4                1                 30
  CLUS_5                3                  7
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  16Q LOSS MUTATED        1      1      2      9      0      0      0      0
  16Q LOSS WILD-TYPE     36     22     17      1     18      8      2      6
D41V2, multiclass
        clus
vv       16Q LOSS MUTATED 16Q LOSS WILD-TYPE
  CLUS_1                1                 36
  CLUS_2                1                 22
  CLUS_3                2                 17
  CLUS_4                9                  1
  CLUS_5                0                 18
  CLUS_6                0                  8
  CLUS_7                0                  2
  CLUS_8                0                  6
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  16Q LOSS MUTATED        6      2      1
  16Q LOSS WILD-TYPE     25     23     33
D41V3, multiclass
        clus
vv       16Q LOSS MUTATED 16Q LOSS WILD-TYPE
  CLUS_1                6                 25
  CLUS_2                2                 23
  CLUS_3                1                 33
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  16Q LOSS MUTATED        0      1      0      8
  16Q LOSS WILD-TYPE     16     22     31     12
D41V4, multiclass
        clus
vv       16Q LOSS MUTATED 16Q LOSS WILD-TYPE
  CLUS_1                0                 16
  CLUS_2                1                 22
  CLUS_3                0                 31
  CLUS_4                8                 12
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  16Q LOSS MUTATED        3      1      1      8
  16Q LOSS WILD-TYPE     42     29     29      6
D41V5, multiclass
        clus
vv       16Q LOSS MUTATED 16Q LOSS WILD-TYPE
  CLUS_1                3                 42
  CLUS_2                1                 29
  CLUS_3                1                 29
  CLUS_4                8                  6
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  16Q LOSS MUTATED        3      1      1      8
  16Q LOSS WILD-TYPE     44     41     19      2
D41V6, multiclass
        clus
vv       16Q LOSS MUTATED 16Q LOSS WILD-TYPE
  CLUS_1                3                 44
  CLUS_2                1                 41
  CLUS_3                1                 19
  CLUS_4                8                  2
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  16Q LOSS MUTATED       10      2      1      0
  16Q LOSS WILD-TYPE     46     59      4      1
D41V7, multiclass
        clus
vv       16Q LOSS MUTATED 16Q LOSS WILD-TYPE
  CLUS_1               10                 46
  CLUS_2                2                 59
  CLUS_3                1                  4
  CLUS_4                0                  1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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
  16Q LOSS MUTATED        1      0      4      6      1      1
  16Q LOSS WILD-TYPE     26     18     24      1     15     26
D41V8, multiclass
        clus
vv       16Q LOSS MUTATED 16Q LOSS WILD-TYPE
  CLUS_1                1                 26
  CLUS_2                0                 18
  CLUS_3                4                 24
  CLUS_4                6                  1
  CLUS_5                1                 15
  CLUS_6                1                 26
[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
  16Q LOSS MUTATED        0      2     11      0
  16Q LOSS WILD-TYPE     28     49     32      1
D41V9, multiclass
        clus
vv       16Q LOSS MUTATED 16Q LOSS WILD-TYPE
  CLUS_1                0                 28
  CLUS_2                2                 49
  CLUS_3               11                 32
  CLUS_4                0                  1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  16Q LOSS MUTATED        1      1     10      1
  16Q LOSS WILD-TYPE     26     32     25     27
D41V10, multiclass
        clus
vv       16Q LOSS MUTATED 16Q LOSS WILD-TYPE
  CLUS_1                1                 26
  CLUS_2                1                 32
  CLUS_3               10                 25
  CLUS_4                1                 27
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(42) Variable = 17P LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  17P LOSS MUTATED        5      2      6      0      1
  17P LOSS WILD-TYPE     31     25     13     31      9
D42V1, multiclass
        clus
vv       17P LOSS MUTATED 17P LOSS WILD-TYPE
  CLUS_1                5                 31
  CLUS_2                2                 25
  CLUS_3                6                 13
  CLUS_4                0                 31
  CLUS_5                1                  9
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  17P LOSS MUTATED        1      3      6      4      0      0      0      0
  17P LOSS WILD-TYPE     36     20     13      6     18      8      2      6
D42V2, multiclass
        clus
vv       17P LOSS MUTATED 17P LOSS WILD-TYPE
  CLUS_1                1                 36
  CLUS_2                3                 20
  CLUS_3                6                 13
  CLUS_4                4                  6
  CLUS_5                0                 18
  CLUS_6                0                  8
  CLUS_7                0                  2
  CLUS_8                0                  6
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  17P LOSS MUTATED        7      2      0
  17P LOSS WILD-TYPE     24     23     34
D42V3, multiclass
        clus
vv       17P LOSS MUTATED 17P LOSS WILD-TYPE
  CLUS_1                7                 24
  CLUS_2                2                 23
  CLUS_3                0                 34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  17P LOSS MUTATED        0      2      0      7
  17P LOSS WILD-TYPE     16     21     31     13
D42V4, multiclass
        clus
vv       17P LOSS MUTATED 17P LOSS WILD-TYPE
  CLUS_1                0                 16
  CLUS_2                2                 21
  CLUS_3                0                 31
  CLUS_4                7                 13
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  17P LOSS MUTATED        7      0      3      4
  17P LOSS WILD-TYPE     38     30     27     10
D42V5, multiclass
        clus
vv       17P LOSS MUTATED 17P LOSS WILD-TYPE
  CLUS_1                7                 38
  CLUS_2                0                 30
  CLUS_3                3                 27
  CLUS_4                4                 10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  17P LOSS MUTATED        7      0      3      4
  17P LOSS WILD-TYPE     40     42     17      6
D42V6, multiclass
        clus
vv       17P LOSS MUTATED 17P LOSS WILD-TYPE
  CLUS_1                7                 40
  CLUS_2                0                 42
  CLUS_3                3                 17
  CLUS_4                4                  6
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  17P LOSS MUTATED       10      4      0      0
  17P LOSS WILD-TYPE     46     57      5      1
D42V7, multiclass
        clus
vv       17P LOSS MUTATED 17P LOSS WILD-TYPE
  CLUS_1               10                 46
  CLUS_2                4                 57
  CLUS_3                0                  5
  CLUS_4                0                  1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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
  17P LOSS MUTATED        2      0      5      3      4      0
  17P LOSS WILD-TYPE     25     18     23      4     12     27
D42V8, multiclass
        clus
vv       17P LOSS MUTATED 17P LOSS WILD-TYPE
  CLUS_1                2                 25
  CLUS_2                0                 18
  CLUS_3                5                 23
  CLUS_4                3                  4
  CLUS_5                4                 12
  CLUS_6                0                 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
  17P LOSS MUTATED        0      3     11      0
  17P LOSS WILD-TYPE     28     48     32      1
D42V9, multiclass
        clus
vv       17P LOSS MUTATED 17P LOSS WILD-TYPE
  CLUS_1                0                 28
  CLUS_2                3                 48
  CLUS_3               11                 32
  CLUS_4                0                  1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  17P LOSS MUTATED        2      4      8      0
  17P LOSS WILD-TYPE     25     29     27     28
D42V10, multiclass
        clus
vv       17P LOSS MUTATED 17P LOSS WILD-TYPE
  CLUS_1                2                 25
  CLUS_2                4                 29
  CLUS_3                8                 27
  CLUS_4                0                 28
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(43) Variable = 17Q LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  17Q LOSS MUTATED        4      0      2      0      0
  17Q LOSS WILD-TYPE     32     27     17     31     10
D43V1, multiclass
        clus
vv       17Q LOSS MUTATED 17Q LOSS WILD-TYPE
  CLUS_1                4                 32
  CLUS_2                0                 27
  CLUS_3                2                 17
  CLUS_4                0                 31
  CLUS_5                0                 10
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  17Q LOSS MUTATED        0      1      4      1      0      0      0      0
  17Q LOSS WILD-TYPE     37     22     15      9     18      8      2      6
D43V2, multiclass
        clus
vv       17Q LOSS MUTATED 17Q LOSS WILD-TYPE
  CLUS_1                0                 37
  CLUS_2                1                 22
  CLUS_3                4                 15
  CLUS_4                1                  9
  CLUS_5                0                 18
  CLUS_6                0                  8
  CLUS_7                0                  2
  CLUS_8                0                  6
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  17Q LOSS MUTATED        3      1      0
  17Q LOSS WILD-TYPE     28     24     34
D43V3, multiclass
        clus
vv       17Q LOSS MUTATED 17Q LOSS WILD-TYPE
  CLUS_1                3                 28
  CLUS_2                1                 24
  CLUS_3                0                 34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  17Q LOSS MUTATED        0      0      0      4
  17Q LOSS WILD-TYPE     16     23     31     16
D43V4, multiclass
        clus
vv       17Q LOSS MUTATED 17Q LOSS WILD-TYPE
  CLUS_1                0                 16
  CLUS_2                0                 23
  CLUS_3                0                 31
  CLUS_4                4                 16
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  17Q LOSS MUTATED        4      0      1      1
  17Q LOSS WILD-TYPE     41     30     29     13
D43V5, multiclass
        clus
vv       17Q LOSS MUTATED 17Q LOSS WILD-TYPE
  CLUS_1                4                 41
  CLUS_2                0                 30
  CLUS_3                1                 29
  CLUS_4                1                 13
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  17Q LOSS MUTATED        4      0      1      1
  17Q LOSS WILD-TYPE     43     42     19      9
D43V6, multiclass
        clus
vv       17Q LOSS MUTATED 17Q LOSS WILD-TYPE
  CLUS_1                4                 43
  CLUS_2                0                 42
  CLUS_3                1                 19
  CLUS_4                1                  9
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  17Q LOSS MUTATED        5      1      0      0
  17Q LOSS WILD-TYPE     51     60      5      1
D43V7, multiclass
        clus
vv       17Q LOSS MUTATED 17Q LOSS WILD-TYPE
  CLUS_1                5                 51
  CLUS_2                1                 60
  CLUS_3                0                  5
  CLUS_4                0                  1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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
  17Q LOSS MUTATED        1      0      3      1      1      0
  17Q LOSS WILD-TYPE     26     18     25      6     15     27
D43V8, multiclass
        clus
vv       17Q LOSS MUTATED 17Q LOSS WILD-TYPE
  CLUS_1                1                 26
  CLUS_2                0                 18
  CLUS_3                3                 25
  CLUS_4                1                  6
  CLUS_5                1                 15
  CLUS_6                0                 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
  17Q LOSS MUTATED        0      1      5      0
  17Q LOSS WILD-TYPE     28     50     38      1
D43V9, multiclass
        clus
vv       17Q LOSS MUTATED 17Q LOSS WILD-TYPE
  CLUS_1                0                 28
  CLUS_2                1                 50
  CLUS_3                5                 38
  CLUS_4                0                  1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  17Q LOSS MUTATED        1      1      4      0
  17Q LOSS WILD-TYPE     26     32     31     28
D43V10, multiclass
        clus
vv       17Q LOSS MUTATED 17Q LOSS WILD-TYPE
  CLUS_1                1                 26
  CLUS_2                1                 32
  CLUS_3                4                 31
  CLUS_4                0                 28
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(44) Variable = 18P LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  18P LOSS MUTATED        5      0      1      0      1
  18P LOSS WILD-TYPE     31     27     18     31      9
D44V1, multiclass
        clus
vv       18P LOSS MUTATED 18P LOSS WILD-TYPE
  CLUS_1                5                 31
  CLUS_2                0                 27
  CLUS_3                1                 18
  CLUS_4                0                 31
  CLUS_5                1                  9
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  18P LOSS MUTATED        1      0      4      2      0      0      0      0
  18P LOSS WILD-TYPE     36     23     15      8     18      8      2      6
D44V2, multiclass
        clus
vv       18P LOSS MUTATED 18P LOSS WILD-TYPE
  CLUS_1                1                 36
  CLUS_2                0                 23
  CLUS_3                4                 15
  CLUS_4                2                  8
  CLUS_5                0                 18
  CLUS_6                0                  8
  CLUS_7                0                  2
  CLUS_8                0                  6
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  18P LOSS MUTATED        4      0      0
  18P LOSS WILD-TYPE     27     25     34
D44V3, multiclass
        clus
vv       18P LOSS MUTATED 18P LOSS WILD-TYPE
  CLUS_1                4                 27
  CLUS_2                0                 25
  CLUS_3                0                 34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  18P LOSS MUTATED        0      0      1      3
  18P LOSS WILD-TYPE     16     23     30     17
D44V4, multiclass
        clus
vv       18P LOSS MUTATED 18P LOSS WILD-TYPE
  CLUS_1                0                 16
  CLUS_2                0                 23
  CLUS_3                1                 30
  CLUS_4                3                 17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  18P LOSS MUTATED        6      0      0      1
  18P LOSS WILD-TYPE     39     30     30     13
D44V5, multiclass
        clus
vv       18P LOSS MUTATED 18P LOSS WILD-TYPE
  CLUS_1                6                 39
  CLUS_2                0                 30
  CLUS_3                0                 30
  CLUS_4                1                 13
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  18P LOSS MUTATED        6      0      0      1
  18P LOSS WILD-TYPE     41     42     20      9
D44V6, multiclass
        clus
vv       18P LOSS MUTATED 18P LOSS WILD-TYPE
  CLUS_1                6                 41
  CLUS_2                0                 42
  CLUS_3                0                 20
  CLUS_4                1                  9
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  18P LOSS MUTATED        5      0      2      0
  18P LOSS WILD-TYPE     51     61      3      1
D44V7, multiclass
        clus
vv       18P LOSS MUTATED 18P LOSS WILD-TYPE
  CLUS_1                5                 51
  CLUS_2                0                 61
  CLUS_3                2                  3
  CLUS_4                0                  1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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
  18P LOSS MUTATED        2      0      4      1      0      0
  18P LOSS WILD-TYPE     25     18     24      6     16     27
D44V8, multiclass
        clus
vv       18P LOSS MUTATED 18P LOSS WILD-TYPE
  CLUS_1                2                 25
  CLUS_2                0                 18
  CLUS_3                4                 24
  CLUS_4                1                  6
  CLUS_5                0                 16
  CLUS_6                0                 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
  18P LOSS MUTATED        0      0      7      0
  18P LOSS WILD-TYPE     28     51     36      1
D44V9, multiclass
        clus
vv       18P LOSS MUTATED 18P LOSS WILD-TYPE
  CLUS_1                0                 28
  CLUS_2                0                 51
  CLUS_3                7                 36
  CLUS_4                0                  1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  18P LOSS MUTATED        2      0      5      0
  18P LOSS WILD-TYPE     25     33     30     28
D44V10, multiclass
        clus
vv       18P LOSS MUTATED 18P LOSS WILD-TYPE
  CLUS_1                2                 25
  CLUS_2                0                 33
  CLUS_3                5                 30
  CLUS_4                0                 28
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(45) Variable = 18Q LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  18Q LOSS MUTATED        5      0      1      0      1
  18Q LOSS WILD-TYPE     31     27     18     31      9
D45V1, multiclass
        clus
vv       18Q LOSS MUTATED 18Q LOSS WILD-TYPE
  CLUS_1                5                 31
  CLUS_2                0                 27
  CLUS_3                1                 18
  CLUS_4                0                 31
  CLUS_5                1                  9
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  18Q LOSS MUTATED        1      0      4      2      0      0      0      0
  18Q LOSS WILD-TYPE     36     23     15      8     18      8      2      6
D45V2, multiclass
        clus
vv       18Q LOSS MUTATED 18Q LOSS WILD-TYPE
  CLUS_1                1                 36
  CLUS_2                0                 23
  CLUS_3                4                 15
  CLUS_4                2                  8
  CLUS_5                0                 18
  CLUS_6                0                  8
  CLUS_7                0                  2
  CLUS_8                0                  6
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  18Q LOSS MUTATED        4      0      0
  18Q LOSS WILD-TYPE     27     25     34
D45V3, multiclass
        clus
vv       18Q LOSS MUTATED 18Q LOSS WILD-TYPE
  CLUS_1                4                 27
  CLUS_2                0                 25
  CLUS_3                0                 34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  18Q LOSS MUTATED        0      0      1      3
  18Q LOSS WILD-TYPE     16     23     30     17
D45V4, multiclass
        clus
vv       18Q LOSS MUTATED 18Q LOSS WILD-TYPE
  CLUS_1                0                 16
  CLUS_2                0                 23
  CLUS_3                1                 30
  CLUS_4                3                 17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  18Q LOSS MUTATED        6      0      0      1
  18Q LOSS WILD-TYPE     39     30     30     13
D45V5, multiclass
        clus
vv       18Q LOSS MUTATED 18Q LOSS WILD-TYPE
  CLUS_1                6                 39
  CLUS_2                0                 30
  CLUS_3                0                 30
  CLUS_4                1                 13
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  18Q LOSS MUTATED        6      0      0      1
  18Q LOSS WILD-TYPE     41     42     20      9
D45V6, multiclass
        clus
vv       18Q LOSS MUTATED 18Q LOSS WILD-TYPE
  CLUS_1                6                 41
  CLUS_2                0                 42
  CLUS_3                0                 20
  CLUS_4                1                  9
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  18Q LOSS MUTATED        5      0      2      0
  18Q LOSS WILD-TYPE     51     61      3      1
D45V7, multiclass
        clus
vv       18Q LOSS MUTATED 18Q LOSS WILD-TYPE
  CLUS_1                5                 51
  CLUS_2                0                 61
  CLUS_3                2                  3
  CLUS_4                0                  1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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
  18Q LOSS MUTATED        2      0      4      1      0      0
  18Q LOSS WILD-TYPE     25     18     24      6     16     27
D45V8, multiclass
        clus
vv       18Q LOSS MUTATED 18Q LOSS WILD-TYPE
  CLUS_1                2                 25
  CLUS_2                0                 18
  CLUS_3                4                 24
  CLUS_4                1                  6
  CLUS_5                0                 16
  CLUS_6                0                 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
  18Q LOSS MUTATED        0      0      7      0
  18Q LOSS WILD-TYPE     28     51     36      1
D45V9, multiclass
        clus
vv       18Q LOSS MUTATED 18Q LOSS WILD-TYPE
  CLUS_1                0                 28
  CLUS_2                0                 51
  CLUS_3                7                 36
  CLUS_4                0                  1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  18Q LOSS MUTATED        2      0      5      0
  18Q LOSS WILD-TYPE     25     33     30     28
D45V10, multiclass
        clus
vv       18Q LOSS MUTATED 18Q LOSS WILD-TYPE
  CLUS_1                2                 25
  CLUS_2                0                 33
  CLUS_3                5                 30
  CLUS_4                0                 28
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(46) Variable = 19P LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  19P LOSS MUTATED        0      0      3      0      0
  19P LOSS WILD-TYPE     36     27     16     31     10
D46V1, multiclass
        clus
vv       19P LOSS MUTATED 19P LOSS WILD-TYPE
  CLUS_1                0                 36
  CLUS_2                0                 27
  CLUS_3                3                 16
  CLUS_4                0                 31
  CLUS_5                0                 10
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  19P LOSS MUTATED        0      0      0      3      0      0      0      0
  19P LOSS WILD-TYPE     37     23     19      7     18      8      2      6
D46V2, multiclass
        clus
vv       19P LOSS MUTATED 19P LOSS WILD-TYPE
  CLUS_1                0                 37
  CLUS_2                0                 23
  CLUS_3                0                 19
  CLUS_4                3                  7
  CLUS_5                0                 18
  CLUS_6                0                  8
  CLUS_7                0                  2
  CLUS_8                0                  6
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  19P LOSS MUTATED        1      1      0
  19P LOSS WILD-TYPE     30     24     34
D46V3, multiclass
[1] "Remove cluster labels:" "19P LOSS MUTATED"      
clus
  19P LOSS MUTATED 19P LOSS WILD-TYPE 
                 2                 88 
        TCGA-3G-AB0O         TCGA-3G-AB0Q         TCGA-3G-AB0T 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-3G-AB14         TCGA-3G-AB19         TCGA-3Q-A9WF 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-3S-AAYX         TCGA-4V-A9QL         TCGA-4V-A9QN 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-4V-A9QS         TCGA-4V-A9QW         TCGA-4V-A9QX 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-4X-A9F9         TCGA-4X-A9FB         TCGA-4X-A9FC 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-5G-A9ZZ         TCGA-5K-AAAP         TCGA-5U-AB0E 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-5U-AB0F         TCGA-5V-A9RR         TCGA-X7-A8D6 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-X7-A8D7         TCGA-X7-A8D9         TCGA-X7-A8DB 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-X7-A8DC         TCGA-X7-A8DD         TCGA-X7-A8DE 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-X7-A8DF         TCGA-X7-A8DG         TCGA-X7-A8DI 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-X7-A8DJ         TCGA-X7-A8M0         TCGA-X7-A8M1 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-X7-A8M3         TCGA-X7-A8M4         TCGA-X7-A8M5 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-X7-A8M6         TCGA-X7-A8M7         TCGA-XM-A8R8 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-XM-A8RB         TCGA-XM-A8RC         TCGA-XM-A8RD 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-XM-A8RE         TCGA-XM-A8RF         TCGA-XM-A8RG 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-XM-A8RH         TCGA-XM-A8RI         TCGA-XM-A8RL 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-XM-AAZ1         TCGA-XM-AAZ2         TCGA-XM-AAZ3 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-XU-A92Q         TCGA-XU-A92R         TCGA-XU-A92U 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-XU-A92V         TCGA-XU-A92X         TCGA-XU-A92Z 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-XU-A931         TCGA-XU-A932         TCGA-XU-A933 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-XU-AAY0         TCGA-XU-AAY1         TCGA-YT-A95D 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-YT-A95E         TCGA-YT-A95F         TCGA-YT-A95G 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-YT-A95H         TCGA-ZB-A961         TCGA-ZB-A962 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-ZB-A963         TCGA-ZB-A964         TCGA-ZB-A965 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-ZB-A966         TCGA-ZB-A969         TCGA-ZB-A96A 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-ZB-A96B         TCGA-ZB-A96C         TCGA-ZB-A96D 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-ZB-A96I         TCGA-ZB-A96P         TCGA-ZB-A96Q 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-ZB-A96R         TCGA-ZB-A96V         TCGA-ZC-AAA7 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-ZC-AAAA         TCGA-ZC-AAAF         TCGA-ZC-AAAH 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-ZL-A9V6 
"19P LOSS WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  19P LOSS MUTATED        0      0      0      2
  19P LOSS WILD-TYPE     16     23     31     18
D46V4, multiclass
[1] "Remove cluster labels:" "19P LOSS MUTATED"      
clus
  19P LOSS MUTATED 19P LOSS WILD-TYPE 
                 2                 88 
        TCGA-3G-AB0O         TCGA-3G-AB0Q         TCGA-3G-AB0T 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-3G-AB14         TCGA-3G-AB19         TCGA-3Q-A9WF 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-3S-AAYX         TCGA-4V-A9QL         TCGA-4V-A9QN 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-4V-A9QS         TCGA-4V-A9QW         TCGA-4V-A9QX 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-4X-A9F9         TCGA-4X-A9FB         TCGA-4X-A9FC 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-5G-A9ZZ         TCGA-5K-AAAP         TCGA-5U-AB0E 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-5U-AB0F         TCGA-5V-A9RR         TCGA-X7-A8D6 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-X7-A8D7         TCGA-X7-A8D9         TCGA-X7-A8DB 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-X7-A8DC         TCGA-X7-A8DD         TCGA-X7-A8DE 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-X7-A8DF         TCGA-X7-A8DG         TCGA-X7-A8DI 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-X7-A8DJ         TCGA-X7-A8M0         TCGA-X7-A8M1 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-X7-A8M3         TCGA-X7-A8M4         TCGA-X7-A8M5 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-X7-A8M6         TCGA-X7-A8M7         TCGA-XM-A8R8 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-XM-A8RB         TCGA-XM-A8RC         TCGA-XM-A8RD 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-XM-A8RE         TCGA-XM-A8RF         TCGA-XM-A8RG 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-XM-A8RH         TCGA-XM-A8RI         TCGA-XM-A8RL 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-XM-AAZ1         TCGA-XM-AAZ2         TCGA-XM-AAZ3 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-XU-A92Q         TCGA-XU-A92R         TCGA-XU-A92U 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-XU-A92V         TCGA-XU-A92X         TCGA-XU-A92Z 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-XU-A931         TCGA-XU-A932         TCGA-XU-A933 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-XU-AAY0         TCGA-XU-AAY1         TCGA-YT-A95D 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-YT-A95E         TCGA-YT-A95F         TCGA-YT-A95G 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-YT-A95H         TCGA-ZB-A961         TCGA-ZB-A962 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-ZB-A963         TCGA-ZB-A964         TCGA-ZB-A965 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-ZB-A966         TCGA-ZB-A969         TCGA-ZB-A96A 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-ZB-A96B         TCGA-ZB-A96C         TCGA-ZB-A96D 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-ZB-A96I         TCGA-ZB-A96P         TCGA-ZB-A96Q 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-ZB-A96R         TCGA-ZB-A96V         TCGA-ZC-AAA7 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-ZC-AAAA         TCGA-ZC-AAAF         TCGA-ZC-AAAH 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-ZL-A9V6 
"19P LOSS WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  19P LOSS MUTATED        0      0      0      3
  19P LOSS WILD-TYPE     45     30     30     11
D46V5, multiclass
        clus
vv       19P LOSS MUTATED 19P LOSS WILD-TYPE
  CLUS_1                0                 45
  CLUS_2                0                 30
  CLUS_3                0                 30
  CLUS_4                3                 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"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  19P LOSS MUTATED        0      0      0      3
  19P LOSS WILD-TYPE     47     42     20      7
D46V6, multiclass
        clus
vv       19P LOSS MUTATED 19P LOSS WILD-TYPE
  CLUS_1                0                 47
  CLUS_2                0                 42
  CLUS_3                0                 20
  CLUS_4                3                  7
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  19P LOSS MUTATED        3      0      0      0
  19P LOSS WILD-TYPE     53     61      5      1
D46V7, multiclass
        clus
vv       19P LOSS MUTATED 19P LOSS WILD-TYPE
  CLUS_1                3                 53
  CLUS_2                0                 61
  CLUS_3                0                  5
  CLUS_4                0                  1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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
  19P LOSS MUTATED        0      0      1      2      0      0
  19P LOSS WILD-TYPE     27     18     27      5     16     27
D46V8, multiclass
        clus
vv       19P LOSS MUTATED 19P LOSS WILD-TYPE
  CLUS_1                0                 27
  CLUS_2                0                 18
  CLUS_3                1                 27
  CLUS_4                2                  5
  CLUS_5                0                 16
  CLUS_6                0                 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
  19P LOSS MUTATED        0      0      3      0
  19P LOSS WILD-TYPE     28     51     40      1
D46V9, multiclass
        clus
vv       19P LOSS MUTATED 19P LOSS WILD-TYPE
  CLUS_1                0                 28
  CLUS_2                0                 51
  CLUS_3                3                 40
  CLUS_4                0                  1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  19P LOSS MUTATED        0      0      3      0
  19P LOSS WILD-TYPE     27     33     32     28
D46V10, multiclass
        clus
vv       19P LOSS MUTATED 19P LOSS WILD-TYPE
  CLUS_1                0                 27
  CLUS_2                0                 33
  CLUS_3                3                 32
  CLUS_4                0                 28
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(47) Variable = 19Q LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  19Q LOSS MUTATED        0      0      3      0      0
  19Q LOSS WILD-TYPE     36     27     16     31     10
D47V1, multiclass
        clus
vv       19Q LOSS MUTATED 19Q LOSS WILD-TYPE
  CLUS_1                0                 36
  CLUS_2                0                 27
  CLUS_3                3                 16
  CLUS_4                0                 31
  CLUS_5                0                 10
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  19Q LOSS MUTATED        0      0      0      3      0      0      0      0
  19Q LOSS WILD-TYPE     37     23     19      7     18      8      2      6
D47V2, multiclass
        clus
vv       19Q LOSS MUTATED 19Q LOSS WILD-TYPE
  CLUS_1                0                 37
  CLUS_2                0                 23
  CLUS_3                0                 19
  CLUS_4                3                  7
  CLUS_5                0                 18
  CLUS_6                0                  8
  CLUS_7                0                  2
  CLUS_8                0                  6
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  19Q LOSS MUTATED        1      1      0
  19Q LOSS WILD-TYPE     30     24     34
D47V3, multiclass
[1] "Remove cluster labels:" "19Q LOSS MUTATED"      
clus
  19Q LOSS MUTATED 19Q LOSS WILD-TYPE 
                 2                 88 
        TCGA-3G-AB0O         TCGA-3G-AB0Q         TCGA-3G-AB0T 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-3G-AB14         TCGA-3G-AB19         TCGA-3Q-A9WF 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-3S-AAYX         TCGA-4V-A9QL         TCGA-4V-A9QN 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-4V-A9QS         TCGA-4V-A9QW         TCGA-4V-A9QX 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-4X-A9F9         TCGA-4X-A9FB         TCGA-4X-A9FC 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-5G-A9ZZ         TCGA-5K-AAAP         TCGA-5U-AB0E 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-5U-AB0F         TCGA-5V-A9RR         TCGA-X7-A8D6 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-X7-A8D7         TCGA-X7-A8D9         TCGA-X7-A8DB 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-X7-A8DC         TCGA-X7-A8DD         TCGA-X7-A8DE 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-X7-A8DF         TCGA-X7-A8DG         TCGA-X7-A8DI 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-X7-A8DJ         TCGA-X7-A8M0         TCGA-X7-A8M1 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-X7-A8M3         TCGA-X7-A8M4         TCGA-X7-A8M5 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-X7-A8M6         TCGA-X7-A8M7         TCGA-XM-A8R8 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-XM-A8RB         TCGA-XM-A8RC         TCGA-XM-A8RD 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-XM-A8RE         TCGA-XM-A8RF         TCGA-XM-A8RG 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-XM-A8RH         TCGA-XM-A8RI         TCGA-XM-A8RL 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-XM-AAZ1         TCGA-XM-AAZ2         TCGA-XM-AAZ3 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-XU-A92Q         TCGA-XU-A92R         TCGA-XU-A92U 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-XU-A92V         TCGA-XU-A92X         TCGA-XU-A92Z 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-XU-A931         TCGA-XU-A932         TCGA-XU-A933 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-XU-AAY0         TCGA-XU-AAY1         TCGA-YT-A95D 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-YT-A95E         TCGA-YT-A95F         TCGA-YT-A95G 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-YT-A95H         TCGA-ZB-A961         TCGA-ZB-A962 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-ZB-A963         TCGA-ZB-A964         TCGA-ZB-A965 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-ZB-A966         TCGA-ZB-A969         TCGA-ZB-A96A 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-ZB-A96B         TCGA-ZB-A96C         TCGA-ZB-A96D 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-ZB-A96I         TCGA-ZB-A96P         TCGA-ZB-A96Q 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-ZB-A96R         TCGA-ZB-A96V         TCGA-ZC-AAA7 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-ZC-AAAA         TCGA-ZC-AAAF         TCGA-ZC-AAAH 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-ZL-A9V6 
"19Q LOSS WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  19Q LOSS MUTATED        0      0      0      2
  19Q LOSS WILD-TYPE     16     23     31     18
D47V4, multiclass
[1] "Remove cluster labels:" "19Q LOSS MUTATED"      
clus
  19Q LOSS MUTATED 19Q LOSS WILD-TYPE 
                 2                 88 
        TCGA-3G-AB0O         TCGA-3G-AB0Q         TCGA-3G-AB0T 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-3G-AB14         TCGA-3G-AB19         TCGA-3Q-A9WF 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-3S-AAYX         TCGA-4V-A9QL         TCGA-4V-A9QN 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-4V-A9QS         TCGA-4V-A9QW         TCGA-4V-A9QX 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-4X-A9F9         TCGA-4X-A9FB         TCGA-4X-A9FC 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-5G-A9ZZ         TCGA-5K-AAAP         TCGA-5U-AB0E 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-5U-AB0F         TCGA-5V-A9RR         TCGA-X7-A8D6 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-X7-A8D7         TCGA-X7-A8D9         TCGA-X7-A8DB 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-X7-A8DC         TCGA-X7-A8DD         TCGA-X7-A8DE 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-X7-A8DF         TCGA-X7-A8DG         TCGA-X7-A8DI 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-X7-A8DJ         TCGA-X7-A8M0         TCGA-X7-A8M1 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-X7-A8M3         TCGA-X7-A8M4         TCGA-X7-A8M5 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-X7-A8M6         TCGA-X7-A8M7         TCGA-XM-A8R8 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-XM-A8RB         TCGA-XM-A8RC         TCGA-XM-A8RD 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-XM-A8RE         TCGA-XM-A8RF         TCGA-XM-A8RG 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-XM-A8RH         TCGA-XM-A8RI         TCGA-XM-A8RL 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-XM-AAZ1         TCGA-XM-AAZ2         TCGA-XM-AAZ3 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-XU-A92Q         TCGA-XU-A92R         TCGA-XU-A92U 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-XU-A92V         TCGA-XU-A92X         TCGA-XU-A92Z 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-XU-A931         TCGA-XU-A932         TCGA-XU-A933 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-XU-AAY0         TCGA-XU-AAY1         TCGA-YT-A95D 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-YT-A95E         TCGA-YT-A95F         TCGA-YT-A95G 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-YT-A95H         TCGA-ZB-A961         TCGA-ZB-A962 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-ZB-A963         TCGA-ZB-A964         TCGA-ZB-A965 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-ZB-A966         TCGA-ZB-A969         TCGA-ZB-A96A 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-ZB-A96B         TCGA-ZB-A96C         TCGA-ZB-A96D 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-ZB-A96I         TCGA-ZB-A96P         TCGA-ZB-A96Q 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-ZB-A96R         TCGA-ZB-A96V         TCGA-ZC-AAA7 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-ZC-AAAA         TCGA-ZC-AAAF         TCGA-ZC-AAAH 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-ZL-A9V6 
"19Q LOSS WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  19Q LOSS MUTATED        0      0      0      3
  19Q LOSS WILD-TYPE     45     30     30     11
D47V5, multiclass
        clus
vv       19Q LOSS MUTATED 19Q LOSS WILD-TYPE
  CLUS_1                0                 45
  CLUS_2                0                 30
  CLUS_3                0                 30
  CLUS_4                3                 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"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  19Q LOSS MUTATED        0      0      0      3
  19Q LOSS WILD-TYPE     47     42     20      7
D47V6, multiclass
        clus
vv       19Q LOSS MUTATED 19Q LOSS WILD-TYPE
  CLUS_1                0                 47
  CLUS_2                0                 42
  CLUS_3                0                 20
  CLUS_4                3                  7
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  19Q LOSS MUTATED        3      0      0      0
  19Q LOSS WILD-TYPE     53     61      5      1
D47V7, multiclass
        clus
vv       19Q LOSS MUTATED 19Q LOSS WILD-TYPE
  CLUS_1                3                 53
  CLUS_2                0                 61
  CLUS_3                0                  5
  CLUS_4                0                  1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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
  19Q LOSS MUTATED        0      0      1      2      0      0
  19Q LOSS WILD-TYPE     27     18     27      5     16     27
D47V8, multiclass
        clus
vv       19Q LOSS MUTATED 19Q LOSS WILD-TYPE
  CLUS_1                0                 27
  CLUS_2                0                 18
  CLUS_3                1                 27
  CLUS_4                2                  5
  CLUS_5                0                 16
  CLUS_6                0                 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
  19Q LOSS MUTATED        0      0      3      0
  19Q LOSS WILD-TYPE     28     51     40      1
D47V9, multiclass
        clus
vv       19Q LOSS MUTATED 19Q LOSS WILD-TYPE
  CLUS_1                0                 28
  CLUS_2                0                 51
  CLUS_3                3                 40
  CLUS_4                0                  1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  19Q LOSS MUTATED        0      0      3      0
  19Q LOSS WILD-TYPE     27     33     32     28
D47V10, multiclass
        clus
vv       19Q LOSS MUTATED 19Q LOSS WILD-TYPE
  CLUS_1                0                 27
  CLUS_2                0                 33
  CLUS_3                3                 32
  CLUS_4                0                 28
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(48) Variable = 21Q LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  21Q LOSS MUTATED        7      0      2      0      0
  21Q LOSS WILD-TYPE     29     27     17     31     10
D48V1, multiclass
        clus
vv       21Q LOSS MUTATED 21Q LOSS WILD-TYPE
  CLUS_1                7                 29
  CLUS_2                0                 27
  CLUS_3                2                 17
  CLUS_4                0                 31
  CLUS_5                0                 10
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  21Q LOSS MUTATED        0      0      7      2      0      0      0      0
  21Q LOSS WILD-TYPE     37     23     12      8     18      8      2      6
D48V2, multiclass
        clus
vv       21Q LOSS MUTATED 21Q LOSS WILD-TYPE
  CLUS_1                0                 37
  CLUS_2                0                 23
  CLUS_3                7                 12
  CLUS_4                2                  8
  CLUS_5                0                 18
  CLUS_6                0                  8
  CLUS_7                0                  2
  CLUS_8                0                  6
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  21Q LOSS MUTATED        4      0      0
  21Q LOSS WILD-TYPE     27     25     34
D48V3, multiclass
        clus
vv       21Q LOSS MUTATED 21Q LOSS WILD-TYPE
  CLUS_1                4                 27
  CLUS_2                0                 25
  CLUS_3                0                 34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  21Q LOSS MUTATED        0      0      0      4
  21Q LOSS WILD-TYPE     16     23     31     16
D48V4, multiclass
        clus
vv       21Q LOSS MUTATED 21Q LOSS WILD-TYPE
  CLUS_1                0                 16
  CLUS_2                0                 23
  CLUS_3                0                 31
  CLUS_4                4                 16
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  21Q LOSS MUTATED        8      0      0      1
  21Q LOSS WILD-TYPE     37     30     30     13
D48V5, multiclass
        clus
vv       21Q LOSS MUTATED 21Q LOSS WILD-TYPE
  CLUS_1                8                 37
  CLUS_2                0                 30
  CLUS_3                0                 30
  CLUS_4                1                 13
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  21Q LOSS MUTATED        8      0      0      1
  21Q LOSS WILD-TYPE     39     42     20      9
D48V6, multiclass
        clus
vv       21Q LOSS MUTATED 21Q LOSS WILD-TYPE
  CLUS_1                8                 39
  CLUS_2                0                 42
  CLUS_3                0                 20
  CLUS_4                1                  9
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  21Q LOSS MUTATED        8      0      1      0
  21Q LOSS WILD-TYPE     48     61      4      1
D48V7, multiclass
        clus
vv       21Q LOSS MUTATED 21Q LOSS WILD-TYPE
  CLUS_1                8                 48
  CLUS_2                0                 61
  CLUS_3                1                  4
  CLUS_4                0                  1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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
  21Q LOSS MUTATED        4      0      4      1      0      0
  21Q LOSS WILD-TYPE     23     18     24      6     16     27
D48V8, multiclass
        clus
vv       21Q LOSS MUTATED 21Q LOSS WILD-TYPE
  CLUS_1                4                 23
  CLUS_2                0                 18
  CLUS_3                4                 24
  CLUS_4                1                  6
  CLUS_5                0                 16
  CLUS_6                0                 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
  21Q LOSS MUTATED        0      0      9      0
  21Q LOSS WILD-TYPE     28     51     34      1
D48V9, multiclass
        clus
vv       21Q LOSS MUTATED 21Q LOSS WILD-TYPE
  CLUS_1                0                 28
  CLUS_2                0                 51
  CLUS_3                9                 34
  CLUS_4                0                  1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  21Q LOSS MUTATED        3      0      6      0
  21Q LOSS WILD-TYPE     24     33     29     28
D48V10, multiclass
        clus
vv       21Q LOSS MUTATED 21Q LOSS WILD-TYPE
  CLUS_1                3                 24
  CLUS_2                0                 33
  CLUS_3                6                 29
  CLUS_4                0                 28
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(49) Variable = 22Q LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  22Q LOSS MUTATED        2      2      9      0      0
  22Q LOSS WILD-TYPE     34     25     10     31     10
D49V1, multiclass
        clus
vv       22Q LOSS MUTATED 22Q LOSS WILD-TYPE
  CLUS_1                2                 34
  CLUS_2                2                 25
  CLUS_3                9                 10
  CLUS_4                0                 31
  CLUS_5                0                 10
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  22Q LOSS MUTATED        1      1      2      4      2      2      1      0
  22Q LOSS WILD-TYPE     36     22     17      6     16      6      1      6
D49V2, multiclass
        clus
vv       22Q LOSS MUTATED 22Q LOSS WILD-TYPE
  CLUS_1                1                 36
  CLUS_2                1                 22
  CLUS_3                2                 17
  CLUS_4                4                  6
  CLUS_5                2                 16
  CLUS_6                2                  6
  CLUS_7                1                  1
  CLUS_8                0                  6
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  22Q LOSS MUTATED        4      5      1
  22Q LOSS WILD-TYPE     27     20     33
D49V3, multiclass
        clus
vv       22Q LOSS MUTATED 22Q LOSS WILD-TYPE
  CLUS_1                4                 27
  CLUS_2                5                 20
  CLUS_3                1                 33
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  22Q LOSS MUTATED        4      1      1      4
  22Q LOSS WILD-TYPE     12     22     30     16
D49V4, multiclass
        clus
vv       22Q LOSS MUTATED 22Q LOSS WILD-TYPE
  CLUS_1                4                 12
  CLUS_2                1                 22
  CLUS_3                1                 30
  CLUS_4                4                 16
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  22Q LOSS MUTATED        2      4      3      4
  22Q LOSS WILD-TYPE     43     26     27     10
D49V5, multiclass
        clus
vv       22Q LOSS MUTATED 22Q LOSS WILD-TYPE
  CLUS_1                2                 43
  CLUS_2                4                 26
  CLUS_3                3                 27
  CLUS_4                4                 10
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  22Q LOSS MUTATED        3      4      2      4
  22Q LOSS WILD-TYPE     44     38     18      6
D49V6, multiclass
        clus
vv       22Q LOSS MUTATED 22Q LOSS WILD-TYPE
  CLUS_1                3                 44
  CLUS_2                4                 38
  CLUS_3                2                 18
  CLUS_4                4                  6
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  22Q LOSS MUTATED        9      4      0      0
  22Q LOSS WILD-TYPE     47     57      5      1
D49V7, multiclass
        clus
vv       22Q LOSS MUTATED 22Q LOSS WILD-TYPE
  CLUS_1                9                 47
  CLUS_2                4                 57
  CLUS_3                0                  5
  CLUS_4                0                  1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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
  22Q LOSS MUTATED        4      0      3      2      1      3
  22Q LOSS WILD-TYPE     23     18     25      5     15     24
D49V8, multiclass
        clus
vv       22Q LOSS MUTATED 22Q LOSS WILD-TYPE
  CLUS_1                4                 23
  CLUS_2                0                 18
  CLUS_3                3                 25
  CLUS_4                2                  5
  CLUS_5                1                 15
  CLUS_6                3                 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
  22Q LOSS MUTATED        0      3     10      0
  22Q LOSS WILD-TYPE     28     48     33      1
D49V9, multiclass
        clus
vv       22Q LOSS MUTATED 22Q LOSS WILD-TYPE
  CLUS_1                0                 28
  CLUS_2                3                 48
  CLUS_3               10                 33
  CLUS_4                0                  1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  22Q LOSS MUTATED        4      1      5      3
  22Q LOSS WILD-TYPE     23     32     30     25
D49V10, multiclass
        clus
vv       22Q LOSS MUTATED 22Q LOSS WILD-TYPE
  CLUS_1                4                 23
  CLUS_2                1                 32
  CLUS_3                5                 30
  CLUS_4                3                 25
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(50) Variable = XP LOSS MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  XP LOSS MUTATED        5      1      2      0      0
  XP LOSS WILD-TYPE     31     26     17     31     10
D50V1, multiclass
        clus
vv       XP LOSS MUTATED XP LOSS WILD-TYPE
  CLUS_1               5                31
  CLUS_2               1                26
  CLUS_3               2                17
  CLUS_4               0                31
  CLUS_5               0                10
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  XP LOSS MUTATED        1      0      6      1      0      0      0      0
  XP LOSS WILD-TYPE     36     23     13      9     18      8      2      6
D50V2, multiclass
        clus
vv       XP LOSS MUTATED XP LOSS WILD-TYPE
  CLUS_1               1                36
  CLUS_2               0                23
  CLUS_3               6                13
  CLUS_4               1                 9
  CLUS_5               0                18
  CLUS_6               0                 8
  CLUS_7               0                 2
  CLUS_8               0                 6
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  XP LOSS MUTATED        3      1      1
  XP LOSS WILD-TYPE     28     24     33
D50V3, multiclass
        clus
vv       XP LOSS MUTATED XP LOSS WILD-TYPE
  CLUS_1               3                28
  CLUS_2               1                24
  CLUS_3               1                33
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  XP LOSS MUTATED        0      0      1      4
  XP LOSS WILD-TYPE     16     23     30     16
D50V4, multiclass
        clus
vv       XP LOSS MUTATED XP LOSS WILD-TYPE
  CLUS_1               0                16
  CLUS_2               0                23
  CLUS_3               1                30
  CLUS_4               4                16
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  XP LOSS MUTATED        6      0      0      2
  XP LOSS WILD-TYPE     39     30     30     12
D50V5, multiclass
        clus
vv       XP LOSS MUTATED XP LOSS WILD-TYPE
  CLUS_1               6                39
  CLUS_2               0                30
  CLUS_3               0                30
  CLUS_4               2                12
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  XP LOSS MUTATED        7      0      0      1
  XP LOSS WILD-TYPE     40     42     20      9
D50V6, multiclass
        clus
vv       XP LOSS MUTATED XP LOSS WILD-TYPE
  CLUS_1               7                40
  CLUS_2               0                42
  CLUS_3               0                20
  CLUS_4               1                 9
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  XP LOSS MUTATED        5      1      2      0
  XP LOSS WILD-TYPE     51     60      3      1
D50V7, multiclass
        clus
vv       XP LOSS MUTATED XP LOSS WILD-TYPE
  CLUS_1               5                51
  CLUS_2               1                60
  CLUS_3               2                 3
  CLUS_4               0                 1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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
  XP LOSS MUTATED        4      0      2      1      1      0
  XP LOSS WILD-TYPE     23     18     26      6     15     27
D50V8, multiclass
        clus
vv       XP LOSS MUTATED XP LOSS WILD-TYPE
  CLUS_1               4                23
  CLUS_2               0                18
  CLUS_3               2                26
  CLUS_4               1                 6
  CLUS_5               1                15
  CLUS_6               0                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
  XP LOSS MUTATED        0      0      8      0
  XP LOSS WILD-TYPE     28     51     35      1
D50V9, multiclass
        clus
vv       XP LOSS MUTATED XP LOSS WILD-TYPE
  CLUS_1               0                28
  CLUS_2               0                51
  CLUS_3               8                35
  CLUS_4               0                 1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  XP LOSS MUTATED        4      1      3      0
  XP LOSS WILD-TYPE     23     32     32     28
D50V10, multiclass
        clus
vv       XP LOSS MUTATED XP LOSS WILD-TYPE
  CLUS_1               4                23
  CLUS_2               1                32
  CLUS_3               3                32
  CLUS_4               0                28
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(51) Variable = XQ LOSS MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  XQ LOSS MUTATED        3      0      2      0      0
  XQ LOSS WILD-TYPE     33     27     17     31     10
D51V1, multiclass
        clus
vv       XQ LOSS MUTATED XQ LOSS WILD-TYPE
  CLUS_1               3                33
  CLUS_2               0                27
  CLUS_3               2                17
  CLUS_4               0                31
  CLUS_5               0                10
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  XQ LOSS MUTATED        0      0      4      1      0      0      0      0
  XQ LOSS WILD-TYPE     37     23     15      9     18      8      2      6
D51V2, multiclass
        clus
vv       XQ LOSS MUTATED XQ LOSS WILD-TYPE
  CLUS_1               0                37
  CLUS_2               0                23
  CLUS_3               4                15
  CLUS_4               1                 9
  CLUS_5               0                18
  CLUS_6               0                 8
  CLUS_7               0                 2
  CLUS_8               0                 6
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  XQ LOSS MUTATED        3      1      0
  XQ LOSS WILD-TYPE     28     24     34
D51V3, multiclass
        clus
vv       XQ LOSS MUTATED XQ LOSS WILD-TYPE
  CLUS_1               3                28
  CLUS_2               1                24
  CLUS_3               0                34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  XQ LOSS MUTATED        0      0      0      4
  XQ LOSS WILD-TYPE     16     23     31     16
D51V4, multiclass
        clus
vv       XQ LOSS MUTATED XQ LOSS WILD-TYPE
  CLUS_1               0                16
  CLUS_2               0                23
  CLUS_3               0                31
  CLUS_4               4                16
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  XQ LOSS MUTATED        3      0      0      2
  XQ LOSS WILD-TYPE     42     30     30     12
D51V5, multiclass
        clus
vv       XQ LOSS MUTATED XQ LOSS WILD-TYPE
  CLUS_1               3                42
  CLUS_2               0                30
  CLUS_3               0                30
  CLUS_4               2                12
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  XQ LOSS MUTATED        4      0      0      1
  XQ LOSS WILD-TYPE     43     42     20      9
D51V6, multiclass
        clus
vv       XQ LOSS MUTATED XQ LOSS WILD-TYPE
  CLUS_1               4                43
  CLUS_2               0                42
  CLUS_3               0                20
  CLUS_4               1                 9
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  XQ LOSS MUTATED        4      0      1      0
  XQ LOSS WILD-TYPE     52     61      4      1
D51V7, multiclass
        clus
vv       XQ LOSS MUTATED XQ LOSS WILD-TYPE
  CLUS_1               4                52
  CLUS_2               0                61
  CLUS_3               1                 4
  CLUS_4               0                 1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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
  XQ LOSS MUTATED        2      0      2      1      0      0
  XQ LOSS WILD-TYPE     25     18     26      6     16     27
D51V8, multiclass
        clus
vv       XQ LOSS MUTATED XQ LOSS WILD-TYPE
  CLUS_1               2                25
  CLUS_2               0                18
  CLUS_3               2                26
  CLUS_4               1                 6
  CLUS_5               0                16
  CLUS_6               0                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
  XQ LOSS MUTATED        0      0      5      0
  XQ LOSS WILD-TYPE     28     51     38      1
D51V9, multiclass
        clus
vv       XQ LOSS MUTATED XQ LOSS WILD-TYPE
  CLUS_1               0                28
  CLUS_2               0                51
  CLUS_3               5                38
  CLUS_4               0                 1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  XQ LOSS MUTATED        2      0      3      0
  XQ LOSS WILD-TYPE     25     33     32     28
D51V10, multiclass
        clus
vv       XQ LOSS MUTATED XQ LOSS WILD-TYPE
  CLUS_1               2                25
  CLUS_2               0                33
  CLUS_3               3                32
  CLUS_4               0                28
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
