[1] "terrence_modification_tag"
[1] TRUE
[1] "nver"         "-nVNozzle.R1"
[1] "nfn"                                 "/xchip/tcga/Tools/Nozzle/v1.current"
[1] "Nozzle.R1"
[1] "successfully load Nozzle.R1"
[1] "ofn"        "-oTTGCT-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/TGCT-TP/11589202/TGCT-TP.transferedmergedcluster.txt"
[1] "dfn:"
[1] "/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_Correlate_Genomic_Events_Preprocess/TGCT-TP/11544839/transformed.cor.cli.txt"

nPatients in clinical file=150, in cluster file=150, common to both=150
[1] "Reduce the number of clustering variables from 80 to 72."
[1]  72 150
[1] "1P GAIN MUTATION ANALYSIS"
[1] 3
  1P GAIN MUTATED 1P GAIN WILD-TYPE 
               37               113 
  1P GAIN MUTATED 1P GAIN WILD-TYPE 
               37               113 
[1] "1Q GAIN MUTATION ANALYSIS"
[1] 3
  1Q GAIN MUTATED 1Q GAIN WILD-TYPE 
               61                89 
  1Q GAIN MUTATED 1Q GAIN WILD-TYPE 
               61                89 
[1] "2P GAIN MUTATION ANALYSIS"
[1] 3
  2P GAIN MUTATED 2P GAIN WILD-TYPE 
               46               104 
  2P GAIN MUTATED 2P GAIN WILD-TYPE 
               46               104 
[1] "2Q GAIN MUTATION ANALYSIS"
[1] 3
  2Q GAIN MUTATED 2Q GAIN WILD-TYPE 
               42               108 
  2Q GAIN MUTATED 2Q GAIN WILD-TYPE 
               42               108 
[1] "3P GAIN MUTATION ANALYSIS"
[1] 3
  3P GAIN MUTATED 3P GAIN WILD-TYPE 
               27               123 
  3P GAIN MUTATED 3P GAIN WILD-TYPE 
               27               123 
[1] "3Q GAIN MUTATION ANALYSIS"
[1] 3
  3Q GAIN MUTATED 3Q GAIN WILD-TYPE 
               36               114 
  3Q GAIN MUTATED 3Q GAIN WILD-TYPE 
               36               114 
[1] "4P GAIN MUTATION ANALYSIS"
[1] 3
  4P GAIN MUTATED 4P GAIN WILD-TYPE 
                3               147 
  4P GAIN MUTATED 4P GAIN WILD-TYPE 
                3               147 
[1] "5P GAIN MUTATION ANALYSIS"
[1] 3
  5P GAIN MUTATED 5P GAIN WILD-TYPE 
                6               144 
  5P GAIN MUTATED 5P GAIN WILD-TYPE 
                6               144 
[1] "5Q GAIN MUTATION ANALYSIS"
[1] 3
  5Q GAIN MUTATED 5Q GAIN WILD-TYPE 
                3               147 
  5Q GAIN MUTATED 5Q GAIN WILD-TYPE 
                3               147 
[1] "6P GAIN MUTATION ANALYSIS"
[1] 3
  6P GAIN MUTATED 6P GAIN WILD-TYPE 
               28               122 
  6P GAIN MUTATED 6P GAIN WILD-TYPE 
               28               122 
[1] "6Q GAIN MUTATION ANALYSIS"
[1] 3
  6Q GAIN MUTATED 6Q GAIN WILD-TYPE 
               23               127 
  6Q GAIN MUTATED 6Q GAIN WILD-TYPE 
               23               127 
[1] "7P GAIN MUTATION ANALYSIS"
[1] 3
  7P GAIN MUTATED 7P GAIN WILD-TYPE 
              121                29 
  7P GAIN MUTATED 7P GAIN WILD-TYPE 
              121                29 
[1] "7Q GAIN MUTATION ANALYSIS"
[1] 3
  7Q GAIN MUTATED 7Q GAIN WILD-TYPE 
              105                45 
  7Q GAIN MUTATED 7Q GAIN WILD-TYPE 
              105                45 
[1] "8P GAIN MUTATION ANALYSIS"
[1] 3
  8P GAIN MUTATED 8P GAIN WILD-TYPE 
              110                40 
  8P GAIN MUTATED 8P GAIN WILD-TYPE 
              110                40 
[1] "8Q GAIN MUTATION ANALYSIS"
[1] 3
  8Q GAIN MUTATED 8Q GAIN WILD-TYPE 
              111                39 
  8Q GAIN MUTATED 8Q GAIN WILD-TYPE 
              111                39 
[1] "9P GAIN MUTATION ANALYSIS"
[1] 3
  9P GAIN MUTATED 9P GAIN WILD-TYPE 
               16               134 
  9P GAIN MUTATED 9P GAIN WILD-TYPE 
               16               134 
[1] "9Q GAIN MUTATION ANALYSIS"
[1] 3
  9Q GAIN MUTATED 9Q GAIN WILD-TYPE 
               17               133 
  9Q GAIN MUTATED 9Q GAIN WILD-TYPE 
               17               133 
[1] "10P GAIN MUTATION ANALYSIS"
[1] 3
  10P GAIN MUTATED 10P GAIN WILD-TYPE 
                 6                144 
  10P GAIN MUTATED 10P GAIN WILD-TYPE 
                 6                144 
[1] "10Q GAIN MUTATION ANALYSIS"
[1] 3
  10Q GAIN MUTATED 10Q GAIN WILD-TYPE 
                 8                142 
  10Q GAIN MUTATED 10Q GAIN WILD-TYPE 
                 8                142 
[1] "11P GAIN MUTATION ANALYSIS"
[1] 3
  11P GAIN MUTATED 11P GAIN WILD-TYPE 
                10                140 
  11P GAIN MUTATED 11P GAIN WILD-TYPE 
                10                140 
[1] "11Q GAIN MUTATION ANALYSIS"
[1] 3
  11Q GAIN MUTATED 11Q GAIN WILD-TYPE 
                 4                146 
  11Q GAIN MUTATED 11Q GAIN WILD-TYPE 
                 4                146 
[1] "12P GAIN MUTATION ANALYSIS"
[1] 3
  12P GAIN MUTATED 12P GAIN WILD-TYPE 
               146                  4 
  12P GAIN MUTATED 12P GAIN WILD-TYPE 
               146                  4 
[1] "12Q GAIN MUTATION ANALYSIS"
[1] 3
  12Q GAIN MUTATED 12Q GAIN WILD-TYPE 
               100                 50 
  12Q GAIN MUTATED 12Q GAIN WILD-TYPE 
               100                 50 
[1] "14Q GAIN MUTATION ANALYSIS"
[1] 3
  14Q GAIN MUTATED 14Q GAIN WILD-TYPE 
                51                 99 
  14Q GAIN MUTATED 14Q GAIN WILD-TYPE 
                51                 99 
[1] "15Q GAIN MUTATION ANALYSIS"
[1] 3
  15Q GAIN MUTATED 15Q GAIN WILD-TYPE 
                51                 99 
  15Q GAIN MUTATED 15Q GAIN WILD-TYPE 
                51                 99 
[1] "16P GAIN MUTATION ANALYSIS"
[1] 3
  16P GAIN MUTATED 16P GAIN WILD-TYPE 
                16                134 
  16P GAIN MUTATED 16P GAIN WILD-TYPE 
                16                134 
[1] "16Q GAIN MUTATION ANALYSIS"
[1] 3
  16Q GAIN MUTATED 16Q GAIN WILD-TYPE 
                14                136 
  16Q GAIN MUTATED 16Q GAIN WILD-TYPE 
                14                136 
[1] "17P GAIN MUTATION ANALYSIS"
[1] 3
  17P GAIN MUTATED 17P GAIN WILD-TYPE 
                40                110 
  17P GAIN MUTATED 17P GAIN WILD-TYPE 
                40                110 
[1] "17Q GAIN MUTATION ANALYSIS"
[1] 3
  17Q GAIN MUTATED 17Q GAIN WILD-TYPE 
                51                 99 
  17Q GAIN MUTATED 17Q GAIN WILD-TYPE 
                51                 99 
[1] "18P GAIN MUTATION ANALYSIS"
[1] 3
  18P GAIN MUTATED 18P GAIN WILD-TYPE 
                 4                146 
  18P GAIN MUTATED 18P GAIN WILD-TYPE 
                 4                146 
[1] "19P GAIN MUTATION ANALYSIS"
[1] 3
  19P GAIN MUTATED 19P GAIN WILD-TYPE 
                36                114 
  19P GAIN MUTATED 19P GAIN WILD-TYPE 
                36                114 
[1] "19Q GAIN MUTATION ANALYSIS"
[1] 3
  19Q GAIN MUTATED 19Q GAIN WILD-TYPE 
                29                121 
  19Q GAIN MUTATED 19Q GAIN WILD-TYPE 
                29                121 
[1] "20P GAIN MUTATION ANALYSIS"
[1] 3
  20P GAIN MUTATED 20P GAIN WILD-TYPE 
                34                116 
  20P GAIN MUTATED 20P GAIN WILD-TYPE 
                34                116 
[1] "20Q GAIN MUTATION ANALYSIS"
[1] 3
  20Q GAIN MUTATED 20Q GAIN WILD-TYPE 
                40                110 
  20Q GAIN MUTATED 20Q GAIN WILD-TYPE 
                40                110 
[1] "21Q GAIN MUTATION ANALYSIS"
[1] 3
  21Q GAIN MUTATED 21Q GAIN WILD-TYPE 
               125                 25 
  21Q GAIN MUTATED 21Q GAIN WILD-TYPE 
               125                 25 
[1] "22Q GAIN MUTATION ANALYSIS"
[1] 3
  22Q GAIN MUTATED 22Q GAIN WILD-TYPE 
                38                112 
  22Q GAIN MUTATED 22Q GAIN WILD-TYPE 
                38                112 
[1] "XQ GAIN MUTATION ANALYSIS"
[1] 3
  XQ GAIN MUTATED XQ GAIN WILD-TYPE 
               22               128 
  XQ GAIN MUTATED XQ GAIN WILD-TYPE 
               22               128 
[1] "1P LOSS MUTATION ANALYSIS"
[1] 3
  1P LOSS MUTATED 1P LOSS WILD-TYPE 
               18               132 
  1P LOSS MUTATED 1P LOSS WILD-TYPE 
               18               132 
[1] "1Q LOSS MUTATION ANALYSIS"
[1] 3
  1Q LOSS MUTATED 1Q LOSS WILD-TYPE 
                8               142 
  1Q LOSS MUTATED 1Q LOSS WILD-TYPE 
                8               142 
[1] "2P LOSS MUTATION ANALYSIS"
[1] 3
  2P LOSS MUTATED 2P LOSS WILD-TYPE 
                5               145 
  2P LOSS MUTATED 2P LOSS WILD-TYPE 
                5               145 
[1] "2Q LOSS MUTATION ANALYSIS"
[1] 3
  2Q LOSS MUTATED 2Q LOSS WILD-TYPE 
                6               144 
  2Q LOSS MUTATED 2Q LOSS WILD-TYPE 
                6               144 
[1] "3P LOSS MUTATION ANALYSIS"
[1] 3
  3P LOSS MUTATED 3P LOSS WILD-TYPE 
               30               120 
  3P LOSS MUTATED 3P LOSS WILD-TYPE 
               30               120 
[1] "3Q LOSS MUTATION ANALYSIS"
[1] 3
  3Q LOSS MUTATED 3Q LOSS WILD-TYPE 
               22               128 
  3Q LOSS MUTATED 3Q LOSS WILD-TYPE 
               22               128 
[1] "4P LOSS MUTATION ANALYSIS"
[1] 3
  4P LOSS MUTATED 4P LOSS WILD-TYPE 
               92                58 
  4P LOSS MUTATED 4P LOSS WILD-TYPE 
               92                58 
[1] "4Q LOSS MUTATION ANALYSIS"
[1] 3
  4Q LOSS MUTATED 4Q LOSS WILD-TYPE 
              108                42 
  4Q LOSS MUTATED 4Q LOSS WILD-TYPE 
              108                42 
[1] "5P LOSS MUTATION ANALYSIS"
[1] 3
  5P LOSS MUTATED 5P LOSS WILD-TYPE 
              103                47 
  5P LOSS MUTATED 5P LOSS WILD-TYPE 
              103                47 
[1] "5Q LOSS MUTATION ANALYSIS"
[1] 3
  5Q LOSS MUTATED 5Q LOSS WILD-TYPE 
              101                49 
  5Q LOSS MUTATED 5Q LOSS WILD-TYPE 
              101                49 
[1] "6P LOSS MUTATION ANALYSIS"
[1] 3
  6P LOSS MUTATED 6P LOSS WILD-TYPE 
               13               137 
  6P LOSS MUTATED 6P LOSS WILD-TYPE 
               13               137 
[1] "6Q LOSS MUTATION ANALYSIS"
[1] 3
  6Q LOSS MUTATED 6Q LOSS WILD-TYPE 
               16               134 
  6Q LOSS MUTATED 6Q LOSS WILD-TYPE 
               16               134 
[1] "8P LOSS MUTATION ANALYSIS"
[1] 3
  8P LOSS MUTATED 8P LOSS WILD-TYPE 
               12               138 
  8P LOSS MUTATED 8P LOSS WILD-TYPE 
               12               138 
[1] "8Q LOSS MUTATION ANALYSIS"
[1] 3
  8Q LOSS MUTATED 8Q LOSS WILD-TYPE 
                5               145 
  8Q LOSS MUTATED 8Q LOSS WILD-TYPE 
                5               145 
[1] "9P LOSS MUTATION ANALYSIS"
[1] 3
  9P LOSS MUTATED 9P LOSS WILD-TYPE 
               63                87 
  9P LOSS MUTATED 9P LOSS WILD-TYPE 
               63                87 
[1] "9Q LOSS MUTATION ANALYSIS"
[1] 3
  9Q LOSS MUTATED 9Q LOSS WILD-TYPE 
               58                92 
  9Q LOSS MUTATED 9Q LOSS WILD-TYPE 
               58                92 
[1] "10P LOSS MUTATION ANALYSIS"
[1] 3
  10P LOSS MUTATED 10P LOSS WILD-TYPE 
                77                 73 
  10P LOSS MUTATED 10P LOSS WILD-TYPE 
                77                 73 
[1] "10Q LOSS MUTATION ANALYSIS"
[1] 3
  10Q LOSS MUTATED 10Q LOSS WILD-TYPE 
                72                 78 
  10Q LOSS MUTATED 10Q LOSS WILD-TYPE 
                72                 78 
[1] "11P LOSS MUTATION ANALYSIS"
[1] 3
  11P LOSS MUTATED 11P LOSS WILD-TYPE 
                98                 52 
  11P LOSS MUTATED 11P LOSS WILD-TYPE 
                98                 52 
[1] "11Q LOSS MUTATION ANALYSIS"
[1] 3
  11Q LOSS MUTATED 11Q LOSS WILD-TYPE 
               115                 35 
  11Q LOSS MUTATED 11Q LOSS WILD-TYPE 
               115                 35 
[1] "13Q LOSS MUTATION ANALYSIS"
[1] 3
  13Q LOSS MUTATED 13Q LOSS WILD-TYPE 
               113                 37 
  13Q LOSS MUTATED 13Q LOSS WILD-TYPE 
               113                 37 
[1] "14Q LOSS MUTATION ANALYSIS"
[1] 3
  14Q LOSS MUTATED 14Q LOSS WILD-TYPE 
                20                130 
  14Q LOSS MUTATED 14Q LOSS WILD-TYPE 
                20                130 
[1] "15Q LOSS MUTATION ANALYSIS"
[1] 3
  15Q LOSS MUTATED 15Q LOSS WILD-TYPE 
                29                121 
  15Q LOSS MUTATED 15Q LOSS WILD-TYPE 
                29                121 
[1] "16P LOSS MUTATION ANALYSIS"
[1] 3
  16P LOSS MUTATED 16P LOSS WILD-TYPE 
                44                106 
  16P LOSS MUTATED 16P LOSS WILD-TYPE 
                44                106 
[1] "16Q LOSS MUTATION ANALYSIS"
[1] 3
  16Q LOSS MUTATED 16Q LOSS WILD-TYPE 
                51                 99 
  16Q LOSS MUTATED 16Q LOSS WILD-TYPE 
                51                 99 
[1] "17P LOSS MUTATION ANALYSIS"
[1] 3
  17P LOSS MUTATED 17P LOSS WILD-TYPE 
                37                113 
  17P LOSS MUTATED 17P LOSS WILD-TYPE 
                37                113 
[1] "17Q LOSS MUTATION ANALYSIS"
[1] 3
  17Q LOSS MUTATED 17Q LOSS WILD-TYPE 
                16                134 
  17Q LOSS MUTATED 17Q LOSS WILD-TYPE 
                16                134 
[1] "18P LOSS MUTATION ANALYSIS"
[1] 3
  18P LOSS MUTATED 18P LOSS WILD-TYPE 
               116                 34 
  18P LOSS MUTATED 18P LOSS WILD-TYPE 
               116                 34 
[1] "18Q LOSS MUTATION ANALYSIS"
[1] 3
  18Q LOSS MUTATED 18Q LOSS WILD-TYPE 
               122                 28 
  18Q LOSS MUTATED 18Q LOSS WILD-TYPE 
               122                 28 
[1] "19P LOSS MUTATION ANALYSIS"
[1] 3
  19P LOSS MUTATED 19P LOSS WILD-TYPE 
                50                100 
  19P LOSS MUTATED 19P LOSS WILD-TYPE 
                50                100 
[1] "19Q LOSS MUTATION ANALYSIS"
[1] 3
  19Q LOSS MUTATED 19Q LOSS WILD-TYPE 
                53                 97 
  19Q LOSS MUTATED 19Q LOSS WILD-TYPE 
                53                 97 
[1] "20P LOSS MUTATION ANALYSIS"
[1] 3
  20P LOSS MUTATED 20P LOSS WILD-TYPE 
                30                120 
  20P LOSS MUTATED 20P LOSS WILD-TYPE 
                30                120 
[1] "20Q LOSS MUTATION ANALYSIS"
[1] 3
  20Q LOSS MUTATED 20Q LOSS WILD-TYPE 
                15                135 
  20Q LOSS MUTATED 20Q LOSS WILD-TYPE 
                15                135 
[1] "22Q LOSS MUTATION ANALYSIS"
[1] 3
  22Q LOSS MUTATED 22Q LOSS WILD-TYPE 
                45                105 
  22Q LOSS MUTATED 22Q LOSS WILD-TYPE 
                45                105 
[1] "XQ LOSS MUTATION ANALYSIS"
[1] 3
  XQ LOSS MUTATED XQ LOSS WILD-TYPE 
               29               121 
  XQ LOSS MUTATED XQ LOSS WILD-TYPE 
               29               121 
[1] "terrence_modification_tag"
[1] TRUE
[1] "data2feature, selection=ALL"
[1] "CN_CNMF"                     "METHLYATION_CNMF"           
[3] "MRNASEQ_CNMF"                "MRNASEQ_CHIERARCHICAL"      
[5] "MIRSEQ_CNMF"                 "MIRSEQ_CHIERARCHICAL"       
[7] "MIRSEQ_MATURE_CNMF"          "MIRSEQ_MATURE_CHIERARCHICAL"

Input Data has 8 rows and 150 columns.

Variable 1:'CN_CNMF':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 2:'METHLYATION_CNMF':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 3:'MRNASEQ_CNMF':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 4:'MRNASEQ_CHIERARCHICAL':	nDistinctValues=7,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 5:'MIRSEQ_CNMF':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 6:'MIRSEQ_CHIERARCHICAL':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 7:'MIRSEQ_MATURE_CNMF':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 8:'MIRSEQ_MATURE_CHIERARCHICAL':	nDistinctValues=7,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
[1] "rownames(nsurv.mat)"
[1] "CN_CNMF"                     "METHLYATION_CNMF"           
[3] "MRNASEQ_CNMF"                "MRNASEQ_CHIERARCHICAL"      
[5] "MIRSEQ_CNMF"                 "MIRSEQ_CHIERARCHICAL"       
[7] "MIRSEQ_MATURE_CNMF"          "MIRSEQ_MATURE_CHIERARCHICAL"
[1] "TUMOR.?STAGE"
[1] "TUMOR.?GRADE"
[1] "PATHOLOGY.T"
[1] "PATHOLOGY.N"
Output Data has 150 columns, 0 survival variables, and 8 non-survival variables.
CN_CNMF, nv=3, binary=FALSE, numeric=FALSE
METHLYATION_CNMF, nv=3, binary=FALSE, numeric=FALSE
MRNASEQ_CNMF, nv=3, binary=FALSE, numeric=FALSE
MRNASEQ_CHIERARCHICAL, nv=7, binary=FALSE, numeric=FALSE
MIRSEQ_CNMF, nv=4, binary=FALSE, numeric=FALSE
MIRSEQ_CHIERARCHICAL, nv=3, binary=FALSE, numeric=FALSE
MIRSEQ_MATURE_CNMF, nv=4, binary=FALSE, numeric=FALSE
MIRSEQ_MATURE_CHIERARCHICAL, nv=7, binary=FALSE, numeric=FALSE

Clustering(1) Variable = 1P GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  1P GAIN MUTATED        9      5     23
  1P GAIN WILD-TYPE     39     39     35
D1V1, multiclass
        clus
vv       1P GAIN MUTATED 1P GAIN WILD-TYPE
  CLUS_1               9                39
  CLUS_2               5                39
  CLUS_3              23                35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  1P GAIN MUTATED        8     22      7
  1P GAIN WILD-TYPE     48     27     38
D1V2, multiclass
        clus
vv       1P GAIN MUTATED 1P GAIN WILD-TYPE
  CLUS_1               8                48
  CLUS_2              22                27
  CLUS_3               7                38
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  1P GAIN MUTATED        9     19      9
  1P GAIN WILD-TYPE     61     21     31
D1V3, multiclass
        clus
vv       1P GAIN MUTATED 1P GAIN WILD-TYPE
  CLUS_1               9                61
  CLUS_2              19                21
  CLUS_3               9                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 CLUS_5 CLUS_6 CLUS_7
  1P GAIN MUTATED        6      3      3      8      4     12      1
  1P GAIN WILD-TYPE     37     24      9     16      4     11     12
D1V4, multiclass
        clus
vv       1P GAIN MUTATED 1P GAIN WILD-TYPE
  CLUS_1               6                37
  CLUS_2               3                24
  CLUS_3               3                 9
  CLUS_4               8                16
  CLUS_5               4                 4
  CLUS_6              12                11
  CLUS_7               1                12
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  1P GAIN MUTATED        1      9      3      3
  1P GAIN WILD-TYPE     11     12     13     22
D1V5, multiclass
        clus
vv       1P GAIN MUTATED 1P GAIN WILD-TYPE
  CLUS_1               1                11
  CLUS_2               9                12
  CLUS_3               3                13
  CLUS_4               3                22
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  1P GAIN MUTATED        7      6      3
  1P GAIN WILD-TYPE     37      9     12
D1V6, multiclass
        clus
vv       1P GAIN MUTATED 1P GAIN WILD-TYPE
  CLUS_1               7                37
  CLUS_2               6                 9
  CLUS_3               3                12
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger 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      8      3      3
  1P GAIN WILD-TYPE     20      5     17     16
D1V7, multiclass
        clus
vv       1P GAIN MUTATED 1P GAIN WILD-TYPE
  CLUS_1               2                20
  CLUS_2               8                 5
  CLUS_3               3                17
  CLUS_4               3                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 CLUS_5 CLUS_6 CLUS_7
  1P GAIN MUTATED        2      3      7      3      0      0      1
  1P GAIN WILD-TYPE      9      5      8      8      5     13     10
D1V8, multiclass
        clus
vv       1P GAIN MUTATED 1P GAIN WILD-TYPE
  CLUS_1               2                 9
  CLUS_2               3                 5
  CLUS_3               7                 8
  CLUS_4               3                 8
  CLUS_5               0                 5
  CLUS_6               0                13
  CLUS_7               1                10
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(2) Variable = 1Q GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  1Q GAIN MUTATED       16     19     26
  1Q GAIN WILD-TYPE     32     25     32
D2V1, multiclass
        clus
vv       1Q GAIN MUTATED 1Q GAIN WILD-TYPE
  CLUS_1              16                32
  CLUS_2              19                25
  CLUS_3              26                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
  1Q GAIN MUTATED       23     22     16
  1Q GAIN WILD-TYPE     33     27     29
D2V2, multiclass
        clus
vv       1Q GAIN MUTATED 1Q GAIN WILD-TYPE
  CLUS_1              23                33
  CLUS_2              22                27
  CLUS_3              16                29
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       27     18     16
  1Q GAIN WILD-TYPE     43     22     24
D2V3, multiclass
        clus
vv       1Q GAIN MUTATED 1Q GAIN WILD-TYPE
  CLUS_1              27                43
  CLUS_2              18                22
  CLUS_3              16                24
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- 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
  1Q GAIN MUTATED       12     15      2     12      3     13      4
  1Q GAIN WILD-TYPE     31     12     10     12      5     10      9
D2V4, multiclass
        clus
vv       1Q GAIN MUTATED 1Q GAIN WILD-TYPE
  CLUS_1              12                31
  CLUS_2              15                12
  CLUS_3               2                10
  CLUS_4              12                12
  CLUS_5               3                 5
  CLUS_6              13                10
  CLUS_7               4                 9
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  1Q GAIN MUTATED        1      8      6     12
  1Q GAIN WILD-TYPE     11     13     10     13
D2V5, multiclass
        clus
vv       1Q GAIN MUTATED 1Q GAIN WILD-TYPE
  CLUS_1               1                11
  CLUS_2               8                13
  CLUS_3               6                10
  CLUS_4              12                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
  1Q GAIN MUTATED       16      5      6
  1Q GAIN WILD-TYPE     28     10      9
D2V6, multiclass
        clus
vv       1Q GAIN MUTATED 1Q GAIN WILD-TYPE
  CLUS_1              16                28
  CLUS_2               5                10
  CLUS_3               6                 9
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  1Q GAIN MUTATED        9      6      6      6
  1Q GAIN WILD-TYPE     13      7     14     13
D2V7, multiclass
        clus
vv       1Q GAIN MUTATED 1Q GAIN WILD-TYPE
  CLUS_1               9                13
  CLUS_2               6                 7
  CLUS_3               6                14
  CLUS_4               6                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 CLUS_5 CLUS_6 CLUS_7
  1Q GAIN MUTATED        2      4      5      6      0      6      4
  1Q GAIN WILD-TYPE      9      4     10      5      5      7      7
D2V8, multiclass
        clus
vv       1Q GAIN MUTATED 1Q GAIN WILD-TYPE
  CLUS_1               2                 9
  CLUS_2               4                 4
  CLUS_3               5                10
  CLUS_4               6                 5
  CLUS_5               0                 5
  CLUS_6               6                 7
  CLUS_7               4                 7
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(3) Variable = 2P GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  2P GAIN MUTATED       10     10     26
  2P GAIN WILD-TYPE     38     34     32
D3V1, multiclass
        clus
vv       2P GAIN MUTATED 2P GAIN WILD-TYPE
  CLUS_1              10                38
  CLUS_2              10                34
  CLUS_3              26                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
  2P GAIN MUTATED        9     18     19
  2P GAIN WILD-TYPE     47     31     26
D3V2, multiclass
        clus
vv       2P GAIN MUTATED 2P GAIN WILD-TYPE
  CLUS_1               9                47
  CLUS_2              18                31
  CLUS_3              19                26
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  2P GAIN MUTATED       14     14     18
  2P GAIN WILD-TYPE     56     26     22
D3V3, multiclass
        clus
vv       2P GAIN MUTATED 2P GAIN WILD-TYPE
  CLUS_1              14                56
  CLUS_2              14                26
  CLUS_3              18                22
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- 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
  2P GAIN MUTATED        8      6      4     11      2      9      6
  2P GAIN WILD-TYPE     35     21      8     13      6     14      7
D3V4, multiclass
        clus
vv       2P GAIN MUTATED 2P GAIN WILD-TYPE
  CLUS_1               8                35
  CLUS_2               6                21
  CLUS_3               4                 8
  CLUS_4              11                13
  CLUS_5               2                 6
  CLUS_6               9                14
  CLUS_7               6                 7
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  2P GAIN MUTATED        1      6      9      7
  2P GAIN WILD-TYPE     11     15      7     18
D3V5, multiclass
        clus
vv       2P GAIN MUTATED 2P GAIN WILD-TYPE
  CLUS_1               1                11
  CLUS_2               6                15
  CLUS_3               9                 7
  CLUS_4               7                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
  2P GAIN MUTATED       10      5      8
  2P GAIN WILD-TYPE     34     10      7
D3V6, multiclass
        clus
vv       2P GAIN MUTATED 2P GAIN WILD-TYPE
  CLUS_1              10                34
  CLUS_2               5                10
  CLUS_3               8                 7
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  2P GAIN MUTATED        7      3      3     10
  2P GAIN WILD-TYPE     15     10     17      9
D3V7, multiclass
        clus
vv       2P GAIN MUTATED 2P GAIN WILD-TYPE
  CLUS_1               7                15
  CLUS_2               3                10
  CLUS_3               3                17
  CLUS_4              10                 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 CLUS_5 CLUS_6 CLUS_7
  2P GAIN MUTATED        1      3      5      7      1      4      2
  2P GAIN WILD-TYPE     10      5     10      4      4      9      9
D3V8, multiclass
        clus
vv       2P GAIN MUTATED 2P GAIN WILD-TYPE
  CLUS_1               1                10
  CLUS_2               3                 5
  CLUS_3               5                10
  CLUS_4               7                 4
  CLUS_5               1                 4
  CLUS_6               4                 9
  CLUS_7               2                 9
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(4) Variable = 2Q GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  2Q GAIN MUTATED       10     10     22
  2Q GAIN WILD-TYPE     38     34     36
D4V1, multiclass
        clus
vv       2Q GAIN MUTATED 2Q GAIN WILD-TYPE
  CLUS_1              10                38
  CLUS_2              10                34
  CLUS_3              22                36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  2Q GAIN MUTATED        9     16     17
  2Q GAIN WILD-TYPE     47     33     28
D4V2, multiclass
        clus
vv       2Q GAIN MUTATED 2Q GAIN WILD-TYPE
  CLUS_1               9                47
  CLUS_2              16                33
  CLUS_3              17                28
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  2Q GAIN MUTATED       16     11     15
  2Q GAIN WILD-TYPE     54     29     25
D4V3, multiclass
        clus
vv       2Q GAIN MUTATED 2Q GAIN WILD-TYPE
  CLUS_1              16                54
  CLUS_2              11                29
  CLUS_3              15                25
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  2Q GAIN MUTATED       11      5      4      9      2      6      5
  2Q GAIN WILD-TYPE     32     22      8     15      6     17      8
D4V4, multiclass
        clus
vv       2Q GAIN MUTATED 2Q GAIN WILD-TYPE
  CLUS_1              11                32
  CLUS_2               5                22
  CLUS_3               4                 8
  CLUS_4               9                15
  CLUS_5               2                 6
  CLUS_6               6                17
  CLUS_7               5                 8
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  2Q GAIN MUTATED        2      4      6      5
  2Q GAIN WILD-TYPE     10     17     10     20
D4V5, multiclass
        clus
vv       2Q GAIN MUTATED 2Q GAIN WILD-TYPE
  CLUS_1               2                10
  CLUS_2               4                17
  CLUS_3               6                10
  CLUS_4               5                20
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  2Q GAIN MUTATED        8      3      6
  2Q GAIN WILD-TYPE     36     12      9
D4V6, multiclass
        clus
vv       2Q GAIN MUTATED 2Q GAIN WILD-TYPE
  CLUS_1               8                36
  CLUS_2               3                12
  CLUS_3               6                 9
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  2Q GAIN MUTATED        5      1      3      8
  2Q GAIN WILD-TYPE     17     12     17     11
D4V7, multiclass
        clus
vv       2Q GAIN MUTATED 2Q GAIN WILD-TYPE
  CLUS_1               5                17
  CLUS_2               1                12
  CLUS_3               3                17
  CLUS_4               8                11
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  2Q GAIN MUTATED        2      1      3      5      1      3      2
  2Q GAIN WILD-TYPE      9      7     12      6      4     10      9
D4V8, multiclass
        clus
vv       2Q GAIN MUTATED 2Q GAIN WILD-TYPE
  CLUS_1               2                 9
  CLUS_2               1                 7
  CLUS_3               3                12
  CLUS_4               5                 6
  CLUS_5               1                 4
  CLUS_6               3                10
  CLUS_7               2                 9
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(5) Variable = 3P GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  3P GAIN MUTATED        5      5     17
  3P GAIN WILD-TYPE     43     39     41
D5V1, multiclass
        clus
vv       3P GAIN MUTATED 3P GAIN WILD-TYPE
  CLUS_1               5                43
  CLUS_2               5                39
  CLUS_3              17                41
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  3P GAIN MUTATED        7     10     10
  3P GAIN WILD-TYPE     49     39     35
D5V2, multiclass
        clus
vv       3P GAIN MUTATED 3P GAIN WILD-TYPE
  CLUS_1               7                49
  CLUS_2              10                39
  CLUS_3              10                35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  3P GAIN MUTATED        6      8     13
  3P GAIN WILD-TYPE     64     32     27
D5V3, multiclass
        clus
vv       3P GAIN MUTATED 3P GAIN WILD-TYPE
  CLUS_1               6                64
  CLUS_2               8                32
  CLUS_3              13                27
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- 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
  3P GAIN MUTATED        4      2      3      5      3      3      7
  3P GAIN WILD-TYPE     39     25      9     19      5     20      6
D5V4, multiclass
        clus
vv       3P GAIN MUTATED 3P GAIN WILD-TYPE
  CLUS_1               4                39
  CLUS_2               2                25
  CLUS_3               3                 9
  CLUS_4               5                19
  CLUS_5               3                 5
  CLUS_6               3                20
  CLUS_7               7                 6
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  3P GAIN MUTATED        0      4      6      3
  3P GAIN WILD-TYPE     12     17     10     22
D5V5, multiclass
        clus
vv       3P GAIN MUTATED 3P GAIN WILD-TYPE
  CLUS_1               0                12
  CLUS_2               4                17
  CLUS_3               6                10
  CLUS_4               3                22
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  3P GAIN MUTATED        4      3      6
  3P GAIN WILD-TYPE     40     12      9
D5V6, multiclass
        clus
vv       3P GAIN MUTATED 3P GAIN WILD-TYPE
  CLUS_1               4                40
  CLUS_2               3                12
  CLUS_3               6                 9
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  3P GAIN MUTATED        1      3      2      7
  3P GAIN WILD-TYPE     21     10     18     12
D5V7, multiclass
        clus
vv       3P GAIN MUTATED 3P GAIN WILD-TYPE
  CLUS_1               1                21
  CLUS_2               3                10
  CLUS_3               2                18
  CLUS_4               7                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 CLUS_5 CLUS_6 CLUS_7
  3P GAIN MUTATED        1      0      4      5      1      1      1
  3P GAIN WILD-TYPE     10      8     11      6      4     12     10
D5V8, multiclass
        clus
vv       3P GAIN MUTATED 3P GAIN WILD-TYPE
  CLUS_1               1                10
  CLUS_2               0                 8
  CLUS_3               4                11
  CLUS_4               5                 6
  CLUS_5               1                 4
  CLUS_6               1                12
  CLUS_7               1                10
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(6) Variable = 3Q GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  3Q GAIN MUTATED        5     10     21
  3Q GAIN WILD-TYPE     43     34     37
D6V1, multiclass
        clus
vv       3Q GAIN MUTATED 3Q GAIN WILD-TYPE
  CLUS_1               5                43
  CLUS_2              10                34
  CLUS_3              21                37
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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        9     15     12
  3Q GAIN WILD-TYPE     47     34     33
D6V2, multiclass
        clus
vv       3Q GAIN MUTATED 3Q GAIN WILD-TYPE
  CLUS_1               9                47
  CLUS_2              15                34
  CLUS_3              12                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
  3Q GAIN MUTATED       10     13     13
  3Q GAIN WILD-TYPE     60     27     27
D6V3, multiclass
        clus
vv       3Q GAIN MUTATED 3Q GAIN WILD-TYPE
  CLUS_1              10                60
  CLUS_2              13                27
  CLUS_3              13                27
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- 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
  3Q GAIN MUTATED        5      5      5      5      3      6      7
  3Q GAIN WILD-TYPE     38     22      7     19      5     17      6
D6V4, multiclass
        clus
vv       3Q GAIN MUTATED 3Q GAIN WILD-TYPE
  CLUS_1               5                38
  CLUS_2               5                22
  CLUS_3               5                 7
  CLUS_4               5                19
  CLUS_5               3                 5
  CLUS_6               6                17
  CLUS_7               7                 6
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  3Q GAIN MUTATED        0      5      5      5
  3Q GAIN WILD-TYPE     12     16     11     20
D6V5, multiclass
        clus
vv       3Q GAIN MUTATED 3Q GAIN WILD-TYPE
  CLUS_1               0                12
  CLUS_2               5                16
  CLUS_3               5                11
  CLUS_4               5                20
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  3Q GAIN MUTATED        6      4      5
  3Q GAIN WILD-TYPE     38     11     10
D6V6, multiclass
        clus
vv       3Q GAIN MUTATED 3Q GAIN WILD-TYPE
  CLUS_1               6                38
  CLUS_2               4                11
  CLUS_3               5                10
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  3Q GAIN MUTATED        3      2      3      7
  3Q GAIN WILD-TYPE     19     11     17     12
D6V7, multiclass
        clus
vv       3Q GAIN MUTATED 3Q GAIN WILD-TYPE
  CLUS_1               3                19
  CLUS_2               2                11
  CLUS_3               3                17
  CLUS_4               7                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 CLUS_5 CLUS_6 CLUS_7
  3Q GAIN MUTATED        1      1      4      4      1      3      1
  3Q GAIN WILD-TYPE     10      7     11      7      4     10     10
D6V8, multiclass
        clus
vv       3Q GAIN MUTATED 3Q GAIN WILD-TYPE
  CLUS_1               1                10
  CLUS_2               1                 7
  CLUS_3               4                11
  CLUS_4               4                 7
  CLUS_5               1                 4
  CLUS_6               3                10
  CLUS_7               1                10
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(7) Variable = 4P GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  4P GAIN MUTATED        0      1      2
  4P GAIN WILD-TYPE     48     43     56
D7V1, multiclass
        clus
vv       4P GAIN MUTATED 4P GAIN WILD-TYPE
  CLUS_1               0                48
  CLUS_2               1                43
  CLUS_3               2                56
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  4P GAIN MUTATED        0      1      2
  4P GAIN WILD-TYPE     56     48     43
D7V2, multiclass
        clus
vv       4P GAIN MUTATED 4P GAIN WILD-TYPE
  CLUS_1               0                56
  CLUS_2               1                48
  CLUS_3               2                43
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  4P GAIN MUTATED        1      1      1
  4P GAIN WILD-TYPE     69     39     39
D7V3, multiclass
        clus
vv       4P GAIN MUTATED 4P GAIN WILD-TYPE
  CLUS_1               1                69
  CLUS_2               1                39
  CLUS_3               1                39
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- 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
  4P GAIN MUTATED        0      1      0      1      0      1      0
  4P GAIN WILD-TYPE     43     26     12     23      8     22     13
D7V4, multiclass
        clus
vv       4P GAIN MUTATED 4P GAIN WILD-TYPE
  CLUS_1               0                43
  CLUS_2               1                26
  CLUS_3               0                12
  CLUS_4               1                23
  CLUS_5               0                 8
  CLUS_6               1                22
  CLUS_7               0                13
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  4P GAIN MUTATED        0      0      1      0
  4P GAIN WILD-TYPE     12     21     15     25
D7V5, multiclass
[1] "Remove cluster labels:" "4P GAIN MUTATED"       
clus
  4P GAIN MUTATED 4P GAIN WILD-TYPE 
                1                73 
       TCGA-2G-AAFE        TCGA-2G-AAFG        TCGA-2G-AAFN        TCGA-2G-AAFO 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-2G-AAG7        TCGA-2G-AAGG        TCGA-2G-AAGI        TCGA-2G-AAGO 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-2G-AAGP        TCGA-2G-AAGS        TCGA-2G-AAGZ        TCGA-2G-AAH0 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-2G-AAHC        TCGA-2G-AAHG        TCGA-2G-AAHL        TCGA-2G-AAKG 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-2G-AAKH        TCGA-2G-AAL7        TCGA-2G-AALF        TCGA-2G-AALS 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-2G-AALT        TCGA-2G-AAM4        TCGA-2X-A9D5        TCGA-S6-A8JX 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-SB-A6J6        TCGA-SB-A76C        TCGA-SN-A6IS        TCGA-SN-A84W 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-SN-A84X        TCGA-SN-A84Y        TCGA-VF-A8A9        TCGA-VF-A8AA 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-VF-A8AB        TCGA-VF-A8AC        TCGA-VF-A8AD        TCGA-VF-A8AE 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-W4-A7U4        TCGA-WZ-A7V3        TCGA-WZ-A7V4        TCGA-WZ-A7V5 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-WZ-A8D5        TCGA-X3-A8G4        TCGA-XE-A8H5        TCGA-XE-A9SE 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-XE-AANI        TCGA-XE-AANJ        TCGA-XE-AANR        TCGA-XE-AANV 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-XE-AAO6        TCGA-XE-AAOB        TCGA-XE-AAOC        TCGA-XE-AAOD 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-XE-AAOF        TCGA-XE-AAOJ        TCGA-XY-A89B        TCGA-XY-A8S2 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-XY-A8S3        TCGA-XY-A9T9        TCGA-YU-A90Q        TCGA-YU-A90S 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-YU-A90W        TCGA-YU-A90Y        TCGA-YU-A912        TCGA-YU-A94D 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-YU-A94I        TCGA-YU-AA61        TCGA-ZM-AA05        TCGA-ZM-AA06 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-ZM-AA0B        TCGA-ZM-AA0D        TCGA-ZM-AA0E        TCGA-ZM-AA0F 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-ZM-AA0H 
"4P GAIN WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  4P GAIN MUTATED        0      0      1
  4P GAIN WILD-TYPE     44     15     14
D7V6, multiclass
[1] "Remove cluster labels:" "4P GAIN MUTATED"       
clus
  4P GAIN MUTATED 4P GAIN WILD-TYPE 
                1                73 
       TCGA-2G-AAFE        TCGA-2G-AAFG        TCGA-2G-AAFN        TCGA-2G-AAFO 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-2G-AAG7        TCGA-2G-AAGG        TCGA-2G-AAGI        TCGA-2G-AAGO 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-2G-AAGP        TCGA-2G-AAGS        TCGA-2G-AAGZ        TCGA-2G-AAH0 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-2G-AAHC        TCGA-2G-AAHG        TCGA-2G-AAHL        TCGA-2G-AAKG 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-2G-AAKH        TCGA-2G-AAL7        TCGA-2G-AALF        TCGA-2G-AALS 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-2G-AALT        TCGA-2G-AAM4        TCGA-2X-A9D5        TCGA-S6-A8JX 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-SB-A6J6        TCGA-SB-A76C        TCGA-SN-A6IS        TCGA-SN-A84W 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-SN-A84X        TCGA-SN-A84Y        TCGA-VF-A8A9        TCGA-VF-A8AA 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-VF-A8AB        TCGA-VF-A8AC        TCGA-VF-A8AD        TCGA-VF-A8AE 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-W4-A7U4        TCGA-WZ-A7V3        TCGA-WZ-A7V4        TCGA-WZ-A7V5 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-WZ-A8D5        TCGA-X3-A8G4        TCGA-XE-A8H5        TCGA-XE-A9SE 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-XE-AANI        TCGA-XE-AANJ        TCGA-XE-AANR        TCGA-XE-AANV 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-XE-AAO6        TCGA-XE-AAOB        TCGA-XE-AAOC        TCGA-XE-AAOD 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-XE-AAOF        TCGA-XE-AAOJ        TCGA-XY-A89B        TCGA-XY-A8S2 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-XY-A8S3        TCGA-XY-A9T9        TCGA-YU-A90Q        TCGA-YU-A90S 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-YU-A90W        TCGA-YU-A90Y        TCGA-YU-A912        TCGA-YU-A94D 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-YU-A94I        TCGA-YU-AA61        TCGA-ZM-AA05        TCGA-ZM-AA06 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-ZM-AA0B        TCGA-ZM-AA0D        TCGA-ZM-AA0E        TCGA-ZM-AA0F 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-ZM-AA0H 
"4P GAIN WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  4P GAIN MUTATED        0      0      0      1
  4P GAIN WILD-TYPE     22     13     20     18
D7V7, multiclass
[1] "Remove cluster labels:" "4P GAIN MUTATED"       
clus
  4P GAIN MUTATED 4P GAIN WILD-TYPE 
                1                73 
       TCGA-2G-AAFE        TCGA-2G-AAFG        TCGA-2G-AAFN        TCGA-2G-AAFO 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-2G-AAG7        TCGA-2G-AAGG        TCGA-2G-AAGI        TCGA-2G-AAGO 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-2G-AAGP        TCGA-2G-AAGS        TCGA-2G-AAGZ        TCGA-2G-AAH0 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-2G-AAHC        TCGA-2G-AAHG        TCGA-2G-AAHL        TCGA-2G-AAKG 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-2G-AAKH        TCGA-2G-AAL7        TCGA-2G-AALF        TCGA-2G-AALS 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-2G-AALT        TCGA-2G-AAM4        TCGA-2X-A9D5        TCGA-S6-A8JX 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-SB-A6J6        TCGA-SB-A76C        TCGA-SN-A6IS        TCGA-SN-A84W 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-SN-A84X        TCGA-SN-A84Y        TCGA-VF-A8A9        TCGA-VF-A8AA 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-VF-A8AB        TCGA-VF-A8AC        TCGA-VF-A8AD        TCGA-VF-A8AE 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-W4-A7U4        TCGA-WZ-A7V3        TCGA-WZ-A7V4        TCGA-WZ-A7V5 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-WZ-A8D5        TCGA-X3-A8G4        TCGA-XE-A8H5        TCGA-XE-A9SE 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-XE-AANI        TCGA-XE-AANJ        TCGA-XE-AANR        TCGA-XE-AANV 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-XE-AAO6        TCGA-XE-AAOB        TCGA-XE-AAOC        TCGA-XE-AAOD 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-XE-AAOF        TCGA-XE-AAOJ        TCGA-XY-A89B        TCGA-XY-A8S2 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-XY-A8S3        TCGA-XY-A9T9        TCGA-YU-A90Q        TCGA-YU-A90S 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-YU-A90W        TCGA-YU-A90Y        TCGA-YU-A912        TCGA-YU-A94D 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-YU-A94I        TCGA-YU-AA61        TCGA-ZM-AA05        TCGA-ZM-AA06 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-ZM-AA0B        TCGA-ZM-AA0D        TCGA-ZM-AA0E        TCGA-ZM-AA0F 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-ZM-AA0H 
"4P GAIN WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  4P GAIN MUTATED        0      0      0      1      0      0      0
  4P GAIN WILD-TYPE     11      8     15     10      5     13     11
D7V8, multiclass
[1] "Remove cluster labels:" "4P GAIN MUTATED"       
clus
  4P GAIN MUTATED 4P GAIN WILD-TYPE 
                1                73 
       TCGA-2G-AAFE        TCGA-2G-AAFG        TCGA-2G-AAFN        TCGA-2G-AAFO 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-2G-AAG7        TCGA-2G-AAGG        TCGA-2G-AAGI        TCGA-2G-AAGO 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-2G-AAGP        TCGA-2G-AAGS        TCGA-2G-AAGZ        TCGA-2G-AAH0 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-2G-AAHC        TCGA-2G-AAHG        TCGA-2G-AAHL        TCGA-2G-AAKG 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-2G-AAKH        TCGA-2G-AAL7        TCGA-2G-AALF        TCGA-2G-AALS 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-2G-AALT        TCGA-2G-AAM4        TCGA-2X-A9D5        TCGA-S6-A8JX 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-SB-A6J6        TCGA-SB-A76C        TCGA-SN-A6IS        TCGA-SN-A84W 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-SN-A84X        TCGA-SN-A84Y        TCGA-VF-A8A9        TCGA-VF-A8AA 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-VF-A8AB        TCGA-VF-A8AC        TCGA-VF-A8AD        TCGA-VF-A8AE 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-W4-A7U4        TCGA-WZ-A7V3        TCGA-WZ-A7V4        TCGA-WZ-A7V5 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-WZ-A8D5        TCGA-X3-A8G4        TCGA-XE-A8H5        TCGA-XE-A9SE 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-XE-AANI        TCGA-XE-AANJ        TCGA-XE-AANR        TCGA-XE-AANV 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-XE-AAO6        TCGA-XE-AAOB        TCGA-XE-AAOC        TCGA-XE-AAOD 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-XE-AAOF        TCGA-XE-AAOJ        TCGA-XY-A89B        TCGA-XY-A8S2 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-XY-A8S3        TCGA-XY-A9T9        TCGA-YU-A90Q        TCGA-YU-A90S 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-YU-A90W        TCGA-YU-A90Y        TCGA-YU-A912        TCGA-YU-A94D 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-YU-A94I        TCGA-YU-AA61        TCGA-ZM-AA05        TCGA-ZM-AA06 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-ZM-AA0B        TCGA-ZM-AA0D        TCGA-ZM-AA0E        TCGA-ZM-AA0F 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-ZM-AA0H 
"4P GAIN WILD-TYPE" 

Clustering(8) Variable = 5P GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  5P GAIN MUTATED        3      1      2
  5P GAIN WILD-TYPE     45     43     56
D8V1, multiclass
        clus
vv       5P GAIN MUTATED 5P GAIN WILD-TYPE
  CLUS_1               3                45
  CLUS_2               1                43
  CLUS_3               2                56
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  5P GAIN MUTATED        1      5      0
  5P GAIN WILD-TYPE     55     44     45
D8V2, multiclass
        clus
vv       5P GAIN MUTATED 5P GAIN WILD-TYPE
  CLUS_1               1                55
  CLUS_2               5                44
  CLUS_3               0                45
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  5P GAIN MUTATED        1      5      0
  5P GAIN WILD-TYPE     69     35     40
D8V3, multiclass
        clus
vv       5P GAIN MUTATED 5P GAIN WILD-TYPE
  CLUS_1               1                69
  CLUS_2               5                35
  CLUS_3               0                40
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- 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
  5P GAIN MUTATED        0      1      0      0      2      3      0
  5P GAIN WILD-TYPE     43     26     12     24      6     20     13
D8V4, multiclass
        clus
vv       5P GAIN MUTATED 5P GAIN WILD-TYPE
  CLUS_1               0                43
  CLUS_2               1                26
  CLUS_3               0                12
  CLUS_4               0                24
  CLUS_5               2                 6
  CLUS_6               3                20
  CLUS_7               0                13
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  5P GAIN MUTATED        0      4      0      0
  5P GAIN WILD-TYPE     12     17     16     25
D8V5, multiclass
        clus
vv       5P GAIN MUTATED 5P GAIN WILD-TYPE
  CLUS_1               0                12
  CLUS_2               4                17
  CLUS_3               0                16
  CLUS_4               0                25
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  5P GAIN MUTATED        2      2      0
  5P GAIN WILD-TYPE     42     13     15
D8V6, multiclass
        clus
vv       5P GAIN MUTATED 5P GAIN WILD-TYPE
  CLUS_1               2                42
  CLUS_2               2                13
  CLUS_3               0                15
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  5P GAIN MUTATED        0      3      1      0
  5P GAIN WILD-TYPE     22     10     19     19
D8V7, multiclass
        clus
vv       5P GAIN MUTATED 5P GAIN WILD-TYPE
  CLUS_1               0                22
  CLUS_2               3                10
  CLUS_3               1                19
  CLUS_4               0                19
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  5P GAIN MUTATED        0      0      3      0      0      0      1
  5P GAIN WILD-TYPE     11      8     12     11      5     13     10
D8V8, multiclass
        clus
vv       5P GAIN MUTATED 5P GAIN WILD-TYPE
  CLUS_1               0                11
  CLUS_2               0                 8
  CLUS_3               3                12
  CLUS_4               0                11
  CLUS_5               0                 5
  CLUS_6               0                13
  CLUS_7               1                10
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(9) Variable = 5Q GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  5Q GAIN MUTATED        1      0      2
  5Q GAIN WILD-TYPE     47     44     56
D9V1, multiclass
        clus
vv       5Q GAIN MUTATED 5Q GAIN WILD-TYPE
  CLUS_1               1                47
  CLUS_2               0                44
  CLUS_3               2                56
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  5Q GAIN MUTATED        0      3      0
  5Q GAIN WILD-TYPE     56     46     45
D9V2, multiclass
        clus
vv       5Q GAIN MUTATED 5Q GAIN WILD-TYPE
  CLUS_1               0                56
  CLUS_2               3                46
  CLUS_3               0                45
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  5Q GAIN MUTATED        0      3      0
  5Q GAIN WILD-TYPE     70     37     40
D9V3, multiclass
        clus
vv       5Q GAIN MUTATED 5Q GAIN WILD-TYPE
  CLUS_1               0                70
  CLUS_2               3                37
  CLUS_3               0                40
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- 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
  5Q GAIN MUTATED        0      0      0      0      1      2      0
  5Q GAIN WILD-TYPE     43     27     12     24      7     21     13
D9V4, multiclass
        clus
vv       5Q GAIN MUTATED 5Q GAIN WILD-TYPE
  CLUS_1               0                43
  CLUS_2               0                27
  CLUS_3               0                12
  CLUS_4               0                24
  CLUS_5               1                 7
  CLUS_6               2                21
  CLUS_7               0                13
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  5Q GAIN MUTATED        0      2      0      0
  5Q GAIN WILD-TYPE     12     19     16     25
D9V5, multiclass
[1] "Remove cluster labels:" "5Q GAIN MUTATED"       
clus
  5Q GAIN MUTATED 5Q GAIN WILD-TYPE 
                2                72 
       TCGA-2G-AAFE        TCGA-2G-AAFG        TCGA-2G-AAFN        TCGA-2G-AAFO 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-2G-AAG6        TCGA-2G-AAG7        TCGA-2G-AAGG        TCGA-2G-AAGI 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-2G-AAGO        TCGA-2G-AAGP        TCGA-2G-AAGS        TCGA-2G-AAGZ 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-2G-AAH0        TCGA-2G-AAHC        TCGA-2G-AAHG        TCGA-2G-AAHL 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-2G-AAKG        TCGA-2G-AAKH        TCGA-2G-AAL7        TCGA-2G-AALF 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-2G-AALS        TCGA-2G-AALT        TCGA-2G-AAM4        TCGA-2X-A9D5 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-S6-A8JX        TCGA-SB-A6J6        TCGA-SB-A76C        TCGA-SN-A6IS 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-SN-A84W        TCGA-SN-A84X        TCGA-VF-A8A9        TCGA-VF-A8AA 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-VF-A8AB        TCGA-VF-A8AC        TCGA-VF-A8AD        TCGA-VF-A8AE 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-WZ-A7V3        TCGA-WZ-A7V4        TCGA-WZ-A7V5        TCGA-WZ-A8D5 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-X3-A8G4        TCGA-XE-A8H5        TCGA-XE-A9SE        TCGA-XE-AANI 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-XE-AANJ        TCGA-XE-AANR        TCGA-XE-AANV        TCGA-XE-AAO6 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-XE-AAOB        TCGA-XE-AAOC        TCGA-XE-AAOD        TCGA-XE-AAOF 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-XE-AAOJ        TCGA-XY-A89B        TCGA-XY-A8S2        TCGA-XY-A8S3 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-XY-A9T9        TCGA-YU-A90Q        TCGA-YU-A90S        TCGA-YU-A90W 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-YU-A90Y        TCGA-YU-A912        TCGA-YU-A94D        TCGA-YU-A94I 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-YU-AA61        TCGA-ZM-AA05        TCGA-ZM-AA06        TCGA-ZM-AA0B 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-ZM-AA0D        TCGA-ZM-AA0E        TCGA-ZM-AA0F        TCGA-ZM-AA0H 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  5Q GAIN MUTATED        0      2      0
  5Q GAIN WILD-TYPE     44     13     15
D9V6, multiclass
[1] "Remove cluster labels:" "5Q GAIN MUTATED"       
clus
  5Q GAIN MUTATED 5Q GAIN WILD-TYPE 
                2                72 
       TCGA-2G-AAFE        TCGA-2G-AAFG        TCGA-2G-AAFN        TCGA-2G-AAFO 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-2G-AAG6        TCGA-2G-AAG7        TCGA-2G-AAGG        TCGA-2G-AAGI 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-2G-AAGO        TCGA-2G-AAGP        TCGA-2G-AAGS        TCGA-2G-AAGZ 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-2G-AAH0        TCGA-2G-AAHC        TCGA-2G-AAHG        TCGA-2G-AAHL 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-2G-AAKG        TCGA-2G-AAKH        TCGA-2G-AAL7        TCGA-2G-AALF 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-2G-AALS        TCGA-2G-AALT        TCGA-2G-AAM4        TCGA-2X-A9D5 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-S6-A8JX        TCGA-SB-A6J6        TCGA-SB-A76C        TCGA-SN-A6IS 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-SN-A84W        TCGA-SN-A84X        TCGA-VF-A8A9        TCGA-VF-A8AA 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-VF-A8AB        TCGA-VF-A8AC        TCGA-VF-A8AD        TCGA-VF-A8AE 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-WZ-A7V3        TCGA-WZ-A7V4        TCGA-WZ-A7V5        TCGA-WZ-A8D5 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-X3-A8G4        TCGA-XE-A8H5        TCGA-XE-A9SE        TCGA-XE-AANI 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-XE-AANJ        TCGA-XE-AANR        TCGA-XE-AANV        TCGA-XE-AAO6 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-XE-AAOB        TCGA-XE-AAOC        TCGA-XE-AAOD        TCGA-XE-AAOF 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-XE-AAOJ        TCGA-XY-A89B        TCGA-XY-A8S2        TCGA-XY-A8S3 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-XY-A9T9        TCGA-YU-A90Q        TCGA-YU-A90S        TCGA-YU-A90W 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-YU-A90Y        TCGA-YU-A912        TCGA-YU-A94D        TCGA-YU-A94I 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-YU-AA61        TCGA-ZM-AA05        TCGA-ZM-AA06        TCGA-ZM-AA0B 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-ZM-AA0D        TCGA-ZM-AA0E        TCGA-ZM-AA0F        TCGA-ZM-AA0H 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  5Q GAIN MUTATED        0      2      0      0
  5Q GAIN WILD-TYPE     22     11     20     19
D9V7, multiclass
[1] "Remove cluster labels:" "5Q GAIN MUTATED"       
clus
  5Q GAIN MUTATED 5Q GAIN WILD-TYPE 
                2                72 
       TCGA-2G-AAFE        TCGA-2G-AAFG        TCGA-2G-AAFN        TCGA-2G-AAFO 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-2G-AAG6        TCGA-2G-AAG7        TCGA-2G-AAGG        TCGA-2G-AAGI 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-2G-AAGO        TCGA-2G-AAGP        TCGA-2G-AAGS        TCGA-2G-AAGZ 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-2G-AAH0        TCGA-2G-AAHC        TCGA-2G-AAHG        TCGA-2G-AAHL 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-2G-AAKG        TCGA-2G-AAKH        TCGA-2G-AAL7        TCGA-2G-AALF 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-2G-AALS        TCGA-2G-AALT        TCGA-2G-AAM4        TCGA-2X-A9D5 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-S6-A8JX        TCGA-SB-A6J6        TCGA-SB-A76C        TCGA-SN-A6IS 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-SN-A84W        TCGA-SN-A84X        TCGA-VF-A8A9        TCGA-VF-A8AA 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-VF-A8AB        TCGA-VF-A8AC        TCGA-VF-A8AD        TCGA-VF-A8AE 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-WZ-A7V3        TCGA-WZ-A7V4        TCGA-WZ-A7V5        TCGA-WZ-A8D5 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-X3-A8G4        TCGA-XE-A8H5        TCGA-XE-A9SE        TCGA-XE-AANI 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-XE-AANJ        TCGA-XE-AANR        TCGA-XE-AANV        TCGA-XE-AAO6 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-XE-AAOB        TCGA-XE-AAOC        TCGA-XE-AAOD        TCGA-XE-AAOF 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-XE-AAOJ        TCGA-XY-A89B        TCGA-XY-A8S2        TCGA-XY-A8S3 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-XY-A9T9        TCGA-YU-A90Q        TCGA-YU-A90S        TCGA-YU-A90W 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-YU-A90Y        TCGA-YU-A912        TCGA-YU-A94D        TCGA-YU-A94I 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-YU-AA61        TCGA-ZM-AA05        TCGA-ZM-AA06        TCGA-ZM-AA0B 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-ZM-AA0D        TCGA-ZM-AA0E        TCGA-ZM-AA0F        TCGA-ZM-AA0H 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  5Q GAIN MUTATED        0      0      2      0      0      0      0
  5Q GAIN WILD-TYPE     11      8     13     11      5     13     11
D9V8, multiclass
[1] "Remove cluster labels:" "5Q GAIN MUTATED"       
clus
  5Q GAIN MUTATED 5Q GAIN WILD-TYPE 
                2                72 
       TCGA-2G-AAFE        TCGA-2G-AAFG        TCGA-2G-AAFN        TCGA-2G-AAFO 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-2G-AAG6        TCGA-2G-AAG7        TCGA-2G-AAGG        TCGA-2G-AAGI 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-2G-AAGO        TCGA-2G-AAGP        TCGA-2G-AAGS        TCGA-2G-AAGZ 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-2G-AAH0        TCGA-2G-AAHC        TCGA-2G-AAHG        TCGA-2G-AAHL 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-2G-AAKG        TCGA-2G-AAKH        TCGA-2G-AAL7        TCGA-2G-AALF 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-2G-AALS        TCGA-2G-AALT        TCGA-2G-AAM4        TCGA-2X-A9D5 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-S6-A8JX        TCGA-SB-A6J6        TCGA-SB-A76C        TCGA-SN-A6IS 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-SN-A84W        TCGA-SN-A84X        TCGA-VF-A8A9        TCGA-VF-A8AA 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-VF-A8AB        TCGA-VF-A8AC        TCGA-VF-A8AD        TCGA-VF-A8AE 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-WZ-A7V3        TCGA-WZ-A7V4        TCGA-WZ-A7V5        TCGA-WZ-A8D5 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-X3-A8G4        TCGA-XE-A8H5        TCGA-XE-A9SE        TCGA-XE-AANI 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-XE-AANJ        TCGA-XE-AANR        TCGA-XE-AANV        TCGA-XE-AAO6 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-XE-AAOB        TCGA-XE-AAOC        TCGA-XE-AAOD        TCGA-XE-AAOF 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-XE-AAOJ        TCGA-XY-A89B        TCGA-XY-A8S2        TCGA-XY-A8S3 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-XY-A9T9        TCGA-YU-A90Q        TCGA-YU-A90S        TCGA-YU-A90W 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-YU-A90Y        TCGA-YU-A912        TCGA-YU-A94D        TCGA-YU-A94I 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-YU-AA61        TCGA-ZM-AA05        TCGA-ZM-AA06        TCGA-ZM-AA0B 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-ZM-AA0D        TCGA-ZM-AA0E        TCGA-ZM-AA0F        TCGA-ZM-AA0H 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 

Clustering(10) Variable = 6P GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  6P GAIN MUTATED        9      1     18
  6P GAIN WILD-TYPE     39     43     40
D10V1, multiclass
        clus
vv       6P GAIN MUTATED 6P GAIN WILD-TYPE
  CLUS_1               9                39
  CLUS_2               1                43
  CLUS_3              18                40
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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 GAIN MUTATED       10      8     10
  6P GAIN WILD-TYPE     46     41     35
D10V2, multiclass
        clus
vv       6P GAIN MUTATED 6P GAIN WILD-TYPE
  CLUS_1              10                46
  CLUS_2               8                41
  CLUS_3              10                35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  6P GAIN MUTATED        9      5     14
  6P GAIN WILD-TYPE     61     35     26
D10V3, multiclass
        clus
vv       6P GAIN MUTATED 6P GAIN WILD-TYPE
  CLUS_1               9                61
  CLUS_2               5                35
  CLUS_3              14                26
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  6P GAIN MUTATED        8      1      0     12      0      5      2
  6P GAIN WILD-TYPE     35     26     12     12      8     18     11
D10V4, multiclass
        clus
vv       6P GAIN MUTATED 6P GAIN WILD-TYPE
  CLUS_1               8                35
  CLUS_2               1                26
  CLUS_3               0                12
  CLUS_4              12                12
  CLUS_5               0                 8
  CLUS_6               5                18
  CLUS_7               2                11
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  6P GAIN MUTATED        1      2      8      2
  6P GAIN WILD-TYPE     11     19      8     23
D10V5, multiclass
        clus
vv       6P GAIN MUTATED 6P GAIN WILD-TYPE
  CLUS_1               1                11
  CLUS_2               2                19
  CLUS_3               8                 8
  CLUS_4               2                23
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  6P GAIN MUTATED        3      3      7
  6P GAIN WILD-TYPE     41     12      8
D10V6, multiclass
        clus
vv       6P GAIN MUTATED 6P GAIN WILD-TYPE
  CLUS_1               3                41
  CLUS_2               3                12
  CLUS_3               7                 8
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger 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 GAIN MUTATED        1      3      2      7
  6P GAIN WILD-TYPE     21     10     18     12
D10V7, multiclass
        clus
vv       6P GAIN MUTATED 6P GAIN WILD-TYPE
  CLUS_1               1                21
  CLUS_2               3                10
  CLUS_3               2                18
  CLUS_4               7                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 CLUS_5 CLUS_6 CLUS_7
  6P GAIN MUTATED        1      1      3      6      1      0      1
  6P GAIN WILD-TYPE     10      7     12      5      4     13     10
D10V8, multiclass
        clus
vv       6P GAIN MUTATED 6P GAIN WILD-TYPE
  CLUS_1               1                10
  CLUS_2               1                 7
  CLUS_3               3                12
  CLUS_4               6                 5
  CLUS_5               1                 4
  CLUS_6               0                13
  CLUS_7               1                10
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(11) Variable = 6Q GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  6Q GAIN MUTATED        7      2     14
  6Q GAIN WILD-TYPE     41     42     44
D11V1, multiclass
        clus
vv       6Q GAIN MUTATED 6Q GAIN WILD-TYPE
  CLUS_1               7                41
  CLUS_2               2                42
  CLUS_3              14                44
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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 GAIN MUTATED        8      7      8
  6Q GAIN WILD-TYPE     48     42     37
D11V2, multiclass
        clus
vv       6Q GAIN MUTATED 6Q GAIN WILD-TYPE
  CLUS_1               8                48
  CLUS_2               7                42
  CLUS_3               8                37
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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 GAIN MUTATED        8      3     12
  6Q GAIN WILD-TYPE     62     37     28
D11V3, multiclass
        clus
vv       6Q GAIN MUTATED 6Q GAIN WILD-TYPE
  CLUS_1               8                62
  CLUS_2               3                37
  CLUS_3              12                28
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  6Q GAIN MUTATED        8      0      0     11      0      3      1
  6Q GAIN WILD-TYPE     35     27     12     13      8     20     12
D11V4, multiclass
        clus
vv       6Q GAIN MUTATED 6Q GAIN WILD-TYPE
  CLUS_1               8                35
  CLUS_2               0                27
  CLUS_3               0                12
  CLUS_4              11                13
  CLUS_5               0                 8
  CLUS_6               3                20
  CLUS_7               1                12
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  6Q GAIN MUTATED        1      2      6      2
  6Q GAIN WILD-TYPE     11     19     10     23
D11V5, multiclass
        clus
vv       6Q GAIN MUTATED 6Q GAIN WILD-TYPE
  CLUS_1               1                11
  CLUS_2               2                19
  CLUS_3               6                10
  CLUS_4               2                23
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  6Q GAIN MUTATED        3      3      5
  6Q GAIN WILD-TYPE     41     12     10
D11V6, multiclass
        clus
vv       6Q GAIN MUTATED 6Q GAIN WILD-TYPE
  CLUS_1               3                41
  CLUS_2               3                12
  CLUS_3               5                10
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  6Q GAIN MUTATED        1      3      2      5
  6Q GAIN WILD-TYPE     21     10     18     14
D11V7, multiclass
        clus
vv       6Q GAIN MUTATED 6Q GAIN WILD-TYPE
  CLUS_1               1                21
  CLUS_2               3                10
  CLUS_3               2                18
  CLUS_4               5                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 CLUS_5 CLUS_6 CLUS_7
  6Q GAIN MUTATED        1      1      3      5      0      0      1
  6Q GAIN WILD-TYPE     10      7     12      6      5     13     10
D11V8, multiclass
        clus
vv       6Q GAIN MUTATED 6Q GAIN WILD-TYPE
  CLUS_1               1                10
  CLUS_2               1                 7
  CLUS_3               3                12
  CLUS_4               5                 6
  CLUS_5               0                 5
  CLUS_6               0                13
  CLUS_7               1                10
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(12) Variable = 7P GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  7P GAIN MUTATED       34     42     45
  7P GAIN WILD-TYPE     14      2     13
D12V1, multiclass
        clus
vv       7P GAIN MUTATED 7P GAIN WILD-TYPE
  CLUS_1              34                14
  CLUS_2              42                 2
  CLUS_3              45                13
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  7P GAIN MUTATED       49     41     31
  7P GAIN WILD-TYPE      7      8     14
D12V2, multiclass
        clus
vv       7P GAIN MUTATED 7P GAIN WILD-TYPE
  CLUS_1              49                 7
  CLUS_2              41                 8
  CLUS_3              31                14
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       62     34     25
  7P GAIN WILD-TYPE      8      6     15
D12V3, multiclass
        clus
vv       7P GAIN MUTATED 7P GAIN WILD-TYPE
  CLUS_1              62                 8
  CLUS_2              34                 6
  CLUS_3              25                15
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  7P GAIN MUTATED       38     24      7     16      6     22      8
  7P GAIN WILD-TYPE      5      3      5      8      2      1      5
D12V4, multiclass
        clus
vv       7P GAIN MUTATED 7P GAIN WILD-TYPE
  CLUS_1              38                 5
  CLUS_2              24                 3
  CLUS_3               7                 5
  CLUS_4              16                 8
  CLUS_5               6                 2
  CLUS_6              22                 1
  CLUS_7               8                 5
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  7P GAIN MUTATED        9     19     10     22
  7P GAIN WILD-TYPE      3      2      6      3
D12V5, multiclass
        clus
vv       7P GAIN MUTATED 7P GAIN WILD-TYPE
  CLUS_1               9                 3
  CLUS_2              19                 2
  CLUS_3              10                 6
  CLUS_4              22                 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
  7P GAIN MUTATED       38     13      9
  7P GAIN WILD-TYPE      6      2      6
D12V6, multiclass
        clus
vv       7P GAIN MUTATED 7P GAIN WILD-TYPE
  CLUS_1              38                 6
  CLUS_2              13                 2
  CLUS_3               9                 6
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger 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       19     12     17     12
  7P GAIN WILD-TYPE      3      1      3      7
D12V7, multiclass
        clus
vv       7P GAIN MUTATED 7P GAIN WILD-TYPE
  CLUS_1              19                 3
  CLUS_2              12                 1
  CLUS_3              17                 3
  CLUS_4              12                 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 CLUS_5 CLUS_6 CLUS_7
  7P GAIN MUTATED        9      7     13      7      3     11     10
  7P GAIN WILD-TYPE      2      1      2      4      2      2      1
D12V8, multiclass
        clus
vv       7P GAIN MUTATED 7P GAIN WILD-TYPE
  CLUS_1               9                 2
  CLUS_2               7                 1
  CLUS_3              13                 2
  CLUS_4               7                 4
  CLUS_5               3                 2
  CLUS_6              11                 2
  CLUS_7              10                 1
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(13) Variable = 7Q GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  7Q GAIN MUTATED       31     33     41
  7Q GAIN WILD-TYPE     17     11     17
D13V1, multiclass
        clus
vv       7Q GAIN MUTATED 7Q GAIN WILD-TYPE
  CLUS_1              31                17
  CLUS_2              33                11
  CLUS_3              41                17
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  7Q GAIN MUTATED       40     39     26
  7Q GAIN WILD-TYPE     16     10     19
D13V2, multiclass
        clus
vv       7Q GAIN MUTATED 7Q GAIN WILD-TYPE
  CLUS_1              40                16
  CLUS_2              39                10
  CLUS_3              26                19
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  7Q GAIN MUTATED       52     33     20
  7Q GAIN WILD-TYPE     18      7     20
D13V3, multiclass
        clus
vv       7Q GAIN MUTATED 7Q GAIN WILD-TYPE
  CLUS_1              52                18
  CLUS_2              33                 7
  CLUS_3              20                20
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  7Q GAIN MUTATED       36     16      8     11      6     20      8
  7Q GAIN WILD-TYPE      7     11      4     13      2      3      5
D13V4, multiclass
        clus
vv       7Q GAIN MUTATED 7Q GAIN WILD-TYPE
  CLUS_1              36                 7
  CLUS_2              16                11
  CLUS_3               8                 4
  CLUS_4              11                13
  CLUS_5               6                 2
  CLUS_6              20                 3
  CLUS_7               8                 5
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  7Q GAIN MUTATED        9     17      7     15
  7Q GAIN WILD-TYPE      3      4      9     10
D13V5, multiclass
        clus
vv       7Q GAIN MUTATED 7Q GAIN WILD-TYPE
  CLUS_1               9                 3
  CLUS_2              17                 4
  CLUS_3               7                 9
  CLUS_4              15                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
  7Q GAIN MUTATED       29     13      6
  7Q GAIN WILD-TYPE     15      2      9
D13V6, multiclass
        clus
vv       7Q GAIN MUTATED 7Q GAIN WILD-TYPE
  CLUS_1              29                15
  CLUS_2              13                 2
  CLUS_3               6                 9
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  7Q GAIN MUTATED       12     12     15      9
  7Q GAIN WILD-TYPE     10      1      5     10
D13V7, multiclass
        clus
vv       7Q GAIN MUTATED 7Q GAIN WILD-TYPE
  CLUS_1              12                10
  CLUS_2              12                 1
  CLUS_3              15                 5
  CLUS_4               9                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 CLUS_5 CLUS_6 CLUS_7
  7Q GAIN MUTATED        9      4     13      4      3      7      8
  7Q GAIN WILD-TYPE      2      4      2      7      2      6      3
D13V8, multiclass
        clus
vv       7Q GAIN MUTATED 7Q GAIN WILD-TYPE
  CLUS_1               9                 2
  CLUS_2               4                 4
  CLUS_3              13                 2
  CLUS_4               4                 7
  CLUS_5               3                 2
  CLUS_6               7                 6
  CLUS_7               8                 3
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(14) Variable = 8P GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  8P GAIN MUTATED       33     38     39
  8P GAIN WILD-TYPE     15      6     19
D14V1, multiclass
        clus
vv       8P GAIN MUTATED 8P GAIN WILD-TYPE
  CLUS_1              33                15
  CLUS_2              38                 6
  CLUS_3              39                19
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  8P GAIN MUTATED       49     33     28
  8P GAIN WILD-TYPE      7     16     17
D14V2, multiclass
        clus
vv       8P GAIN MUTATED 8P GAIN WILD-TYPE
  CLUS_1              49                 7
  CLUS_2              33                16
  CLUS_3              28                17
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  8P GAIN MUTATED       63     26     21
  8P GAIN WILD-TYPE      7     14     19
D14V3, multiclass
        clus
vv       8P GAIN MUTATED 8P GAIN WILD-TYPE
  CLUS_1              63                 7
  CLUS_2              26                14
  CLUS_3              21                19
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  8P GAIN MUTATED       37     26      8     14      5     15      5
  8P GAIN WILD-TYPE      6      1      4     10      3      8      8
D14V4, multiclass
        clus
vv       8P GAIN MUTATED 8P GAIN WILD-TYPE
  CLUS_1              37                 6
  CLUS_2              26                 1
  CLUS_3               8                 4
  CLUS_4              14                10
  CLUS_5               5                 3
  CLUS_6              15                 8
  CLUS_7               5                 8
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  8P GAIN MUTATED        9     15      9     23
  8P GAIN WILD-TYPE      3      6      7      2
D14V5, multiclass
        clus
vv       8P GAIN MUTATED 8P GAIN WILD-TYPE
  CLUS_1               9                 3
  CLUS_2              15                 6
  CLUS_3               9                 7
  CLUS_4              23                 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
  8P GAIN MUTATED       38     10      8
  8P GAIN WILD-TYPE      6      5      7
D14V6, multiclass
        clus
vv       8P GAIN MUTATED 8P GAIN WILD-TYPE
  CLUS_1              38                 6
  CLUS_2              10                 5
  CLUS_3               8                 7
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  8P GAIN MUTATED       21      8     16     11
  8P GAIN WILD-TYPE      1      5      4      8
D14V7, multiclass
        clus
vv       8P GAIN MUTATED 8P GAIN WILD-TYPE
  CLUS_1              21                 1
  CLUS_2               8                 5
  CLUS_3              16                 4
  CLUS_4              11                 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 CLUS_5 CLUS_6 CLUS_7
  8P GAIN MUTATED        9      8     10      5      3     12      9
  8P GAIN WILD-TYPE      2      0      5      6      2      1      2
D14V8, multiclass
        clus
vv       8P GAIN MUTATED 8P GAIN WILD-TYPE
  CLUS_1               9                 2
  CLUS_2               8                 0
  CLUS_3              10                 5
  CLUS_4               5                 6
  CLUS_5               3                 2
  CLUS_6              12                 1
  CLUS_7               9                 2
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(15) Variable = 8Q GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  8Q GAIN MUTATED       34     39     38
  8Q GAIN WILD-TYPE     14      5     20
D15V1, multiclass
        clus
vv       8Q GAIN MUTATED 8Q GAIN WILD-TYPE
  CLUS_1              34                14
  CLUS_2              39                 5
  CLUS_3              38                20
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  8Q GAIN MUTATED       49     36     26
  8Q GAIN WILD-TYPE      7     13     19
D15V2, multiclass
        clus
vv       8Q GAIN MUTATED 8Q GAIN WILD-TYPE
  CLUS_1              49                 7
  CLUS_2              36                13
  CLUS_3              26                19
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  8Q GAIN MUTATED       62     28     21
  8Q GAIN WILD-TYPE      8     12     19
D15V3, multiclass
        clus
vv       8Q GAIN MUTATED 8Q GAIN WILD-TYPE
  CLUS_1              62                 8
  CLUS_2              28                12
  CLUS_3              21                19
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  8Q GAIN MUTATED       40     22      8     15      5     17      4
  8Q GAIN WILD-TYPE      3      5      4      9      3      6      9
D15V4, multiclass
        clus
vv       8Q GAIN MUTATED 8Q GAIN WILD-TYPE
  CLUS_1              40                 3
  CLUS_2              22                 5
  CLUS_3               8                 4
  CLUS_4              15                 9
  CLUS_5               5                 3
  CLUS_6              17                 6
  CLUS_7               4                 9
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  8Q GAIN MUTATED        9     17      8     24
  8Q GAIN WILD-TYPE      3      4      8      1
D15V5, multiclass
        clus
vv       8Q GAIN MUTATED 8Q GAIN WILD-TYPE
  CLUS_1               9                 3
  CLUS_2              17                 4
  CLUS_3               8                 8
  CLUS_4              24                 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
  8Q GAIN MUTATED       39     12      7
  8Q GAIN WILD-TYPE      5      3      8
D15V6, multiclass
        clus
vv       8Q GAIN MUTATED 8Q GAIN WILD-TYPE
  CLUS_1              39                 5
  CLUS_2              12                 3
  CLUS_3               7                 8
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger 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       21     10     17     10
  8Q GAIN WILD-TYPE      1      3      3      9
D15V7, multiclass
        clus
vv       8Q GAIN MUTATED 8Q GAIN WILD-TYPE
  CLUS_1              21                 1
  CLUS_2              10                 3
  CLUS_3              17                 3
  CLUS_4              10                 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 CLUS_5 CLUS_6 CLUS_7
  8Q GAIN MUTATED        9      7     12      4      3     13     10
  8Q GAIN WILD-TYPE      2      1      3      7      2      0      1
D15V8, multiclass
        clus
vv       8Q GAIN MUTATED 8Q GAIN WILD-TYPE
  CLUS_1               9                 2
  CLUS_2               7                 1
  CLUS_3              12                 3
  CLUS_4               4                 7
  CLUS_5               3                 2
  CLUS_6              13                 0
  CLUS_7              10                 1
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(16) Variable = 9P GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  9P GAIN MUTATED        5      2      9
  9P GAIN WILD-TYPE     43     42     49
D16V1, multiclass
        clus
vv       9P GAIN MUTATED 9P GAIN WILD-TYPE
  CLUS_1               5                43
  CLUS_2               2                42
  CLUS_3               9                49
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  9P GAIN MUTATED        4      8      4
  9P GAIN WILD-TYPE     52     41     41
D16V2, multiclass
        clus
vv       9P GAIN MUTATED 9P GAIN WILD-TYPE
  CLUS_1               4                52
  CLUS_2               8                41
  CLUS_3               4                41
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  9P GAIN MUTATED        4      5      7
  9P GAIN WILD-TYPE     66     35     33
D16V3, multiclass
        clus
vv       9P GAIN MUTATED 9P GAIN WILD-TYPE
  CLUS_1               4                66
  CLUS_2               5                35
  CLUS_3               7                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 CLUS_5 CLUS_6 CLUS_7
  9P GAIN MUTATED        2      2      1      4      0      4      3
  9P GAIN WILD-TYPE     41     25     11     20      8     19     10
D16V4, multiclass
        clus
vv       9P GAIN MUTATED 9P GAIN WILD-TYPE
  CLUS_1               2                41
  CLUS_2               2                25
  CLUS_3               1                11
  CLUS_4               4                20
  CLUS_5               0                 8
  CLUS_6               4                19
  CLUS_7               3                10
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  9P GAIN MUTATED        1      4      4      3
  9P GAIN WILD-TYPE     11     17     12     22
D16V5, multiclass
        clus
vv       9P GAIN MUTATED 9P GAIN WILD-TYPE
  CLUS_1               1                11
  CLUS_2               4                17
  CLUS_3               4                12
  CLUS_4               3                22
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  9P GAIN MUTATED        4      4      4
  9P GAIN WILD-TYPE     40     11     11
D16V6, multiclass
        clus
vv       9P GAIN MUTATED 9P GAIN WILD-TYPE
  CLUS_1               4                40
  CLUS_2               4                11
  CLUS_3               4                11
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  9P GAIN MUTATED        2      4      2      4
  9P GAIN WILD-TYPE     20      9     18     15
D16V7, multiclass
        clus
vv       9P GAIN MUTATED 9P GAIN WILD-TYPE
  CLUS_1               2                20
  CLUS_2               4                 9
  CLUS_3               2                18
  CLUS_4               4                15
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  9P GAIN MUTATED        1      1      4      3      1      1      1
  9P GAIN WILD-TYPE     10      7     11      8      4     12     10
D16V8, multiclass
        clus
vv       9P GAIN MUTATED 9P GAIN WILD-TYPE
  CLUS_1               1                10
  CLUS_2               1                 7
  CLUS_3               4                11
  CLUS_4               3                 8
  CLUS_5               1                 4
  CLUS_6               1                12
  CLUS_7               1                10
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(17) Variable = 9Q GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  9Q GAIN MUTATED        7      7      3
  9Q GAIN WILD-TYPE     41     37     55
D17V1, multiclass
        clus
vv       9Q GAIN MUTATED 9Q GAIN WILD-TYPE
  CLUS_1               7                41
  CLUS_2               7                37
  CLUS_3               3                55
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  9Q GAIN MUTATED        8      6      3
  9Q GAIN WILD-TYPE     48     43     42
D17V2, multiclass
        clus
vv       9Q GAIN MUTATED 9Q GAIN WILD-TYPE
  CLUS_1               8                48
  CLUS_2               6                43
  CLUS_3               3                42
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  9Q GAIN MUTATED        8      5      4
  9Q GAIN WILD-TYPE     62     35     36
D17V3, multiclass
        clus
vv       9Q GAIN MUTATED 9Q GAIN WILD-TYPE
  CLUS_1               8                62
  CLUS_2               5                35
  CLUS_3               4                36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  9Q GAIN MUTATED        2      6      0      1      1      4      3
  9Q GAIN WILD-TYPE     41     21     12     23      7     19     10
D17V4, multiclass
        clus
vv       9Q GAIN MUTATED 9Q GAIN WILD-TYPE
  CLUS_1               2                41
  CLUS_2               6                21
  CLUS_3               0                12
  CLUS_4               1                23
  CLUS_5               1                 7
  CLUS_6               4                19
  CLUS_7               3                10
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  9Q GAIN MUTATED        2      3      2      3
  9Q GAIN WILD-TYPE     10     18     14     22
D17V5, multiclass
        clus
vv       9Q GAIN MUTATED 9Q GAIN WILD-TYPE
  CLUS_1               2                10
  CLUS_2               3                18
  CLUS_3               2                14
  CLUS_4               3                22
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  9Q GAIN MUTATED        6      2      2
  9Q GAIN WILD-TYPE     38     13     13
D17V6, multiclass
        clus
vv       9Q GAIN MUTATED 9Q GAIN WILD-TYPE
  CLUS_1               6                38
  CLUS_2               2                13
  CLUS_3               2                13
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  9Q GAIN MUTATED        2      3      3      2
  9Q GAIN WILD-TYPE     20     10     17     17
D17V7, multiclass
        clus
vv       9Q GAIN MUTATED 9Q GAIN WILD-TYPE
  CLUS_1               2                20
  CLUS_2               3                10
  CLUS_3               3                17
  CLUS_4               2                17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  9Q GAIN MUTATED        2      3      2      1      1      0      1
  9Q GAIN WILD-TYPE      9      5     13     10      4     13     10
D17V8, multiclass
        clus
vv       9Q GAIN MUTATED 9Q GAIN WILD-TYPE
  CLUS_1               2                 9
  CLUS_2               3                 5
  CLUS_3               2                13
  CLUS_4               1                10
  CLUS_5               1                 4
  CLUS_6               0                13
  CLUS_7               1                10
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(18) Variable = 10P GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  10P GAIN MUTATED        1      3      2
  10P GAIN WILD-TYPE     47     41     56
D18V1, multiclass
        clus
vv       10P GAIN MUTATED 10P GAIN WILD-TYPE
  CLUS_1                1                 47
  CLUS_2                3                 41
  CLUS_3                2                 56
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  10P GAIN MUTATED        2      0      4
  10P GAIN WILD-TYPE     54     49     41
D18V2, multiclass
        clus
vv       10P GAIN MUTATED 10P GAIN WILD-TYPE
  CLUS_1                2                 54
  CLUS_2                0                 49
  CLUS_3                4                 41
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  10P GAIN MUTATED        3      0      3
  10P GAIN WILD-TYPE     67     40     37
D18V3, multiclass
        clus
vv       10P GAIN MUTATED 10P GAIN WILD-TYPE
  CLUS_1                3                 67
  CLUS_2                0                 40
  CLUS_3                3                 37
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- 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
  10P GAIN MUTATED        1      2      0      1      0      0      2
  10P GAIN WILD-TYPE     42     25     12     23      8     23     11
D18V4, multiclass
        clus
vv       10P GAIN MUTATED 10P GAIN WILD-TYPE
  CLUS_1                1                 42
  CLUS_2                2                 25
  CLUS_3                0                 12
  CLUS_4                1                 23
  CLUS_5                0                  8
  CLUS_6                0                 23
  CLUS_7                2                 11
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  10P GAIN MUTATED        0      1      1      0
  10P GAIN WILD-TYPE     12     20     15     25
D18V5, multiclass
[1] "Remove cluster labels:" "10P GAIN MUTATED"      
clus
  10P GAIN MUTATED 10P GAIN WILD-TYPE 
                 2                 72 
        TCGA-2G-AAFE         TCGA-2G-AAFG         TCGA-2G-AAFN 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-2G-AAFO         TCGA-2G-AAG6         TCGA-2G-AAG7 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-2G-AAGG         TCGA-2G-AAGI         TCGA-2G-AAGO 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-2G-AAGP         TCGA-2G-AAGS         TCGA-2G-AAGZ 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-2G-AAH0         TCGA-2G-AAHC         TCGA-2G-AAHG 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-2G-AAHL         TCGA-2G-AAKG         TCGA-2G-AAKH 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-2G-AAL7         TCGA-2G-AALF         TCGA-2G-AALS 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-2G-AALT         TCGA-2G-AAM4         TCGA-2X-A9D5 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-S6-A8JX         TCGA-SB-A6J6         TCGA-SB-A76C 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-SN-A6IS         TCGA-SN-A84W         TCGA-SN-A84X 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-SN-A84Y         TCGA-VF-A8A9         TCGA-VF-A8AA 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-VF-A8AB         TCGA-VF-A8AC         TCGA-VF-A8AD 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-VF-A8AE         TCGA-W4-A7U4         TCGA-WZ-A7V3 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-WZ-A7V4         TCGA-WZ-A7V5         TCGA-X3-A8G4 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-XE-A8H5         TCGA-XE-A9SE         TCGA-XE-AANI 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-XE-AANJ         TCGA-XE-AANR         TCGA-XE-AANV 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-XE-AAO6         TCGA-XE-AAOB         TCGA-XE-AAOC 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-XE-AAOD         TCGA-XE-AAOF         TCGA-XE-AAOJ 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-XY-A89B         TCGA-XY-A8S2         TCGA-XY-A8S3 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-XY-A9T9         TCGA-YU-A90Q         TCGA-YU-A90S 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-YU-A90W         TCGA-YU-A90Y         TCGA-YU-A912 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-YU-A94D         TCGA-YU-AA61         TCGA-ZM-AA05 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-ZM-AA06         TCGA-ZM-AA0B         TCGA-ZM-AA0D 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-ZM-AA0E         TCGA-ZM-AA0F         TCGA-ZM-AA0H 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  10P GAIN MUTATED        1      0      1
  10P GAIN WILD-TYPE     43     15     14
D18V6, multiclass
[1] "Remove cluster labels:" "10P GAIN MUTATED"      
clus
  10P GAIN MUTATED 10P GAIN WILD-TYPE 
                 2                 72 
        TCGA-2G-AAFE         TCGA-2G-AAFG         TCGA-2G-AAFN 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-2G-AAFO         TCGA-2G-AAG6         TCGA-2G-AAG7 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-2G-AAGG         TCGA-2G-AAGI         TCGA-2G-AAGO 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-2G-AAGP         TCGA-2G-AAGS         TCGA-2G-AAGZ 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-2G-AAH0         TCGA-2G-AAHC         TCGA-2G-AAHG 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-2G-AAHL         TCGA-2G-AAKG         TCGA-2G-AAKH 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-2G-AAL7         TCGA-2G-AALF         TCGA-2G-AALS 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-2G-AALT         TCGA-2G-AAM4         TCGA-2X-A9D5 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-S6-A8JX         TCGA-SB-A6J6         TCGA-SB-A76C 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-SN-A6IS         TCGA-SN-A84W         TCGA-SN-A84X 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-SN-A84Y         TCGA-VF-A8A9         TCGA-VF-A8AA 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-VF-A8AB         TCGA-VF-A8AC         TCGA-VF-A8AD 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-VF-A8AE         TCGA-W4-A7U4         TCGA-WZ-A7V3 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-WZ-A7V4         TCGA-WZ-A7V5         TCGA-X3-A8G4 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-XE-A8H5         TCGA-XE-A9SE         TCGA-XE-AANI 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-XE-AANJ         TCGA-XE-AANR         TCGA-XE-AANV 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-XE-AAO6         TCGA-XE-AAOB         TCGA-XE-AAOC 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-XE-AAOD         TCGA-XE-AAOF         TCGA-XE-AAOJ 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-XY-A89B         TCGA-XY-A8S2         TCGA-XY-A8S3 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-XY-A9T9         TCGA-YU-A90Q         TCGA-YU-A90S 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-YU-A90W         TCGA-YU-A90Y         TCGA-YU-A912 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-YU-A94D         TCGA-YU-AA61         TCGA-ZM-AA05 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-ZM-AA06         TCGA-ZM-AA0B         TCGA-ZM-AA0D 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-ZM-AA0E         TCGA-ZM-AA0F         TCGA-ZM-AA0H 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  10P GAIN MUTATED        0      0      1      1
  10P GAIN WILD-TYPE     22     13     19     18
D18V7, multiclass
[1] "Remove cluster labels:" "10P GAIN MUTATED"      
clus
  10P GAIN MUTATED 10P GAIN WILD-TYPE 
                 2                 72 
        TCGA-2G-AAFE         TCGA-2G-AAFG         TCGA-2G-AAFN 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-2G-AAFO         TCGA-2G-AAG6         TCGA-2G-AAG7 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-2G-AAGG         TCGA-2G-AAGI         TCGA-2G-AAGO 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-2G-AAGP         TCGA-2G-AAGS         TCGA-2G-AAGZ 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-2G-AAH0         TCGA-2G-AAHC         TCGA-2G-AAHG 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-2G-AAHL         TCGA-2G-AAKG         TCGA-2G-AAKH 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-2G-AAL7         TCGA-2G-AALF         TCGA-2G-AALS 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-2G-AALT         TCGA-2G-AAM4         TCGA-2X-A9D5 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-S6-A8JX         TCGA-SB-A6J6         TCGA-SB-A76C 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-SN-A6IS         TCGA-SN-A84W         TCGA-SN-A84X 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-SN-A84Y         TCGA-VF-A8A9         TCGA-VF-A8AA 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-VF-A8AB         TCGA-VF-A8AC         TCGA-VF-A8AD 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-VF-A8AE         TCGA-W4-A7U4         TCGA-WZ-A7V3 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-WZ-A7V4         TCGA-WZ-A7V5         TCGA-X3-A8G4 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-XE-A8H5         TCGA-XE-A9SE         TCGA-XE-AANI 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-XE-AANJ         TCGA-XE-AANR         TCGA-XE-AANV 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-XE-AAO6         TCGA-XE-AAOB         TCGA-XE-AAOC 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-XE-AAOD         TCGA-XE-AAOF         TCGA-XE-AAOJ 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-XY-A89B         TCGA-XY-A8S2         TCGA-XY-A8S3 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-XY-A9T9         TCGA-YU-A90Q         TCGA-YU-A90S 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-YU-A90W         TCGA-YU-A90Y         TCGA-YU-A912 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-YU-A94D         TCGA-YU-AA61         TCGA-ZM-AA05 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-ZM-AA06         TCGA-ZM-AA0B         TCGA-ZM-AA0D 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-ZM-AA0E         TCGA-ZM-AA0F         TCGA-ZM-AA0H 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  10P GAIN MUTATED        0      1      0      1      0      0      0
  10P GAIN WILD-TYPE     11      7     15     10      5     13     11
D18V8, multiclass
[1] "Remove cluster labels:" "10P GAIN MUTATED"      
clus
  10P GAIN MUTATED 10P GAIN WILD-TYPE 
                 2                 72 
        TCGA-2G-AAFE         TCGA-2G-AAFG         TCGA-2G-AAFN 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-2G-AAFO         TCGA-2G-AAG6         TCGA-2G-AAG7 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-2G-AAGG         TCGA-2G-AAGI         TCGA-2G-AAGO 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-2G-AAGP         TCGA-2G-AAGS         TCGA-2G-AAGZ 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-2G-AAH0         TCGA-2G-AAHC         TCGA-2G-AAHG 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-2G-AAHL         TCGA-2G-AAKG         TCGA-2G-AAKH 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-2G-AAL7         TCGA-2G-AALF         TCGA-2G-AALS 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-2G-AALT         TCGA-2G-AAM4         TCGA-2X-A9D5 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-S6-A8JX         TCGA-SB-A6J6         TCGA-SB-A76C 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-SN-A6IS         TCGA-SN-A84W         TCGA-SN-A84X 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-SN-A84Y         TCGA-VF-A8A9         TCGA-VF-A8AA 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-VF-A8AB         TCGA-VF-A8AC         TCGA-VF-A8AD 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-VF-A8AE         TCGA-W4-A7U4         TCGA-WZ-A7V3 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-WZ-A7V4         TCGA-WZ-A7V5         TCGA-X3-A8G4 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-XE-A8H5         TCGA-XE-A9SE         TCGA-XE-AANI 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-XE-AANJ         TCGA-XE-AANR         TCGA-XE-AANV 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-XE-AAO6         TCGA-XE-AAOB         TCGA-XE-AAOC 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-XE-AAOD         TCGA-XE-AAOF         TCGA-XE-AAOJ 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-XY-A89B         TCGA-XY-A8S2         TCGA-XY-A8S3 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-XY-A9T9         TCGA-YU-A90Q         TCGA-YU-A90S 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-YU-A90W         TCGA-YU-A90Y         TCGA-YU-A912 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-YU-A94D         TCGA-YU-AA61         TCGA-ZM-AA05 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-ZM-AA06         TCGA-ZM-AA0B         TCGA-ZM-AA0D 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-ZM-AA0E         TCGA-ZM-AA0F         TCGA-ZM-AA0H 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 

Clustering(19) Variable = 10Q GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  10Q GAIN MUTATED        4      2      2
  10Q GAIN WILD-TYPE     44     42     56
D19V1, multiclass
        clus
vv       10Q GAIN MUTATED 10Q GAIN WILD-TYPE
  CLUS_1                4                 44
  CLUS_2                2                 42
  CLUS_3                2                 56
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  10Q GAIN MUTATED        3      1      4
  10Q GAIN WILD-TYPE     53     48     41
D19V2, multiclass
        clus
vv       10Q GAIN MUTATED 10Q GAIN WILD-TYPE
  CLUS_1                3                 53
  CLUS_2                1                 48
  CLUS_3                4                 41
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  10Q GAIN MUTATED        3      1      4
  10Q GAIN WILD-TYPE     67     39     36
D19V3, multiclass
        clus
vv       10Q GAIN MUTATED 10Q GAIN WILD-TYPE
  CLUS_1                3                 67
  CLUS_2                1                 39
  CLUS_3                4                 36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  10Q GAIN MUTATED        1      2      0      2      1      0      2
  10Q GAIN WILD-TYPE     42     25     12     22      7     23     11
D19V4, multiclass
        clus
vv       10Q GAIN MUTATED 10Q GAIN WILD-TYPE
  CLUS_1                1                 42
  CLUS_2                2                 25
  CLUS_3                0                 12
  CLUS_4                2                 22
  CLUS_5                1                  7
  CLUS_6                0                 23
  CLUS_7                2                 11
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  10Q GAIN MUTATED        0      1      1      0
  10Q GAIN WILD-TYPE     12     20     15     25
D19V5, multiclass
[1] "Remove cluster labels:" "10Q GAIN MUTATED"      
clus
  10Q GAIN MUTATED 10Q GAIN WILD-TYPE 
                 2                 72 
        TCGA-2G-AAFE         TCGA-2G-AAFG         TCGA-2G-AAFN 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-2G-AAFO         TCGA-2G-AAG6         TCGA-2G-AAG7 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-2G-AAGG         TCGA-2G-AAGI         TCGA-2G-AAGO 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-2G-AAGP         TCGA-2G-AAGS         TCGA-2G-AAGZ 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-2G-AAH0         TCGA-2G-AAHC         TCGA-2G-AAHG 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-2G-AAHL         TCGA-2G-AAKG         TCGA-2G-AAKH 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-2G-AAL7         TCGA-2G-AALF         TCGA-2G-AALS 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-2G-AALT         TCGA-2G-AAM4         TCGA-2X-A9D5 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-S6-A8JX         TCGA-SB-A6J6         TCGA-SB-A76C 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-SN-A6IS         TCGA-SN-A84W         TCGA-SN-A84X 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-SN-A84Y         TCGA-VF-A8A9         TCGA-VF-A8AA 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-VF-A8AB         TCGA-VF-A8AC         TCGA-VF-A8AD 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-VF-A8AE         TCGA-W4-A7U4         TCGA-WZ-A7V3 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-WZ-A7V4         TCGA-WZ-A7V5         TCGA-X3-A8G4 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-XE-A8H5         TCGA-XE-A9SE         TCGA-XE-AANI 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-XE-AANJ         TCGA-XE-AANR         TCGA-XE-AANV 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-XE-AAO6         TCGA-XE-AAOB         TCGA-XE-AAOC 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-XE-AAOD         TCGA-XE-AAOF         TCGA-XE-AAOJ 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-XY-A89B         TCGA-XY-A8S2         TCGA-XY-A8S3 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-XY-A9T9         TCGA-YU-A90Q         TCGA-YU-A90S 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-YU-A90W         TCGA-YU-A90Y         TCGA-YU-A912 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-YU-A94D         TCGA-YU-AA61         TCGA-ZM-AA05 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-ZM-AA06         TCGA-ZM-AA0B         TCGA-ZM-AA0D 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-ZM-AA0E         TCGA-ZM-AA0F         TCGA-ZM-AA0H 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  10Q GAIN MUTATED        1      0      1
  10Q GAIN WILD-TYPE     43     15     14
D19V6, multiclass
[1] "Remove cluster labels:" "10Q GAIN MUTATED"      
clus
  10Q GAIN MUTATED 10Q GAIN WILD-TYPE 
                 2                 72 
        TCGA-2G-AAFE         TCGA-2G-AAFG         TCGA-2G-AAFN 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-2G-AAFO         TCGA-2G-AAG6         TCGA-2G-AAG7 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-2G-AAGG         TCGA-2G-AAGI         TCGA-2G-AAGO 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-2G-AAGP         TCGA-2G-AAGS         TCGA-2G-AAGZ 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-2G-AAH0         TCGA-2G-AAHC         TCGA-2G-AAHG 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-2G-AAHL         TCGA-2G-AAKG         TCGA-2G-AAKH 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-2G-AAL7         TCGA-2G-AALF         TCGA-2G-AALS 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-2G-AALT         TCGA-2G-AAM4         TCGA-2X-A9D5 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-S6-A8JX         TCGA-SB-A6J6         TCGA-SB-A76C 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-SN-A6IS         TCGA-SN-A84W         TCGA-SN-A84X 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-SN-A84Y         TCGA-VF-A8A9         TCGA-VF-A8AA 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-VF-A8AB         TCGA-VF-A8AC         TCGA-VF-A8AD 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-VF-A8AE         TCGA-W4-A7U4         TCGA-WZ-A7V3 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-WZ-A7V4         TCGA-WZ-A7V5         TCGA-X3-A8G4 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-XE-A8H5         TCGA-XE-A9SE         TCGA-XE-AANI 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-XE-AANJ         TCGA-XE-AANR         TCGA-XE-AANV 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-XE-AAO6         TCGA-XE-AAOB         TCGA-XE-AAOC 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-XE-AAOD         TCGA-XE-AAOF         TCGA-XE-AAOJ 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-XY-A89B         TCGA-XY-A8S2         TCGA-XY-A8S3 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-XY-A9T9         TCGA-YU-A90Q         TCGA-YU-A90S 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-YU-A90W         TCGA-YU-A90Y         TCGA-YU-A912 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-YU-A94D         TCGA-YU-AA61         TCGA-ZM-AA05 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-ZM-AA06         TCGA-ZM-AA0B         TCGA-ZM-AA0D 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-ZM-AA0E         TCGA-ZM-AA0F         TCGA-ZM-AA0H 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  10Q GAIN MUTATED        0      0      1      1
  10Q GAIN WILD-TYPE     22     13     19     18
D19V7, multiclass
[1] "Remove cluster labels:" "10Q GAIN MUTATED"      
clus
  10Q GAIN MUTATED 10Q GAIN WILD-TYPE 
                 2                 72 
        TCGA-2G-AAFE         TCGA-2G-AAFG         TCGA-2G-AAFN 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-2G-AAFO         TCGA-2G-AAG6         TCGA-2G-AAG7 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-2G-AAGG         TCGA-2G-AAGI         TCGA-2G-AAGO 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-2G-AAGP         TCGA-2G-AAGS         TCGA-2G-AAGZ 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-2G-AAH0         TCGA-2G-AAHC         TCGA-2G-AAHG 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-2G-AAHL         TCGA-2G-AAKG         TCGA-2G-AAKH 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-2G-AAL7         TCGA-2G-AALF         TCGA-2G-AALS 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-2G-AALT         TCGA-2G-AAM4         TCGA-2X-A9D5 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-S6-A8JX         TCGA-SB-A6J6         TCGA-SB-A76C 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-SN-A6IS         TCGA-SN-A84W         TCGA-SN-A84X 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-SN-A84Y         TCGA-VF-A8A9         TCGA-VF-A8AA 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-VF-A8AB         TCGA-VF-A8AC         TCGA-VF-A8AD 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-VF-A8AE         TCGA-W4-A7U4         TCGA-WZ-A7V3 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-WZ-A7V4         TCGA-WZ-A7V5         TCGA-X3-A8G4 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-XE-A8H5         TCGA-XE-A9SE         TCGA-XE-AANI 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-XE-AANJ         TCGA-XE-AANR         TCGA-XE-AANV 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-XE-AAO6         TCGA-XE-AAOB         TCGA-XE-AAOC 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-XE-AAOD         TCGA-XE-AAOF         TCGA-XE-AAOJ 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-XY-A89B         TCGA-XY-A8S2         TCGA-XY-A8S3 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-XY-A9T9         TCGA-YU-A90Q         TCGA-YU-A90S 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-YU-A90W         TCGA-YU-A90Y         TCGA-YU-A912 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-YU-A94D         TCGA-YU-AA61         TCGA-ZM-AA05 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-ZM-AA06         TCGA-ZM-AA0B         TCGA-ZM-AA0D 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-ZM-AA0E         TCGA-ZM-AA0F         TCGA-ZM-AA0H 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  10Q GAIN MUTATED        0      1      0      1      0      0      0
  10Q GAIN WILD-TYPE     11      7     15     10      5     13     11
D19V8, multiclass
[1] "Remove cluster labels:" "10Q GAIN MUTATED"      
clus
  10Q GAIN MUTATED 10Q GAIN WILD-TYPE 
                 2                 72 
        TCGA-2G-AAFE         TCGA-2G-AAFG         TCGA-2G-AAFN 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-2G-AAFO         TCGA-2G-AAG6         TCGA-2G-AAG7 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-2G-AAGG         TCGA-2G-AAGI         TCGA-2G-AAGO 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-2G-AAGP         TCGA-2G-AAGS         TCGA-2G-AAGZ 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-2G-AAH0         TCGA-2G-AAHC         TCGA-2G-AAHG 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-2G-AAHL         TCGA-2G-AAKG         TCGA-2G-AAKH 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-2G-AAL7         TCGA-2G-AALF         TCGA-2G-AALS 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-2G-AALT         TCGA-2G-AAM4         TCGA-2X-A9D5 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-S6-A8JX         TCGA-SB-A6J6         TCGA-SB-A76C 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-SN-A6IS         TCGA-SN-A84W         TCGA-SN-A84X 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-SN-A84Y         TCGA-VF-A8A9         TCGA-VF-A8AA 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-VF-A8AB         TCGA-VF-A8AC         TCGA-VF-A8AD 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-VF-A8AE         TCGA-W4-A7U4         TCGA-WZ-A7V3 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-WZ-A7V4         TCGA-WZ-A7V5         TCGA-X3-A8G4 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-XE-A8H5         TCGA-XE-A9SE         TCGA-XE-AANI 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-XE-AANJ         TCGA-XE-AANR         TCGA-XE-AANV 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-XE-AAO6         TCGA-XE-AAOB         TCGA-XE-AAOC 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-XE-AAOD         TCGA-XE-AAOF         TCGA-XE-AAOJ 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-XY-A89B         TCGA-XY-A8S2         TCGA-XY-A8S3 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-XY-A9T9         TCGA-YU-A90Q         TCGA-YU-A90S 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-YU-A90W         TCGA-YU-A90Y         TCGA-YU-A912 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-YU-A94D         TCGA-YU-AA61         TCGA-ZM-AA05 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-ZM-AA06         TCGA-ZM-AA0B         TCGA-ZM-AA0D 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-ZM-AA0E         TCGA-ZM-AA0F         TCGA-ZM-AA0H 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 

Clustering(20) Variable = 11P GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  11P GAIN MUTATED        3      1      6
  11P GAIN WILD-TYPE     45     43     52
D20V1, multiclass
        clus
vv       11P GAIN MUTATED 11P GAIN WILD-TYPE
  CLUS_1                3                 45
  CLUS_2                1                 43
  CLUS_3                6                 52
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  11P GAIN MUTATED        2      6      2
  11P GAIN WILD-TYPE     54     43     43
D20V2, multiclass
        clus
vv       11P GAIN MUTATED 11P GAIN WILD-TYPE
  CLUS_1                2                 54
  CLUS_2                6                 43
  CLUS_3                2                 43
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  11P GAIN MUTATED        2      3      5
  11P GAIN WILD-TYPE     68     37     35
D20V3, multiclass
        clus
vv       11P GAIN MUTATED 11P GAIN WILD-TYPE
  CLUS_1                2                 68
  CLUS_2                3                 37
  CLUS_3                5                 35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  11P GAIN MUTATED        1      1      1      1      2      1      3
  11P GAIN WILD-TYPE     42     26     11     23      6     22     10
D20V4, multiclass
        clus
vv       11P GAIN MUTATED 11P GAIN WILD-TYPE
  CLUS_1                1                 42
  CLUS_2                1                 26
  CLUS_3                1                 11
  CLUS_4                1                 23
  CLUS_5                2                  6
  CLUS_6                1                 22
  CLUS_7                3                 10
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  11P GAIN MUTATED        0      2      2      1
  11P GAIN WILD-TYPE     12     19     14     24
D20V5, multiclass
        clus
vv       11P GAIN MUTATED 11P GAIN WILD-TYPE
  CLUS_1                0                 12
  CLUS_2                2                 19
  CLUS_3                2                 14
  CLUS_4                1                 24
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  11P GAIN MUTATED        2      1      2
  11P GAIN WILD-TYPE     42     14     13
D20V6, multiclass
        clus
vv       11P GAIN MUTATED 11P GAIN WILD-TYPE
  CLUS_1                2                 42
  CLUS_2                1                 14
  CLUS_3                2                 13
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  11P GAIN MUTATED        1      1      0      3
  11P GAIN WILD-TYPE     21     12     20     16
D20V7, multiclass
        clus
vv       11P GAIN MUTATED 11P GAIN WILD-TYPE
  CLUS_1                1                 21
  CLUS_2                1                 12
  CLUS_3                0                 20
  CLUS_4                3                 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 CLUS_5 CLUS_6 CLUS_7
  11P GAIN MUTATED        0      1      2      2      0      0      0
  11P GAIN WILD-TYPE     11      7     13      9      5     13     11
D20V8, multiclass
        clus
vv       11P GAIN MUTATED 11P GAIN WILD-TYPE
  CLUS_1                0                 11
  CLUS_2                1                  7
  CLUS_3                2                 13
  CLUS_4                2                  9
  CLUS_5                0                  5
  CLUS_6                0                 13
  CLUS_7                0                 11
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(21) Variable = 11Q GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  11Q GAIN MUTATED        1      0      3
  11Q GAIN WILD-TYPE     47     44     55
D21V1, multiclass
        clus
vv       11Q GAIN MUTATED 11Q GAIN WILD-TYPE
  CLUS_1                1                 47
  CLUS_2                0                 44
  CLUS_3                3                 55
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  11Q GAIN MUTATED        0      3      1
  11Q GAIN WILD-TYPE     56     46     44
D21V2, multiclass
        clus
vv       11Q GAIN MUTATED 11Q GAIN WILD-TYPE
  CLUS_1                0                 56
  CLUS_2                3                 46
  CLUS_3                1                 44
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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 GAIN MUTATED        0      2      2
  11Q GAIN WILD-TYPE     70     38     38
D21V3, multiclass
        clus
vv       11Q GAIN MUTATED 11Q GAIN WILD-TYPE
  CLUS_1                0                 70
  CLUS_2                2                 38
  CLUS_3                2                 38
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  11Q GAIN MUTATED        0      0      0      0      1      1      2
  11Q GAIN WILD-TYPE     43     27     12     24      7     22     11
D21V4, multiclass
        clus
vv       11Q GAIN MUTATED 11Q GAIN WILD-TYPE
  CLUS_1                0                 43
  CLUS_2                0                 27
  CLUS_3                0                 12
  CLUS_4                0                 24
  CLUS_5                1                  7
  CLUS_6                1                 22
  CLUS_7                2                 11
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  11Q GAIN MUTATED        0      1      1      0
  11Q GAIN WILD-TYPE     12     20     15     25
D21V5, multiclass
[1] "Remove cluster labels:" "11Q GAIN MUTATED"      
clus
  11Q GAIN MUTATED 11Q GAIN WILD-TYPE 
                 2                 72 
        TCGA-2G-AAFE         TCGA-2G-AAFG         TCGA-2G-AAFN 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-2G-AAFO         TCGA-2G-AAG6         TCGA-2G-AAG7 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-2G-AAGG         TCGA-2G-AAGI         TCGA-2G-AAGO 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-2G-AAGP         TCGA-2G-AAGS         TCGA-2G-AAGZ 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-2G-AAH0         TCGA-2G-AAHC         TCGA-2G-AAHG 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-2G-AAHL         TCGA-2G-AAKG         TCGA-2G-AAL7 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-2G-AALF         TCGA-2G-AALS         TCGA-2G-AALT 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-2G-AAM4         TCGA-2X-A9D5         TCGA-S6-A8JX 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-SB-A6J6         TCGA-SB-A76C         TCGA-SN-A6IS 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-SN-A84W         TCGA-SN-A84X         TCGA-SN-A84Y 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-VF-A8A9         TCGA-VF-A8AA         TCGA-VF-A8AB 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-VF-A8AC         TCGA-VF-A8AD         TCGA-VF-A8AE 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-W4-A7U4         TCGA-WZ-A7V3         TCGA-WZ-A7V4 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-WZ-A7V5         TCGA-WZ-A8D5         TCGA-X3-A8G4 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-XE-A8H5         TCGA-XE-A9SE         TCGA-XE-AANI 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-XE-AANJ         TCGA-XE-AANR         TCGA-XE-AANV 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-XE-AAO6         TCGA-XE-AAOB         TCGA-XE-AAOC 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-XE-AAOD         TCGA-XE-AAOF         TCGA-XE-AAOJ 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-XY-A89B         TCGA-XY-A8S2         TCGA-XY-A8S3 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-XY-A9T9         TCGA-YU-A90Q         TCGA-YU-A90S 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-YU-A90W         TCGA-YU-A90Y         TCGA-YU-A912 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-YU-A94D         TCGA-YU-AA61         TCGA-ZM-AA05 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-ZM-AA06         TCGA-ZM-AA0B         TCGA-ZM-AA0D 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-ZM-AA0E         TCGA-ZM-AA0F         TCGA-ZM-AA0H 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  11Q GAIN MUTATED        1      0      1
  11Q GAIN WILD-TYPE     43     15     14
D21V6, multiclass
[1] "Remove cluster labels:" "11Q GAIN MUTATED"      
clus
  11Q GAIN MUTATED 11Q GAIN WILD-TYPE 
                 2                 72 
        TCGA-2G-AAFE         TCGA-2G-AAFG         TCGA-2G-AAFN 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-2G-AAFO         TCGA-2G-AAG6         TCGA-2G-AAG7 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-2G-AAGG         TCGA-2G-AAGI         TCGA-2G-AAGO 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-2G-AAGP         TCGA-2G-AAGS         TCGA-2G-AAGZ 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-2G-AAH0         TCGA-2G-AAHC         TCGA-2G-AAHG 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-2G-AAHL         TCGA-2G-AAKG         TCGA-2G-AAL7 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-2G-AALF         TCGA-2G-AALS         TCGA-2G-AALT 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-2G-AAM4         TCGA-2X-A9D5         TCGA-S6-A8JX 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-SB-A6J6         TCGA-SB-A76C         TCGA-SN-A6IS 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-SN-A84W         TCGA-SN-A84X         TCGA-SN-A84Y 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-VF-A8A9         TCGA-VF-A8AA         TCGA-VF-A8AB 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-VF-A8AC         TCGA-VF-A8AD         TCGA-VF-A8AE 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-W4-A7U4         TCGA-WZ-A7V3         TCGA-WZ-A7V4 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-WZ-A7V5         TCGA-WZ-A8D5         TCGA-X3-A8G4 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-XE-A8H5         TCGA-XE-A9SE         TCGA-XE-AANI 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-XE-AANJ         TCGA-XE-AANR         TCGA-XE-AANV 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-XE-AAO6         TCGA-XE-AAOB         TCGA-XE-AAOC 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-XE-AAOD         TCGA-XE-AAOF         TCGA-XE-AAOJ 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-XY-A89B         TCGA-XY-A8S2         TCGA-XY-A8S3 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-XY-A9T9         TCGA-YU-A90Q         TCGA-YU-A90S 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-YU-A90W         TCGA-YU-A90Y         TCGA-YU-A912 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-YU-A94D         TCGA-YU-AA61         TCGA-ZM-AA05 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-ZM-AA06         TCGA-ZM-AA0B         TCGA-ZM-AA0D 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-ZM-AA0E         TCGA-ZM-AA0F         TCGA-ZM-AA0H 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  11Q GAIN MUTATED        0      1      0      1
  11Q GAIN WILD-TYPE     22     12     20     18
D21V7, multiclass
[1] "Remove cluster labels:" "11Q GAIN MUTATED"      
clus
  11Q GAIN MUTATED 11Q GAIN WILD-TYPE 
                 2                 72 
        TCGA-2G-AAFE         TCGA-2G-AAFG         TCGA-2G-AAFN 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-2G-AAFO         TCGA-2G-AAG6         TCGA-2G-AAG7 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-2G-AAGG         TCGA-2G-AAGI         TCGA-2G-AAGO 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-2G-AAGP         TCGA-2G-AAGS         TCGA-2G-AAGZ 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-2G-AAH0         TCGA-2G-AAHC         TCGA-2G-AAHG 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-2G-AAHL         TCGA-2G-AAKG         TCGA-2G-AAL7 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-2G-AALF         TCGA-2G-AALS         TCGA-2G-AALT 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-2G-AAM4         TCGA-2X-A9D5         TCGA-S6-A8JX 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-SB-A6J6         TCGA-SB-A76C         TCGA-SN-A6IS 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-SN-A84W         TCGA-SN-A84X         TCGA-SN-A84Y 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-VF-A8A9         TCGA-VF-A8AA         TCGA-VF-A8AB 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-VF-A8AC         TCGA-VF-A8AD         TCGA-VF-A8AE 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-W4-A7U4         TCGA-WZ-A7V3         TCGA-WZ-A7V4 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-WZ-A7V5         TCGA-WZ-A8D5         TCGA-X3-A8G4 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-XE-A8H5         TCGA-XE-A9SE         TCGA-XE-AANI 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-XE-AANJ         TCGA-XE-AANR         TCGA-XE-AANV 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-XE-AAO6         TCGA-XE-AAOB         TCGA-XE-AAOC 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-XE-AAOD         TCGA-XE-AAOF         TCGA-XE-AAOJ 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-XY-A89B         TCGA-XY-A8S2         TCGA-XY-A8S3 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-XY-A9T9         TCGA-YU-A90Q         TCGA-YU-A90S 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-YU-A90W         TCGA-YU-A90Y         TCGA-YU-A912 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-YU-A94D         TCGA-YU-AA61         TCGA-ZM-AA05 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-ZM-AA06         TCGA-ZM-AA0B         TCGA-ZM-AA0D 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-ZM-AA0E         TCGA-ZM-AA0F         TCGA-ZM-AA0H 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  11Q GAIN MUTATED        0      0      1      1      0      0      0
  11Q GAIN WILD-TYPE     11      8     14     10      5     13     11
D21V8, multiclass
[1] "Remove cluster labels:" "11Q GAIN MUTATED"      
clus
  11Q GAIN MUTATED 11Q GAIN WILD-TYPE 
                 2                 72 
        TCGA-2G-AAFE         TCGA-2G-AAFG         TCGA-2G-AAFN 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-2G-AAFO         TCGA-2G-AAG6         TCGA-2G-AAG7 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-2G-AAGG         TCGA-2G-AAGI         TCGA-2G-AAGO 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-2G-AAGP         TCGA-2G-AAGS         TCGA-2G-AAGZ 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-2G-AAH0         TCGA-2G-AAHC         TCGA-2G-AAHG 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-2G-AAHL         TCGA-2G-AAKG         TCGA-2G-AAL7 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-2G-AALF         TCGA-2G-AALS         TCGA-2G-AALT 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-2G-AAM4         TCGA-2X-A9D5         TCGA-S6-A8JX 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-SB-A6J6         TCGA-SB-A76C         TCGA-SN-A6IS 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-SN-A84W         TCGA-SN-A84X         TCGA-SN-A84Y 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-VF-A8A9         TCGA-VF-A8AA         TCGA-VF-A8AB 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-VF-A8AC         TCGA-VF-A8AD         TCGA-VF-A8AE 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-W4-A7U4         TCGA-WZ-A7V3         TCGA-WZ-A7V4 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-WZ-A7V5         TCGA-WZ-A8D5         TCGA-X3-A8G4 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-XE-A8H5         TCGA-XE-A9SE         TCGA-XE-AANI 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-XE-AANJ         TCGA-XE-AANR         TCGA-XE-AANV 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-XE-AAO6         TCGA-XE-AAOB         TCGA-XE-AAOC 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-XE-AAOD         TCGA-XE-AAOF         TCGA-XE-AAOJ 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-XY-A89B         TCGA-XY-A8S2         TCGA-XY-A8S3 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-XY-A9T9         TCGA-YU-A90Q         TCGA-YU-A90S 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-YU-A90W         TCGA-YU-A90Y         TCGA-YU-A912 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-YU-A94D         TCGA-YU-AA61         TCGA-ZM-AA05 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-ZM-AA06         TCGA-ZM-AA0B         TCGA-ZM-AA0D 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 
        TCGA-ZM-AA0E         TCGA-ZM-AA0F         TCGA-ZM-AA0H 
"11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" "11Q GAIN WILD-TYPE" 

Clustering(22) Variable = 12P GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  12P GAIN MUTATED       45     44     57
  12P GAIN WILD-TYPE      3      0      1
D22V1, multiclass
        clus
vv       12P GAIN MUTATED 12P GAIN WILD-TYPE
  CLUS_1               45                  3
  CLUS_2               44                  0
  CLUS_3               57                  1
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       53     48     45
  12P GAIN WILD-TYPE      3      1      0
D22V2, multiclass
        clus
vv       12P GAIN MUTATED 12P GAIN WILD-TYPE
  CLUS_1               53                  3
  CLUS_2               48                  1
  CLUS_3               45                  0
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  12P GAIN MUTATED       67     40     39
  12P GAIN WILD-TYPE      3      0      1
D22V3, multiclass
        clus
vv       12P GAIN MUTATED 12P GAIN WILD-TYPE
  CLUS_1               67                  3
  CLUS_2               40                  0
  CLUS_3               39                  1
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- 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
  12P GAIN MUTATED       40     27     11     24      8     23     13
  12P GAIN WILD-TYPE      3      0      1      0      0      0      0
D22V4, multiclass
        clus
vv       12P GAIN MUTATED 12P GAIN WILD-TYPE
  CLUS_1               40                  3
  CLUS_2               27                  0
  CLUS_3               11                  1
  CLUS_4               24                  0
  CLUS_5                8                  0
  CLUS_6               23                  0
  CLUS_7               13                  0
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  12P GAIN MUTATED       10     20     16     25
  12P GAIN WILD-TYPE      2      1      0      0
D22V5, multiclass
        clus
vv       12P GAIN MUTATED 12P GAIN WILD-TYPE
  CLUS_1               10                  2
  CLUS_2               20                  1
  CLUS_3               16                  0
  CLUS_4               25                  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
  12P GAIN MUTATED       42     14     15
  12P GAIN WILD-TYPE      2      1      0
D22V6, multiclass
        clus
vv       12P GAIN MUTATED 12P GAIN WILD-TYPE
  CLUS_1               42                  2
  CLUS_2               14                  1
  CLUS_3               15                  0
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  12P GAIN MUTATED       22     13     18     18
  12P GAIN WILD-TYPE      0      0      2      1
D22V7, multiclass
        clus
vv       12P GAIN MUTATED 12P GAIN WILD-TYPE
  CLUS_1               22                  0
  CLUS_2               13                  0
  CLUS_3               18                  2
  CLUS_4               18                  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 CLUS_7
  12P GAIN MUTATED       10      8     14     11      5     13     10
  12P GAIN WILD-TYPE      1      0      1      0      0      0      1
D22V8, multiclass
        clus
vv       12P GAIN MUTATED 12P GAIN WILD-TYPE
  CLUS_1               10                  1
  CLUS_2                8                  0
  CLUS_3               14                  1
  CLUS_4               11                  0
  CLUS_5                5                  0
  CLUS_6               13                  0
  CLUS_7               10                  1
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(23) Variable = 12Q GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  12Q GAIN MUTATED       29     31     40
  12Q GAIN WILD-TYPE     19     13     18
D23V1, multiclass
        clus
vv       12Q GAIN MUTATED 12Q GAIN WILD-TYPE
  CLUS_1               29                 19
  CLUS_2               31                 13
  CLUS_3               40                 18
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  12Q GAIN MUTATED       39     32     29
  12Q GAIN WILD-TYPE     17     17     16
D23V2, multiclass
        clus
vv       12Q GAIN MUTATED 12Q GAIN WILD-TYPE
  CLUS_1               39                 17
  CLUS_2               32                 17
  CLUS_3               29                 16
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       50     28     22
  12Q GAIN WILD-TYPE     20     12     18
D23V3, multiclass
        clus
vv       12Q GAIN MUTATED 12Q GAIN WILD-TYPE
  CLUS_1               50                 20
  CLUS_2               28                 12
  CLUS_3               22                 18
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  12Q GAIN MUTATED       28     22      6     14      6     17      7
  12Q GAIN WILD-TYPE     15      5      6     10      2      6      6
D23V4, multiclass
        clus
vv       12Q GAIN MUTATED 12Q GAIN WILD-TYPE
  CLUS_1               28                 15
  CLUS_2               22                  5
  CLUS_3                6                  6
  CLUS_4               14                 10
  CLUS_5                6                  2
  CLUS_6               17                  6
  CLUS_7                7                  6
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  12Q GAIN MUTATED        5     13      9     18
  12Q GAIN WILD-TYPE      7      8      7      7
D23V5, multiclass
        clus
vv       12Q GAIN MUTATED 12Q GAIN WILD-TYPE
  CLUS_1                5                  7
  CLUS_2               13                  8
  CLUS_3                9                  7
  CLUS_4               18                  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
  12Q GAIN MUTATED       28      9      8
  12Q GAIN WILD-TYPE     16      6      7
D23V6, multiclass
        clus
vv       12Q GAIN MUTATED 12Q GAIN WILD-TYPE
  CLUS_1               28                 16
  CLUS_2                9                  6
  CLUS_3                8                  7
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  12Q GAIN MUTATED       14      8     12     11
  12Q GAIN WILD-TYPE      8      5      8      8
D23V7, multiclass
        clus
vv       12Q GAIN MUTATED 12Q GAIN WILD-TYPE
  CLUS_1               14                  8
  CLUS_2                8                  5
  CLUS_3               12                  8
  CLUS_4               11                  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 CLUS_5 CLUS_6 CLUS_7
  12Q GAIN MUTATED        5      5      9      7      2     10      7
  12Q GAIN WILD-TYPE      6      3      6      4      3      3      4
D23V8, multiclass
        clus
vv       12Q GAIN MUTATED 12Q GAIN WILD-TYPE
  CLUS_1                5                  6
  CLUS_2                5                  3
  CLUS_3                9                  6
  CLUS_4                7                  4
  CLUS_5                2                  3
  CLUS_6               10                  3
  CLUS_7                7                  4
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(24) Variable = 14Q GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  14Q GAIN MUTATED       12     18     21
  14Q GAIN WILD-TYPE     36     26     37
D24V1, multiclass
        clus
vv       14Q GAIN MUTATED 14Q GAIN WILD-TYPE
  CLUS_1               12                 36
  CLUS_2               18                 26
  CLUS_3               21                 37
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       22     12     17
  14Q GAIN WILD-TYPE     34     37     28
D24V2, multiclass
        clus
vv       14Q GAIN MUTATED 14Q GAIN WILD-TYPE
  CLUS_1               22                 34
  CLUS_2               12                 37
  CLUS_3               17                 28
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  14Q GAIN MUTATED       26     11     14
  14Q GAIN WILD-TYPE     44     29     26
D24V3, multiclass
        clus
vv       14Q GAIN MUTATED 14Q GAIN WILD-TYPE
  CLUS_1               26                 44
  CLUS_2               11                 29
  CLUS_3               14                 26
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  14Q GAIN MUTATED       17      9      6      7      2      4      6
  14Q GAIN WILD-TYPE     26     18      6     17      6     19      7
D24V4, multiclass
        clus
vv       14Q GAIN MUTATED 14Q GAIN WILD-TYPE
  CLUS_1               17                 26
  CLUS_2                9                 18
  CLUS_3                6                  6
  CLUS_4                7                 17
  CLUS_5                2                  6
  CLUS_6                4                 19
  CLUS_7                6                  7
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  14Q GAIN MUTATED        3      6      8     10
  14Q GAIN WILD-TYPE      9     15      8     15
D24V5, multiclass
        clus
vv       14Q GAIN MUTATED 14Q GAIN WILD-TYPE
  CLUS_1                3                  9
  CLUS_2                6                 15
  CLUS_3                8                  8
  CLUS_4               10                 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
  14Q GAIN MUTATED       15      5      7
  14Q GAIN WILD-TYPE     29     10      8
D24V6, multiclass
        clus
vv       14Q GAIN MUTATED 14Q GAIN WILD-TYPE
  CLUS_1               15                 29
  CLUS_2                5                 10
  CLUS_3                7                  8
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger 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        8      4      6      9
  14Q GAIN WILD-TYPE     14      9     14     10
D24V7, multiclass
        clus
vv       14Q GAIN MUTATED 14Q GAIN WILD-TYPE
  CLUS_1                8                 14
  CLUS_2                4                  9
  CLUS_3                6                 14
  CLUS_4                9                 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 CLUS_5 CLUS_6 CLUS_7
  14Q GAIN MUTATED        3      4      5      5      2      4      4
  14Q GAIN WILD-TYPE      8      4     10      6      3      9      7
D24V8, multiclass
        clus
vv       14Q GAIN MUTATED 14Q GAIN WILD-TYPE
  CLUS_1                3                  8
  CLUS_2                4                  4
  CLUS_3                5                 10
  CLUS_4                5                  6
  CLUS_5                2                  3
  CLUS_6                4                  9
  CLUS_7                4                  7
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(25) Variable = 15Q GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  15Q GAIN MUTATED       19     19     13
  15Q GAIN WILD-TYPE     29     25     45
D25V1, multiclass
        clus
vv       15Q GAIN MUTATED 15Q GAIN WILD-TYPE
  CLUS_1               19                 29
  CLUS_2               19                 25
  CLUS_3               13                 45
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  15Q GAIN MUTATED       29     11     11
  15Q GAIN WILD-TYPE     27     38     34
D25V2, multiclass
        clus
vv       15Q GAIN MUTATED 15Q GAIN WILD-TYPE
  CLUS_1               29                 27
  CLUS_2               11                 38
  CLUS_3               11                 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
  15Q GAIN MUTATED       38      8      5
  15Q GAIN WILD-TYPE     32     32     35
D25V3, multiclass
        clus
vv       15Q GAIN MUTATED 15Q GAIN WILD-TYPE
  CLUS_1               38                 32
  CLUS_2                8                 32
  CLUS_3                5                 35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  15Q GAIN MUTATED       26     12      1      4      0      7      1
  15Q GAIN WILD-TYPE     17     15     11     20      8     16     12
D25V4, multiclass
        clus
vv       15Q GAIN MUTATED 15Q GAIN WILD-TYPE
  CLUS_1               26                 17
  CLUS_2               12                 15
  CLUS_3                1                 11
  CLUS_4                4                 20
  CLUS_5                0                  8
  CLUS_6                7                 16
  CLUS_7                1                 12
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  15Q GAIN MUTATED        5      8      1     13
  15Q GAIN WILD-TYPE      7     13     15     12
D25V5, multiclass
        clus
vv       15Q GAIN MUTATED 15Q GAIN WILD-TYPE
  CLUS_1                5                  7
  CLUS_2                8                 13
  CLUS_3                1                 15
  CLUS_4               13                 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
  15Q GAIN MUTATED       21      5      1
  15Q GAIN WILD-TYPE     23     10     14
D25V6, multiclass
        clus
vv       15Q GAIN MUTATED 15Q GAIN WILD-TYPE
  CLUS_1               21                 23
  CLUS_2                5                 10
  CLUS_3                1                 14
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger 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      5     11      2
  15Q GAIN WILD-TYPE     13      8      9     17
D25V7, multiclass
        clus
vv       15Q GAIN MUTATED 15Q GAIN WILD-TYPE
  CLUS_1                9                 13
  CLUS_2                5                  8
  CLUS_3               11                  9
  CLUS_4                2                 17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  15Q GAIN MUTATED        5      3      5      0      1      5      8
  15Q GAIN WILD-TYPE      6      5     10     11      4      8      3
D25V8, multiclass
        clus
vv       15Q GAIN MUTATED 15Q GAIN WILD-TYPE
  CLUS_1                5                  6
  CLUS_2                3                  5
  CLUS_3                5                 10
  CLUS_4                0                 11
  CLUS_5                1                  4
  CLUS_6                5                  8
  CLUS_7                8                  3
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(26) Variable = 16P GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  16P GAIN MUTATED        2      2     12
  16P GAIN WILD-TYPE     46     42     46
D26V1, multiclass
        clus
vv       16P GAIN MUTATED 16P GAIN WILD-TYPE
  CLUS_1                2                 46
  CLUS_2                2                 42
  CLUS_3               12                 46
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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 GAIN MUTATED        2      7      7
  16P GAIN WILD-TYPE     54     42     38
D26V2, multiclass
        clus
vv       16P GAIN MUTATED 16P GAIN WILD-TYPE
  CLUS_1                2                 54
  CLUS_2                7                 42
  CLUS_3                7                 38
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  16P GAIN MUTATED        3      3     10
  16P GAIN WILD-TYPE     67     37     30
D26V3, multiclass
        clus
vv       16P GAIN MUTATED 16P GAIN WILD-TYPE
  CLUS_1                3                 67
  CLUS_2                3                 37
  CLUS_3               10                 30
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- 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
  16P GAIN MUTATED        2      1      1      8      0      2      2
  16P GAIN WILD-TYPE     41     26     11     16      8     21     11
D26V4, multiclass
        clus
vv       16P GAIN MUTATED 16P GAIN WILD-TYPE
  CLUS_1                2                 41
  CLUS_2                1                 26
  CLUS_3                1                 11
  CLUS_4                8                 16
  CLUS_5                0                  8
  CLUS_6                2                 21
  CLUS_7                2                 11
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  16P GAIN MUTATED        0      2      4      1
  16P GAIN WILD-TYPE     12     19     12     24
D26V5, multiclass
        clus
vv       16P GAIN MUTATED 16P GAIN WILD-TYPE
  CLUS_1                0                 12
  CLUS_2                2                 19
  CLUS_3                4                 12
  CLUS_4                1                 24
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  16P GAIN MUTATED        1      2      4
  16P GAIN WILD-TYPE     43     13     11
D26V6, multiclass
        clus
vv       16P GAIN MUTATED 16P GAIN WILD-TYPE
  CLUS_1                1                 43
  CLUS_2                2                 13
  CLUS_3                4                 11
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  16P GAIN MUTATED        1      1      0      5
  16P GAIN WILD-TYPE     21     12     20     14
D26V7, multiclass
        clus
vv       16P GAIN MUTATED 16P GAIN WILD-TYPE
  CLUS_1                1                 21
  CLUS_2                1                 12
  CLUS_3                0                 20
  CLUS_4                5                 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 CLUS_5 CLUS_6 CLUS_7
  16P GAIN MUTATED        0      1      2      4      0      0      0
  16P GAIN WILD-TYPE     11      7     13      7      5     13     11
D26V8, multiclass
        clus
vv       16P GAIN MUTATED 16P GAIN WILD-TYPE
  CLUS_1                0                 11
  CLUS_2                1                  7
  CLUS_3                2                 13
  CLUS_4                4                  7
  CLUS_5                0                  5
  CLUS_6                0                 13
  CLUS_7                0                 11
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(27) Variable = 16Q GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  16Q GAIN MUTATED        2      1     11
  16Q GAIN WILD-TYPE     46     43     47
D27V1, multiclass
        clus
vv       16Q GAIN MUTATED 16Q GAIN WILD-TYPE
  CLUS_1                2                 46
  CLUS_2                1                 43
  CLUS_3               11                 47
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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 GAIN MUTATED        2      7      5
  16Q GAIN WILD-TYPE     54     42     40
D27V2, multiclass
        clus
vv       16Q GAIN MUTATED 16Q GAIN WILD-TYPE
  CLUS_1                2                 54
  CLUS_2                7                 42
  CLUS_3                5                 40
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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 GAIN MUTATED        2      4      8
  16Q GAIN WILD-TYPE     68     36     32
D27V3, multiclass
        clus
vv       16Q GAIN MUTATED 16Q GAIN WILD-TYPE
  CLUS_1                2                 68
  CLUS_2                4                 36
  CLUS_3                8                 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 CLUS_5 CLUS_6 CLUS_7
  16Q GAIN MUTATED        1      1      1      6      0      3      2
  16Q GAIN WILD-TYPE     42     26     11     18      8     20     11
D27V4, multiclass
        clus
vv       16Q GAIN MUTATED 16Q GAIN WILD-TYPE
  CLUS_1                1                 42
  CLUS_2                1                 26
  CLUS_3                1                 11
  CLUS_4                6                 18
  CLUS_5                0                  8
  CLUS_6                3                 20
  CLUS_7                2                 11
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  16Q GAIN MUTATED        0      2      4      1
  16Q GAIN WILD-TYPE     12     19     12     24
D27V5, multiclass
        clus
vv       16Q GAIN MUTATED 16Q GAIN WILD-TYPE
  CLUS_1                0                 12
  CLUS_2                2                 19
  CLUS_3                4                 12
  CLUS_4                1                 24
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  16Q GAIN MUTATED        1      2      4
  16Q GAIN WILD-TYPE     43     13     11
D27V6, multiclass
        clus
vv       16Q GAIN MUTATED 16Q GAIN WILD-TYPE
  CLUS_1                1                 43
  CLUS_2                2                 13
  CLUS_3                4                 11
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  16Q GAIN MUTATED        1      1      0      5
  16Q GAIN WILD-TYPE     21     12     20     14
D27V7, multiclass
        clus
vv       16Q GAIN MUTATED 16Q GAIN WILD-TYPE
  CLUS_1                1                 21
  CLUS_2                1                 12
  CLUS_3                0                 20
  CLUS_4                5                 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 CLUS_5 CLUS_6 CLUS_7
  16Q GAIN MUTATED        0      1      2      4      0      0      0
  16Q GAIN WILD-TYPE     11      7     13      7      5     13     11
D27V8, multiclass
        clus
vv       16Q GAIN MUTATED 16Q GAIN WILD-TYPE
  CLUS_1                0                 11
  CLUS_2                1                  7
  CLUS_3                2                 13
  CLUS_4                4                  7
  CLUS_5                0                  5
  CLUS_6                0                 13
  CLUS_7                0                 11
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(28) Variable = 17P GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  17P GAIN MUTATED        9      2     29
  17P GAIN WILD-TYPE     39     42     29
D28V1, multiclass
        clus
vv       17P GAIN MUTATED 17P GAIN WILD-TYPE
  CLUS_1                9                 39
  CLUS_2                2                 42
  CLUS_3               29                 29
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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 GAIN MUTATED        3     23     14
  17P GAIN WILD-TYPE     53     26     31
D28V2, multiclass
        clus
vv       17P GAIN MUTATED 17P GAIN WILD-TYPE
  CLUS_1                3                 53
  CLUS_2               23                 26
  CLUS_3               14                 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
  17P GAIN MUTATED        3     19     18
  17P GAIN WILD-TYPE     67     21     22
D28V3, multiclass
        clus
vv       17P GAIN MUTATED 17P GAIN WILD-TYPE
  CLUS_1                3                 67
  CLUS_2               19                 21
  CLUS_3               18                 22
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- 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
  17P GAIN MUTATED        2      1      5     11      4     12      5
  17P GAIN WILD-TYPE     41     26      7     13      4     11      8
D28V4, multiclass
        clus
vv       17P GAIN MUTATED 17P GAIN WILD-TYPE
  CLUS_1                2                 41
  CLUS_2                1                 26
  CLUS_3                5                  7
  CLUS_4               11                 13
  CLUS_5                4                  4
  CLUS_6               12                 11
  CLUS_7                5                  8
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  17P GAIN MUTATED        1      9      7      1
  17P GAIN WILD-TYPE     11     12      9     24
D28V5, multiclass
        clus
vv       17P GAIN MUTATED 17P GAIN WILD-TYPE
  CLUS_1                1                 11
  CLUS_2                9                 12
  CLUS_3                7                  9
  CLUS_4                1                 24
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  17P GAIN MUTATED        4      8      6
  17P GAIN WILD-TYPE     40      7      9
D28V6, multiclass
        clus
vv       17P GAIN MUTATED 17P GAIN WILD-TYPE
  CLUS_1                4                 40
  CLUS_2                8                  7
  CLUS_3                6                  9
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  17P GAIN MUTATED        1      7      2      8
  17P GAIN WILD-TYPE     21      6     18     11
D28V7, multiclass
        clus
vv       17P GAIN MUTATED 17P GAIN WILD-TYPE
  CLUS_1                1                 21
  CLUS_2                7                  6
  CLUS_3                2                 18
  CLUS_4                8                 11
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  17P GAIN MUTATED        1      0      9      5      1      1      1
  17P GAIN WILD-TYPE     10      8      6      6      4     12     10
D28V8, multiclass
        clus
vv       17P GAIN MUTATED 17P GAIN WILD-TYPE
  CLUS_1                1                 10
  CLUS_2                0                  8
  CLUS_3                9                  6
  CLUS_4                5                  6
  CLUS_5                1                  4
  CLUS_6                1                 12
  CLUS_7                1                 10
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(29) Variable = 17Q GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  17Q GAIN MUTATED       13      7     31
  17Q GAIN WILD-TYPE     35     37     27
D29V1, multiclass
        clus
vv       17Q GAIN MUTATED 17Q GAIN WILD-TYPE
  CLUS_1               13                 35
  CLUS_2                7                 37
  CLUS_3               31                 27
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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        8     27     16
  17Q GAIN WILD-TYPE     48     22     29
D29V2, multiclass
        clus
vv       17Q GAIN MUTATED 17Q GAIN WILD-TYPE
  CLUS_1                8                 48
  CLUS_2               27                 22
  CLUS_3               16                 29
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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        7     23     21
  17Q GAIN WILD-TYPE     63     17     19
D29V3, multiclass
        clus
vv       17Q GAIN MUTATED 17Q GAIN WILD-TYPE
  CLUS_1                7                 63
  CLUS_2               23                 17
  CLUS_3               21                 19
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  17Q GAIN MUTATED        4      3      6     13      4     15      6
  17Q GAIN WILD-TYPE     39     24      6     11      4      8      7
D29V4, multiclass
        clus
vv       17Q GAIN MUTATED 17Q GAIN WILD-TYPE
  CLUS_1                4                 39
  CLUS_2                3                 24
  CLUS_3                6                  6
  CLUS_4               13                 11
  CLUS_5                4                  4
  CLUS_6               15                  8
  CLUS_7                6                  7
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  17Q GAIN MUTATED        1     11     10      3
  17Q GAIN WILD-TYPE     11     10      6     22
D29V5, multiclass
        clus
vv       17Q GAIN MUTATED 17Q GAIN WILD-TYPE
  CLUS_1                1                 11
  CLUS_2               11                 10
  CLUS_3               10                  6
  CLUS_4                3                 22
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  17Q GAIN MUTATED        7      9      9
  17Q GAIN WILD-TYPE     37      6      6
D29V6, multiclass
        clus
vv       17Q GAIN MUTATED 17Q GAIN WILD-TYPE
  CLUS_1                7                 37
  CLUS_2                9                  6
  CLUS_3                9                  6
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger 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      9      3     11
  17Q GAIN WILD-TYPE     20      4     17      8
D29V7, multiclass
        clus
vv       17Q GAIN MUTATED 17Q GAIN WILD-TYPE
  CLUS_1                2                 20
  CLUS_2                9                  4
  CLUS_3                3                 17
  CLUS_4               11                  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 CLUS_5 CLUS_6 CLUS_7
  17Q GAIN MUTATED        1      2     10      6      3      1      2
  17Q GAIN WILD-TYPE     10      6      5      5      2     12      9
D29V8, multiclass
        clus
vv       17Q GAIN MUTATED 17Q GAIN WILD-TYPE
  CLUS_1                1                 10
  CLUS_2                2                  6
  CLUS_3               10                  5
  CLUS_4                6                  5
  CLUS_5                3                  2
  CLUS_6                1                 12
  CLUS_7                2                  9
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(30) Variable = 18P GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  18P GAIN MUTATED        1      2      1
  18P GAIN WILD-TYPE     47     42     57
D30V1, multiclass
        clus
vv       18P GAIN MUTATED 18P GAIN WILD-TYPE
  CLUS_1                1                 47
  CLUS_2                2                 42
  CLUS_3                1                 57
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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        0      1      3
  18P GAIN WILD-TYPE     56     48     42
D30V2, multiclass
        clus
vv       18P GAIN MUTATED 18P GAIN WILD-TYPE
  CLUS_1                0                 56
  CLUS_2                1                 48
  CLUS_3                3                 42
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  18P GAIN MUTATED        2      0      2
  18P GAIN WILD-TYPE     68     40     38
D30V3, multiclass
        clus
vv       18P GAIN MUTATED 18P GAIN WILD-TYPE
  CLUS_1                2                 68
  CLUS_2                0                 40
  CLUS_3                2                 38
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  18P GAIN MUTATED        1      1      0      2      0      0      0
  18P GAIN WILD-TYPE     42     26     12     22      8     23     13
D30V4, multiclass
        clus
vv       18P GAIN MUTATED 18P GAIN WILD-TYPE
  CLUS_1                1                 42
  CLUS_2                1                 26
  CLUS_3                0                 12
  CLUS_4                2                 22
  CLUS_5                0                  8
  CLUS_6                0                 23
  CLUS_7                0                 13
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  18P GAIN MUTATED        0      0      1      0
  18P GAIN WILD-TYPE     12     21     15     25
D30V5, multiclass
[1] "Remove cluster labels:" "18P GAIN MUTATED"      
clus
  18P GAIN MUTATED 18P GAIN WILD-TYPE 
                 1                 73 
        TCGA-2G-AAFE         TCGA-2G-AAFG         TCGA-2G-AAFN 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-2G-AAFO         TCGA-2G-AAG6         TCGA-2G-AAG7 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-2G-AAGG         TCGA-2G-AAGI         TCGA-2G-AAGO 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-2G-AAGS         TCGA-2G-AAGZ         TCGA-2G-AAH0 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-2G-AAHC         TCGA-2G-AAHG         TCGA-2G-AAHL 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-2G-AAKG         TCGA-2G-AAKH         TCGA-2G-AAL7 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-2G-AALF         TCGA-2G-AALS         TCGA-2G-AALT 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-2G-AAM4         TCGA-2X-A9D5         TCGA-S6-A8JX 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-SB-A6J6         TCGA-SB-A76C         TCGA-SN-A6IS 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-SN-A84W         TCGA-SN-A84X         TCGA-SN-A84Y 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-VF-A8A9         TCGA-VF-A8AA         TCGA-VF-A8AB 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-VF-A8AC         TCGA-VF-A8AD         TCGA-VF-A8AE 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-W4-A7U4         TCGA-WZ-A7V3         TCGA-WZ-A7V4 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-WZ-A7V5         TCGA-WZ-A8D5         TCGA-X3-A8G4 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-XE-A8H5         TCGA-XE-A9SE         TCGA-XE-AANI 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-XE-AANJ         TCGA-XE-AANR         TCGA-XE-AANV 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-XE-AAO6         TCGA-XE-AAOB         TCGA-XE-AAOC 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-XE-AAOD         TCGA-XE-AAOF         TCGA-XE-AAOJ 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-XY-A89B         TCGA-XY-A8S2         TCGA-XY-A8S3 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-XY-A9T9         TCGA-YU-A90Q         TCGA-YU-A90S 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-YU-A90W         TCGA-YU-A90Y         TCGA-YU-A912 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-YU-A94D         TCGA-YU-A94I         TCGA-YU-AA61 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-ZM-AA05         TCGA-ZM-AA06         TCGA-ZM-AA0B 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-ZM-AA0D         TCGA-ZM-AA0E         TCGA-ZM-AA0F 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-ZM-AA0H 
"18P GAIN WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  18P GAIN MUTATED        0      0      1
  18P GAIN WILD-TYPE     44     15     14
D30V6, multiclass
[1] "Remove cluster labels:" "18P GAIN MUTATED"      
clus
  18P GAIN MUTATED 18P GAIN WILD-TYPE 
                 1                 73 
        TCGA-2G-AAFE         TCGA-2G-AAFG         TCGA-2G-AAFN 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-2G-AAFO         TCGA-2G-AAG6         TCGA-2G-AAG7 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-2G-AAGG         TCGA-2G-AAGI         TCGA-2G-AAGO 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-2G-AAGS         TCGA-2G-AAGZ         TCGA-2G-AAH0 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-2G-AAHC         TCGA-2G-AAHG         TCGA-2G-AAHL 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-2G-AAKG         TCGA-2G-AAKH         TCGA-2G-AAL7 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-2G-AALF         TCGA-2G-AALS         TCGA-2G-AALT 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-2G-AAM4         TCGA-2X-A9D5         TCGA-S6-A8JX 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-SB-A6J6         TCGA-SB-A76C         TCGA-SN-A6IS 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-SN-A84W         TCGA-SN-A84X         TCGA-SN-A84Y 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-VF-A8A9         TCGA-VF-A8AA         TCGA-VF-A8AB 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-VF-A8AC         TCGA-VF-A8AD         TCGA-VF-A8AE 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-W4-A7U4         TCGA-WZ-A7V3         TCGA-WZ-A7V4 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-WZ-A7V5         TCGA-WZ-A8D5         TCGA-X3-A8G4 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-XE-A8H5         TCGA-XE-A9SE         TCGA-XE-AANI 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-XE-AANJ         TCGA-XE-AANR         TCGA-XE-AANV 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-XE-AAO6         TCGA-XE-AAOB         TCGA-XE-AAOC 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-XE-AAOD         TCGA-XE-AAOF         TCGA-XE-AAOJ 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-XY-A89B         TCGA-XY-A8S2         TCGA-XY-A8S3 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-XY-A9T9         TCGA-YU-A90Q         TCGA-YU-A90S 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-YU-A90W         TCGA-YU-A90Y         TCGA-YU-A912 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-YU-A94D         TCGA-YU-A94I         TCGA-YU-AA61 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-ZM-AA05         TCGA-ZM-AA06         TCGA-ZM-AA0B 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-ZM-AA0D         TCGA-ZM-AA0E         TCGA-ZM-AA0F 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-ZM-AA0H 
"18P GAIN WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  18P GAIN MUTATED        0      0      0      1
  18P GAIN WILD-TYPE     22     13     20     18
D30V7, multiclass
[1] "Remove cluster labels:" "18P GAIN MUTATED"      
clus
  18P GAIN MUTATED 18P GAIN WILD-TYPE 
                 1                 73 
        TCGA-2G-AAFE         TCGA-2G-AAFG         TCGA-2G-AAFN 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-2G-AAFO         TCGA-2G-AAG6         TCGA-2G-AAG7 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-2G-AAGG         TCGA-2G-AAGI         TCGA-2G-AAGO 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-2G-AAGS         TCGA-2G-AAGZ         TCGA-2G-AAH0 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-2G-AAHC         TCGA-2G-AAHG         TCGA-2G-AAHL 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-2G-AAKG         TCGA-2G-AAKH         TCGA-2G-AAL7 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-2G-AALF         TCGA-2G-AALS         TCGA-2G-AALT 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-2G-AAM4         TCGA-2X-A9D5         TCGA-S6-A8JX 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-SB-A6J6         TCGA-SB-A76C         TCGA-SN-A6IS 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-SN-A84W         TCGA-SN-A84X         TCGA-SN-A84Y 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-VF-A8A9         TCGA-VF-A8AA         TCGA-VF-A8AB 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-VF-A8AC         TCGA-VF-A8AD         TCGA-VF-A8AE 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-W4-A7U4         TCGA-WZ-A7V3         TCGA-WZ-A7V4 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-WZ-A7V5         TCGA-WZ-A8D5         TCGA-X3-A8G4 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-XE-A8H5         TCGA-XE-A9SE         TCGA-XE-AANI 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-XE-AANJ         TCGA-XE-AANR         TCGA-XE-AANV 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-XE-AAO6         TCGA-XE-AAOB         TCGA-XE-AAOC 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-XE-AAOD         TCGA-XE-AAOF         TCGA-XE-AAOJ 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-XY-A89B         TCGA-XY-A8S2         TCGA-XY-A8S3 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-XY-A9T9         TCGA-YU-A90Q         TCGA-YU-A90S 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-YU-A90W         TCGA-YU-A90Y         TCGA-YU-A912 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-YU-A94D         TCGA-YU-A94I         TCGA-YU-AA61 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-ZM-AA05         TCGA-ZM-AA06         TCGA-ZM-AA0B 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-ZM-AA0D         TCGA-ZM-AA0E         TCGA-ZM-AA0F 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-ZM-AA0H 
"18P GAIN WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  18P GAIN MUTATED        0      0      0      1      0      0      0
  18P GAIN WILD-TYPE     11      8     15     10      5     13     11
D30V8, multiclass
[1] "Remove cluster labels:" "18P GAIN MUTATED"      
clus
  18P GAIN MUTATED 18P GAIN WILD-TYPE 
                 1                 73 
        TCGA-2G-AAFE         TCGA-2G-AAFG         TCGA-2G-AAFN 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-2G-AAFO         TCGA-2G-AAG6         TCGA-2G-AAG7 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-2G-AAGG         TCGA-2G-AAGI         TCGA-2G-AAGO 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-2G-AAGS         TCGA-2G-AAGZ         TCGA-2G-AAH0 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-2G-AAHC         TCGA-2G-AAHG         TCGA-2G-AAHL 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-2G-AAKG         TCGA-2G-AAKH         TCGA-2G-AAL7 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-2G-AALF         TCGA-2G-AALS         TCGA-2G-AALT 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-2G-AAM4         TCGA-2X-A9D5         TCGA-S6-A8JX 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-SB-A6J6         TCGA-SB-A76C         TCGA-SN-A6IS 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-SN-A84W         TCGA-SN-A84X         TCGA-SN-A84Y 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-VF-A8A9         TCGA-VF-A8AA         TCGA-VF-A8AB 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-VF-A8AC         TCGA-VF-A8AD         TCGA-VF-A8AE 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-W4-A7U4         TCGA-WZ-A7V3         TCGA-WZ-A7V4 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-WZ-A7V5         TCGA-WZ-A8D5         TCGA-X3-A8G4 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-XE-A8H5         TCGA-XE-A9SE         TCGA-XE-AANI 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-XE-AANJ         TCGA-XE-AANR         TCGA-XE-AANV 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-XE-AAO6         TCGA-XE-AAOB         TCGA-XE-AAOC 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-XE-AAOD         TCGA-XE-AAOF         TCGA-XE-AAOJ 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-XY-A89B         TCGA-XY-A8S2         TCGA-XY-A8S3 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-XY-A9T9         TCGA-YU-A90Q         TCGA-YU-A90S 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-YU-A90W         TCGA-YU-A90Y         TCGA-YU-A912 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-YU-A94D         TCGA-YU-A94I         TCGA-YU-AA61 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-ZM-AA05         TCGA-ZM-AA06         TCGA-ZM-AA0B 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-ZM-AA0D         TCGA-ZM-AA0E         TCGA-ZM-AA0F 
"18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" "18P GAIN WILD-TYPE" 
        TCGA-ZM-AA0H 
"18P GAIN WILD-TYPE" 

Clustering(31) Variable = 19P GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  19P GAIN MUTATED        8     18     10
  19P GAIN WILD-TYPE     40     26     48
D31V1, multiclass
        clus
vv       19P GAIN MUTATED 19P GAIN WILD-TYPE
  CLUS_1                8                 40
  CLUS_2               18                 26
  CLUS_3               10                 48
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  19P GAIN MUTATED       23      3     10
  19P GAIN WILD-TYPE     33     46     35
D31V2, multiclass
        clus
vv       19P GAIN MUTATED 19P GAIN WILD-TYPE
  CLUS_1               23                 33
  CLUS_2                3                 46
  CLUS_3               10                 35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  19P GAIN MUTATED       28      3      5
  19P GAIN WILD-TYPE     42     37     35
D31V3, multiclass
        clus
vv       19P GAIN MUTATED 19P GAIN WILD-TYPE
  CLUS_1               28                 42
  CLUS_2                3                 37
  CLUS_3                5                 35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  19P GAIN MUTATED       14     14      0      4      0      3      1
  19P GAIN WILD-TYPE     29     13     12     20      8     20     12
D31V4, multiclass
        clus
vv       19P GAIN MUTATED 19P GAIN WILD-TYPE
  CLUS_1               14                 29
  CLUS_2               14                 13
  CLUS_3                0                 12
  CLUS_4                4                 20
  CLUS_5                0                  8
  CLUS_6                3                 20
  CLUS_7                1                 12
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  19P GAIN MUTATED        2      2      5     12
  19P GAIN WILD-TYPE     10     19     11     13
D31V5, multiclass
        clus
vv       19P GAIN MUTATED 19P GAIN WILD-TYPE
  CLUS_1                2                 10
  CLUS_2                2                 19
  CLUS_3                5                 11
  CLUS_4               12                 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
  19P GAIN MUTATED       16      1      4
  19P GAIN WILD-TYPE     28     14     11
D31V6, multiclass
        clus
vv       19P GAIN MUTATED 19P GAIN WILD-TYPE
  CLUS_1               16                 28
  CLUS_2                1                 14
  CLUS_3                4                 11
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  19P GAIN MUTATED        9      2      6      4
  19P GAIN WILD-TYPE     13     11     14     15
D31V7, multiclass
        clus
vv       19P GAIN MUTATED 19P GAIN WILD-TYPE
  CLUS_1                9                 13
  CLUS_2                2                 11
  CLUS_3                6                 14
  CLUS_4                4                 15
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  19P GAIN MUTATED        3      3      1      2      2      6      4
  19P GAIN WILD-TYPE      8      5     14      9      3      7      7
D31V8, multiclass
        clus
vv       19P GAIN MUTATED 19P GAIN WILD-TYPE
  CLUS_1                3                  8
  CLUS_2                3                  5
  CLUS_3                1                 14
  CLUS_4                2                  9
  CLUS_5                2                  3
  CLUS_6                6                  7
  CLUS_7                4                  7
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(32) Variable = 19Q GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  19Q GAIN MUTATED        7     15      7
  19Q GAIN WILD-TYPE     41     29     51
D32V1, multiclass
        clus
vv       19Q GAIN MUTATED 19Q GAIN WILD-TYPE
  CLUS_1                7                 41
  CLUS_2               15                 29
  CLUS_3                7                 51
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  19Q GAIN MUTATED       20      2      7
  19Q GAIN WILD-TYPE     36     47     38
D32V2, multiclass
        clus
vv       19Q GAIN MUTATED 19Q GAIN WILD-TYPE
  CLUS_1               20                 36
  CLUS_2                2                 47
  CLUS_3                7                 38
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  19Q GAIN MUTATED       24      1      4
  19Q GAIN WILD-TYPE     46     39     36
D32V3, multiclass
        clus
vv       19Q GAIN MUTATED 19Q GAIN WILD-TYPE
  CLUS_1               24                 46
  CLUS_2                1                 39
  CLUS_3                4                 36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  19Q GAIN MUTATED       11     13      0      3      0      1      1
  19Q GAIN WILD-TYPE     32     14     12     21      8     22     12
D32V4, multiclass
        clus
vv       19Q GAIN MUTATED 19Q GAIN WILD-TYPE
  CLUS_1               11                 32
  CLUS_2               13                 14
  CLUS_3                0                 12
  CLUS_4                3                 21
  CLUS_5                0                  8
  CLUS_6                1                 22
  CLUS_7                1                 12
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  19Q GAIN MUTATED        2      2      3      9
  19Q GAIN WILD-TYPE     10     19     13     16
D32V5, multiclass
        clus
vv       19Q GAIN MUTATED 19Q GAIN WILD-TYPE
  CLUS_1                2                 10
  CLUS_2                2                 19
  CLUS_3                3                 13
  CLUS_4                9                 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
  19Q GAIN MUTATED       13      0      3
  19Q GAIN WILD-TYPE     31     15     12
D32V6, multiclass
        clus
vv       19Q GAIN MUTATED 19Q GAIN WILD-TYPE
  CLUS_1               13                 31
  CLUS_2                0                 15
  CLUS_3                3                 12
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger 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        7      1      5      3
  19Q GAIN WILD-TYPE     15     12     15     16
D32V7, multiclass
        clus
vv       19Q GAIN MUTATED 19Q GAIN WILD-TYPE
  CLUS_1                7                 15
  CLUS_2                1                 12
  CLUS_3                5                 15
  CLUS_4                3                 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 CLUS_5 CLUS_6 CLUS_7
  19Q GAIN MUTATED        3      3      0      2      1      4      3
  19Q GAIN WILD-TYPE      8      5     15      9      4      9      8
D32V8, multiclass
        clus
vv       19Q GAIN MUTATED 19Q GAIN WILD-TYPE
  CLUS_1                3                  8
  CLUS_2                3                  5
  CLUS_3                0                 15
  CLUS_4                2                  9
  CLUS_5                1                  4
  CLUS_6                4                  9
  CLUS_7                3                  8
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(33) Variable = 20P GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  20P GAIN MUTATED        5      8     21
  20P GAIN WILD-TYPE     43     36     37
D33V1, multiclass
        clus
vv       20P GAIN MUTATED 20P GAIN WILD-TYPE
  CLUS_1                5                 43
  CLUS_2                8                 36
  CLUS_3               21                 37
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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        8     12     14
  20P GAIN WILD-TYPE     48     37     31
D33V2, multiclass
        clus
vv       20P GAIN MUTATED 20P GAIN WILD-TYPE
  CLUS_1                8                 48
  CLUS_2               12                 37
  CLUS_3               14                 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
  20P GAIN MUTATED       12      7     15
  20P GAIN WILD-TYPE     58     33     25
D33V3, multiclass
        clus
vv       20P GAIN MUTATED 20P GAIN WILD-TYPE
  CLUS_1               12                 58
  CLUS_2                7                 33
  CLUS_3               15                 25
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  20P GAIN MUTATED        8      4      3      8      1      4      6
  20P GAIN WILD-TYPE     35     23      9     16      7     19      7
D33V4, multiclass
        clus
vv       20P GAIN MUTATED 20P GAIN WILD-TYPE
  CLUS_1                8                 35
  CLUS_2                4                 23
  CLUS_3                3                  9
  CLUS_4                8                 16
  CLUS_5                1                  7
  CLUS_6                4                 19
  CLUS_7                6                  7
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  20P GAIN MUTATED        0      4      6      6
  20P GAIN WILD-TYPE     12     17     10     19
D33V5, multiclass
        clus
vv       20P GAIN MUTATED 20P GAIN WILD-TYPE
  CLUS_1                0                 12
  CLUS_2                4                 17
  CLUS_3                6                 10
  CLUS_4                6                 19
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  20P GAIN MUTATED        6      4      6
  20P GAIN WILD-TYPE     38     11      9
D33V6, multiclass
        clus
vv       20P GAIN MUTATED 20P GAIN WILD-TYPE
  CLUS_1                6                 38
  CLUS_2                4                 11
  CLUS_3                6                  9
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  20P GAIN MUTATED        4      2      2      8
  20P GAIN WILD-TYPE     18     11     18     11
D33V7, multiclass
        clus
vv       20P GAIN MUTATED 20P GAIN WILD-TYPE
  CLUS_1                4                 18
  CLUS_2                2                 11
  CLUS_3                2                 18
  CLUS_4                8                 11
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  20P GAIN MUTATED        0      1      4      5      1      3      2
  20P GAIN WILD-TYPE     11      7     11      6      4     10      9
D33V8, multiclass
        clus
vv       20P GAIN MUTATED 20P GAIN WILD-TYPE
  CLUS_1                0                 11
  CLUS_2                1                  7
  CLUS_3                4                 11
  CLUS_4                5                  6
  CLUS_5                1                  4
  CLUS_6                3                 10
  CLUS_7                2                  9
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(34) Variable = 20Q GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  20Q GAIN MUTATED        8      8     24
  20Q GAIN WILD-TYPE     40     36     34
D34V1, multiclass
        clus
vv       20Q GAIN MUTATED 20Q GAIN WILD-TYPE
  CLUS_1                8                 40
  CLUS_2                8                 36
  CLUS_3               24                 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
  20Q GAIN MUTATED        7     16     17
  20Q GAIN WILD-TYPE     49     33     28
D34V2, multiclass
        clus
vv       20Q GAIN MUTATED 20Q GAIN WILD-TYPE
  CLUS_1                7                 49
  CLUS_2               16                 33
  CLUS_3               17                 28
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  20Q GAIN MUTATED       12     10     18
  20Q GAIN WILD-TYPE     58     30     22
D34V3, multiclass
        clus
vv       20Q GAIN MUTATED 20Q GAIN WILD-TYPE
  CLUS_1               12                 58
  CLUS_2               10                 30
  CLUS_3               18                 22
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- 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
  20Q GAIN MUTATED        8      4      3      9      2      6      8
  20Q GAIN WILD-TYPE     35     23      9     15      6     17      5
D34V4, multiclass
        clus
vv       20Q GAIN MUTATED 20Q GAIN WILD-TYPE
  CLUS_1                8                 35
  CLUS_2                4                 23
  CLUS_3                3                  9
  CLUS_4                9                 15
  CLUS_5                2                  6
  CLUS_6                6                 17
  CLUS_7                8                  5
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  20Q GAIN MUTATED        0      5      7      6
  20Q GAIN WILD-TYPE     12     16      9     19
D34V5, multiclass
        clus
vv       20Q GAIN MUTATED 20Q GAIN WILD-TYPE
  CLUS_1                0                 12
  CLUS_2                5                 16
  CLUS_3                7                  9
  CLUS_4                6                 19
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  20Q GAIN MUTATED        7      5      6
  20Q GAIN WILD-TYPE     37     10      9
D34V6, multiclass
        clus
vv       20Q GAIN MUTATED 20Q GAIN WILD-TYPE
  CLUS_1                7                 37
  CLUS_2                5                 10
  CLUS_3                6                  9
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  20Q GAIN MUTATED        4      4      2      8
  20Q GAIN WILD-TYPE     18      9     18     11
D34V7, multiclass
        clus
vv       20Q GAIN MUTATED 20Q GAIN WILD-TYPE
  CLUS_1                4                 18
  CLUS_2                4                  9
  CLUS_3                2                 18
  CLUS_4                8                 11
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  20Q GAIN MUTATED        0      1      6      5      1      3      2
  20Q GAIN WILD-TYPE     11      7      9      6      4     10      9
D34V8, multiclass
        clus
vv       20Q GAIN MUTATED 20Q GAIN WILD-TYPE
  CLUS_1                0                 11
  CLUS_2                1                  7
  CLUS_3                6                  9
  CLUS_4                5                  6
  CLUS_5                1                  4
  CLUS_6                3                 10
  CLUS_7                2                  9
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(35) Variable = 21Q GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  21Q GAIN MUTATED       37     38     50
  21Q GAIN WILD-TYPE     11      6      8
D35V1, multiclass
        clus
vv       21Q GAIN MUTATED 21Q GAIN WILD-TYPE
  CLUS_1               37                 11
  CLUS_2               38                  6
  CLUS_3               50                  8
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       50     38     37
  21Q GAIN WILD-TYPE      6     11      8
D35V2, multiclass
        clus
vv       21Q GAIN MUTATED 21Q GAIN WILD-TYPE
  CLUS_1               50                  6
  CLUS_2               38                 11
  CLUS_3               37                  8
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       63     30     32
  21Q GAIN WILD-TYPE      7     10      8
D35V3, multiclass
        clus
vv       21Q GAIN MUTATED 21Q GAIN WILD-TYPE
  CLUS_1               63                  7
  CLUS_2               30                 10
  CLUS_3               32                  8
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- 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
  21Q GAIN MUTATED       39     24      8     19      5     19     11
  21Q GAIN WILD-TYPE      4      3      4      5      3      4      2
D35V4, multiclass
        clus
vv       21Q GAIN MUTATED 21Q GAIN WILD-TYPE
  CLUS_1               39                  4
  CLUS_2               24                  3
  CLUS_3                8                  4
  CLUS_4               19                  5
  CLUS_5                5                  3
  CLUS_6               19                  4
  CLUS_7               11                  2
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  21Q GAIN MUTATED        9     15     14     24
  21Q GAIN WILD-TYPE      3      6      2      1
D35V5, multiclass
        clus
vv       21Q GAIN MUTATED 21Q GAIN WILD-TYPE
  CLUS_1                9                  3
  CLUS_2               15                  6
  CLUS_3               14                  2
  CLUS_4               24                  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
  21Q GAIN MUTATED       39     10     13
  21Q GAIN WILD-TYPE      5      5      2
D35V6, multiclass
        clus
vv       21Q GAIN MUTATED 21Q GAIN WILD-TYPE
  CLUS_1               39                  5
  CLUS_2               10                  5
  CLUS_3               13                  2
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger 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       20      9     17     16
  21Q GAIN WILD-TYPE      2      4      3      3
D35V7, multiclass
        clus
vv       21Q GAIN MUTATED 21Q GAIN WILD-TYPE
  CLUS_1               20                  2
  CLUS_2                9                  4
  CLUS_3               17                  3
  CLUS_4               16                  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 CLUS_5 CLUS_6 CLUS_7
  21Q GAIN MUTATED       10      6     10      9      5     13      9
  21Q GAIN WILD-TYPE      1      2      5      2      0      0      2
D35V8, multiclass
        clus
vv       21Q GAIN MUTATED 21Q GAIN WILD-TYPE
  CLUS_1               10                  1
  CLUS_2                6                  2
  CLUS_3               10                  5
  CLUS_4                9                  2
  CLUS_5                5                  0
  CLUS_6               13                  0
  CLUS_7                9                  2
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(36) Variable = 22Q GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  22Q GAIN MUTATED        9     23      6
  22Q GAIN WILD-TYPE     39     21     52
D36V1, multiclass
        clus
vv       22Q GAIN MUTATED 22Q GAIN WILD-TYPE
  CLUS_1                9                 39
  CLUS_2               23                 21
  CLUS_3                6                 52
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  22Q GAIN MUTATED       21      4     13
  22Q GAIN WILD-TYPE     35     45     32
D36V2, multiclass
        clus
vv       22Q GAIN MUTATED 22Q GAIN WILD-TYPE
  CLUS_1               21                 35
  CLUS_2                4                 45
  CLUS_3               13                 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
  22Q GAIN MUTATED       30      3      5
  22Q GAIN WILD-TYPE     40     37     35
D36V3, multiclass
        clus
vv       22Q GAIN MUTATED 22Q GAIN WILD-TYPE
  CLUS_1               30                 40
  CLUS_2                3                 37
  CLUS_3                5                 35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  22Q GAIN MUTATED       11     19      1      4      1      1      1
  22Q GAIN WILD-TYPE     32      8     11     20      7     22     12
D36V4, multiclass
        clus
vv       22Q GAIN MUTATED 22Q GAIN WILD-TYPE
  CLUS_1               11                 32
  CLUS_2               19                  8
  CLUS_3                1                 11
  CLUS_4                4                 20
  CLUS_5                1                  7
  CLUS_6                1                 22
  CLUS_7                1                 12
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  22Q GAIN MUTATED        1      5      1     10
  22Q GAIN WILD-TYPE     11     16     15     15
D36V5, multiclass
        clus
vv       22Q GAIN MUTATED 22Q GAIN WILD-TYPE
  CLUS_1                1                 11
  CLUS_2                5                 16
  CLUS_3                1                 15
  CLUS_4               10                 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
  22Q GAIN MUTATED       16      0      1
  22Q GAIN WILD-TYPE     28     15     14
D36V6, multiclass
        clus
vv       22Q GAIN MUTATED 22Q GAIN WILD-TYPE
  CLUS_1               16                 28
  CLUS_2                0                 15
  CLUS_3                1                 14
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger 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       10      2      4      1
  22Q GAIN WILD-TYPE     12     11     16     18
D36V7, multiclass
        clus
vv       22Q GAIN MUTATED 22Q GAIN WILD-TYPE
  CLUS_1               10                 12
  CLUS_2                2                 11
  CLUS_3                4                 16
  CLUS_4                1                 18
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  22Q GAIN MUTATED        1      6      1      1      0      6      2
  22Q GAIN WILD-TYPE     10      2     14     10      5      7      9
D36V8, multiclass
        clus
vv       22Q GAIN MUTATED 22Q GAIN WILD-TYPE
  CLUS_1                1                 10
  CLUS_2                6                  2
  CLUS_3                1                 14
  CLUS_4                1                 10
  CLUS_5                0                  5
  CLUS_6                6                  7
  CLUS_7                2                  9
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(37) Variable = XQ GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  XQ GAIN MUTATED        4      2     16
  XQ GAIN WILD-TYPE     44     42     42
D37V1, multiclass
        clus
vv       XQ GAIN MUTATED XQ GAIN WILD-TYPE
  CLUS_1               4                44
  CLUS_2               2                42
  CLUS_3              16                42
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  XQ GAIN MUTATED        3      8     11
  XQ GAIN WILD-TYPE     53     41     34
D37V2, multiclass
        clus
vv       XQ GAIN MUTATED XQ GAIN WILD-TYPE
  CLUS_1               3                53
  CLUS_2               8                41
  CLUS_3              11                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
  XQ GAIN MUTATED        3      7     12
  XQ GAIN WILD-TYPE     67     33     28
D37V3, multiclass
        clus
vv       XQ GAIN MUTATED XQ GAIN WILD-TYPE
  CLUS_1               3                67
  CLUS_2               7                33
  CLUS_3              12                28
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  XQ GAIN MUTATED        2      1      2      7      0      5      5
  XQ GAIN WILD-TYPE     41     26     10     17      8     18      8
D37V4, multiclass
        clus
vv       XQ GAIN MUTATED XQ GAIN WILD-TYPE
  CLUS_1               2                41
  CLUS_2               1                26
  CLUS_3               2                10
  CLUS_4               7                17
  CLUS_5               0                 8
  CLUS_6               5                18
  CLUS_7               5                 8
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  XQ GAIN MUTATED        1      1      4      0
  XQ GAIN WILD-TYPE     11     20     12     25
D37V5, multiclass
        clus
vv       XQ GAIN MUTATED XQ GAIN WILD-TYPE
  CLUS_1               1                11
  CLUS_2               1                20
  CLUS_3               4                12
  CLUS_4               0                25
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  XQ GAIN MUTATED        1      2      3
  XQ GAIN WILD-TYPE     43     13     12
D37V6, multiclass
        clus
vv       XQ GAIN MUTATED XQ GAIN WILD-TYPE
  CLUS_1               1                43
  CLUS_2               2                13
  CLUS_3               3                12
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger 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      2      1      3
  XQ GAIN WILD-TYPE     22     11     19     16
D37V7, multiclass
        clus
vv       XQ GAIN MUTATED XQ GAIN WILD-TYPE
  CLUS_1               0                22
  CLUS_2               2                11
  CLUS_3               1                19
  CLUS_4               3                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 CLUS_5 CLUS_6 CLUS_7
  XQ GAIN MUTATED        1      0      2      2      1      0      0
  XQ GAIN WILD-TYPE     10      8     13      9      4     13     11
D37V8, multiclass
        clus
vv       XQ GAIN MUTATED XQ GAIN WILD-TYPE
  CLUS_1               1                10
  CLUS_2               0                 8
  CLUS_3               2                13
  CLUS_4               2                 9
  CLUS_5               1                 4
  CLUS_6               0                13
  CLUS_7               0                11
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(38) Variable = 1P LOSS MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  1P LOSS MUTATED        3      9      6
  1P LOSS WILD-TYPE     45     35     52
D38V1, multiclass
        clus
vv       1P LOSS MUTATED 1P LOSS WILD-TYPE
  CLUS_1               3                45
  CLUS_2               9                35
  CLUS_3               6                52
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  1P LOSS MUTATED        7      4      7
  1P LOSS WILD-TYPE     49     45     38
D38V2, multiclass
        clus
vv       1P LOSS MUTATED 1P LOSS WILD-TYPE
  CLUS_1               7                49
  CLUS_2               4                45
  CLUS_3               7                38
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  1P LOSS MUTATED       10      3      5
  1P LOSS WILD-TYPE     60     37     35
D38V3, multiclass
        clus
vv       1P LOSS MUTATED 1P LOSS WILD-TYPE
  CLUS_1              10                60
  CLUS_2               3                37
  CLUS_3               5                35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  1P LOSS MUTATED        5      5      1      4      0      2      1
  1P LOSS WILD-TYPE     38     22     11     20      8     21     12
D38V4, multiclass
        clus
vv       1P LOSS MUTATED 1P LOSS WILD-TYPE
  CLUS_1               5                38
  CLUS_2               5                22
  CLUS_3               1                11
  CLUS_4               4                20
  CLUS_5               0                 8
  CLUS_6               2                21
  CLUS_7               1                12
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  1P LOSS MUTATED        1      1      4      4
  1P LOSS WILD-TYPE     11     20     12     21
D38V5, multiclass
        clus
vv       1P LOSS MUTATED 1P LOSS WILD-TYPE
  CLUS_1               1                11
  CLUS_2               1                20
  CLUS_3               4                12
  CLUS_4               4                21
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        5      1      4
  1P LOSS WILD-TYPE     39     14     11
D38V6, multiclass
        clus
vv       1P LOSS MUTATED 1P LOSS WILD-TYPE
  CLUS_1               5                39
  CLUS_2               1                14
  CLUS_3               4                11
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  1P LOSS MUTATED        4      0      1      5
  1P LOSS WILD-TYPE     18     13     19     14
D38V7, multiclass
        clus
vv       1P LOSS MUTATED 1P LOSS WILD-TYPE
  CLUS_1               4                18
  CLUS_2               0                13
  CLUS_3               1                19
  CLUS_4               5                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 CLUS_5 CLUS_6 CLUS_7
  1P LOSS MUTATED        1      1      1      4      0      2      1
  1P LOSS WILD-TYPE     10      7     14      7      5     11     10
D38V8, multiclass
        clus
vv       1P LOSS MUTATED 1P LOSS WILD-TYPE
  CLUS_1               1                10
  CLUS_2               1                 7
  CLUS_3               1                14
  CLUS_4               4                 7
  CLUS_5               0                 5
  CLUS_6               2                11
  CLUS_7               1                10
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(39) Variable = 1Q LOSS MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  1Q LOSS MUTATED        1      2      5
  1Q LOSS WILD-TYPE     47     42     53
D39V1, multiclass
        clus
vv       1Q LOSS MUTATED 1Q LOSS WILD-TYPE
  CLUS_1               1                47
  CLUS_2               2                42
  CLUS_3               5                53
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  1Q LOSS MUTATED        1      3      4
  1Q LOSS WILD-TYPE     55     46     41
D39V2, multiclass
        clus
vv       1Q LOSS MUTATED 1Q LOSS WILD-TYPE
  CLUS_1               1                55
  CLUS_2               3                46
  CLUS_3               4                41
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  1Q LOSS MUTATED        2      2      4
  1Q LOSS WILD-TYPE     68     38     36
D39V3, multiclass
        clus
vv       1Q LOSS MUTATED 1Q LOSS WILD-TYPE
  CLUS_1               2                68
  CLUS_2               2                38
  CLUS_3               4                36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  1Q LOSS MUTATED        0      2      1      3      0      1      1
  1Q LOSS WILD-TYPE     43     25     11     21      8     22     12
D39V4, multiclass
        clus
vv       1Q LOSS MUTATED 1Q LOSS WILD-TYPE
  CLUS_1               0                43
  CLUS_2               2                25
  CLUS_3               1                11
  CLUS_4               3                21
  CLUS_5               0                 8
  CLUS_6               1                22
  CLUS_7               1                12
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  1Q LOSS MUTATED        0      1      3      0
  1Q LOSS WILD-TYPE     12     20     13     25
D39V5, multiclass
        clus
vv       1Q LOSS MUTATED 1Q LOSS WILD-TYPE
  CLUS_1               0                12
  CLUS_2               1                20
  CLUS_3               3                13
  CLUS_4               0                25
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  1Q LOSS MUTATED        0      1      3
  1Q LOSS WILD-TYPE     44     14     12
D39V6, multiclass
        clus
vv       1Q LOSS MUTATED 1Q LOSS WILD-TYPE
  CLUS_1               0                44
  CLUS_2               1                14
  CLUS_3               3                12
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger 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 LOSS MUTATED        0      0      0      4
  1Q LOSS WILD-TYPE     22     13     20     15
D39V7, multiclass
        clus
vv       1Q LOSS MUTATED 1Q LOSS WILD-TYPE
  CLUS_1               0                22
  CLUS_2               0                13
  CLUS_3               0                20
  CLUS_4               4                15
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  1Q LOSS MUTATED        0      0      1      3      0      0      0
  1Q LOSS WILD-TYPE     11      8     14      8      5     13     11
D39V8, multiclass
        clus
vv       1Q LOSS MUTATED 1Q LOSS WILD-TYPE
  CLUS_1               0                11
  CLUS_2               0                 8
  CLUS_3               1                14
  CLUS_4               3                 8
  CLUS_5               0                 5
  CLUS_6               0                13
  CLUS_7               0                11
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(40) Variable = 2P LOSS MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  2P LOSS MUTATED        1      2      2
  2P LOSS WILD-TYPE     47     42     56
D40V1, multiclass
        clus
vv       2P LOSS MUTATED 2P LOSS WILD-TYPE
  CLUS_1               1                47
  CLUS_2               2                42
  CLUS_3               2                56
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  2P LOSS MUTATED        3      2      0
  2P LOSS WILD-TYPE     53     47     45
D40V2, multiclass
        clus
vv       2P LOSS MUTATED 2P LOSS WILD-TYPE
  CLUS_1               3                53
  CLUS_2               2                47
  CLUS_3               0                45
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  2P LOSS MUTATED        3      1      1
  2P LOSS WILD-TYPE     67     39     39
D40V3, multiclass
        clus
vv       2P LOSS MUTATED 2P LOSS WILD-TYPE
  CLUS_1               3                67
  CLUS_2               1                39
  CLUS_3               1                39
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- 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
  2P LOSS MUTATED        2      1      0      1      0      1      0
  2P LOSS WILD-TYPE     41     26     12     23      8     22     13
D40V4, multiclass
        clus
vv       2P LOSS MUTATED 2P LOSS WILD-TYPE
  CLUS_1               2                41
  CLUS_2               1                26
  CLUS_3               0                12
  CLUS_4               1                23
  CLUS_5               0                 8
  CLUS_6               1                22
  CLUS_7               0                13
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  2P LOSS MUTATED        1      2      0      0
  2P LOSS WILD-TYPE     11     19     16     25
D40V5, multiclass
        clus
vv       2P LOSS MUTATED 2P LOSS WILD-TYPE
  CLUS_1               1                11
  CLUS_2               2                19
  CLUS_3               0                16
  CLUS_4               0                25
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  2P LOSS MUTATED        2      1      0
  2P LOSS WILD-TYPE     42     14     15
D40V6, multiclass
        clus
vv       2P LOSS MUTATED 2P LOSS WILD-TYPE
  CLUS_1               2                42
  CLUS_2               1                14
  CLUS_3               0                15
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  2P LOSS MUTATED        0      1      2      0
  2P LOSS WILD-TYPE     22     12     18     19
D40V7, multiclass
        clus
vv       2P LOSS MUTATED 2P LOSS WILD-TYPE
  CLUS_1               0                22
  CLUS_2               1                12
  CLUS_3               2                18
  CLUS_4               0                19
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  2P LOSS MUTATED        1      1      1      0      0      0      0
  2P LOSS WILD-TYPE     10      7     14     11      5     13     11
D40V8, multiclass
        clus
vv       2P LOSS MUTATED 2P LOSS WILD-TYPE
  CLUS_1               1                10
  CLUS_2               1                 7
  CLUS_3               1                14
  CLUS_4               0                11
  CLUS_5               0                 5
  CLUS_6               0                13
  CLUS_7               0                11
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(41) Variable = 2Q LOSS MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  2Q LOSS MUTATED        1      1      4
  2Q LOSS WILD-TYPE     47     43     54
D41V1, multiclass
        clus
vv       2Q LOSS MUTATED 2Q LOSS WILD-TYPE
  CLUS_1               1                47
  CLUS_2               1                43
  CLUS_3               4                54
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  2Q LOSS MUTATED        2      3      1
  2Q LOSS WILD-TYPE     54     46     44
D41V2, multiclass
        clus
vv       2Q LOSS MUTATED 2Q LOSS WILD-TYPE
  CLUS_1               2                54
  CLUS_2               3                46
  CLUS_3               1                44
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  2Q LOSS MUTATED        2      1      3
  2Q LOSS WILD-TYPE     68     39     37
D41V3, multiclass
        clus
vv       2Q LOSS MUTATED 2Q LOSS WILD-TYPE
  CLUS_1               2                68
  CLUS_2               1                39
  CLUS_3               3                37
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- 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
  2Q LOSS MUTATED        1      1      1      1      0      1      1
  2Q LOSS WILD-TYPE     42     26     11     23      8     22     12
D41V4, multiclass
        clus
vv       2Q LOSS MUTATED 2Q LOSS WILD-TYPE
  CLUS_1               1                42
  CLUS_2               1                26
  CLUS_3               1                11
  CLUS_4               1                23
  CLUS_5               0                 8
  CLUS_6               1                22
  CLUS_7               1                12
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  2Q LOSS MUTATED        1      2      0      0
  2Q LOSS WILD-TYPE     11     19     16     25
D41V5, multiclass
        clus
vv       2Q LOSS MUTATED 2Q LOSS WILD-TYPE
  CLUS_1               1                11
  CLUS_2               2                19
  CLUS_3               0                16
  CLUS_4               0                25
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  2Q LOSS MUTATED        1      2      0
  2Q LOSS WILD-TYPE     43     13     15
D41V6, multiclass
        clus
vv       2Q LOSS MUTATED 2Q LOSS WILD-TYPE
  CLUS_1               1                43
  CLUS_2               2                13
  CLUS_3               0                15
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  2Q LOSS MUTATED        0      1      1      1
  2Q LOSS WILD-TYPE     22     12     19     18
D41V7, multiclass
        clus
vv       2Q LOSS MUTATED 2Q LOSS WILD-TYPE
  CLUS_1               0                22
  CLUS_2               1                12
  CLUS_3               1                19
  CLUS_4               1                18
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  2Q LOSS MUTATED        1      0      2      0      0      0      0
  2Q LOSS WILD-TYPE     10      8     13     11      5     13     11
D41V8, multiclass
        clus
vv       2Q LOSS MUTATED 2Q LOSS WILD-TYPE
  CLUS_1               1                10
  CLUS_2               0                 8
  CLUS_3               2                13
  CLUS_4               0                11
  CLUS_5               0                 5
  CLUS_6               0                13
  CLUS_7               0                11
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(42) Variable = 3P LOSS MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  3P LOSS MUTATED       10      8     12
  3P LOSS WILD-TYPE     38     36     46
D42V1, multiclass
        clus
vv       3P LOSS MUTATED 3P LOSS WILD-TYPE
  CLUS_1              10                38
  CLUS_2               8                36
  CLUS_3              12                46
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       11     15      4
  3P LOSS WILD-TYPE     45     34     41
D42V2, multiclass
        clus
vv       3P LOSS MUTATED 3P LOSS WILD-TYPE
  CLUS_1              11                45
  CLUS_2              15                34
  CLUS_3               4                41
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  3P LOSS MUTATED       17     12      1
  3P LOSS WILD-TYPE     53     28     39
D42V3, multiclass
        clus
vv       3P LOSS MUTATED 3P LOSS WILD-TYPE
  CLUS_1              17                53
  CLUS_2              12                28
  CLUS_3               1                39
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- 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
  3P LOSS MUTATED       13      4      1      1      1     10      0
  3P LOSS WILD-TYPE     30     23     11     23      7     13     13
D42V4, multiclass
        clus
vv       3P LOSS MUTATED 3P LOSS WILD-TYPE
  CLUS_1              13                30
  CLUS_2               4                23
  CLUS_3               1                11
  CLUS_4               1                23
  CLUS_5               1                 7
  CLUS_6              10                13
  CLUS_7               0                13
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  3P LOSS MUTATED        5      7      0      5
  3P LOSS WILD-TYPE      7     14     16     20
D42V5, multiclass
        clus
vv       3P LOSS MUTATED 3P LOSS WILD-TYPE
  CLUS_1               5                 7
  CLUS_2               7                14
  CLUS_3               0                16
  CLUS_4               5                20
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  3P LOSS MUTATED       12      5      0
  3P LOSS WILD-TYPE     32     10     15
D42V6, multiclass
        clus
vv       3P LOSS MUTATED 3P LOSS WILD-TYPE
  CLUS_1              12                32
  CLUS_2               5                10
  CLUS_3               0                15
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  3P LOSS MUTATED        5      4      7      1
  3P LOSS WILD-TYPE     17      9     13     18
D42V7, multiclass
        clus
vv       3P LOSS MUTATED 3P LOSS WILD-TYPE
  CLUS_1               5                17
  CLUS_2               4                 9
  CLUS_3               7                13
  CLUS_4               1                18
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  3P LOSS MUTATED        4      2      5      0      0      2      4
  3P LOSS WILD-TYPE      7      6     10     11      5     11      7
D42V8, multiclass
        clus
vv       3P LOSS MUTATED 3P LOSS WILD-TYPE
  CLUS_1               4                 7
  CLUS_2               2                 6
  CLUS_3               5                10
  CLUS_4               0                11
  CLUS_5               0                 5
  CLUS_6               2                11
  CLUS_7               4                 7
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(43) Variable = 3Q LOSS MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  3Q LOSS MUTATED        7      5     10
  3Q LOSS WILD-TYPE     41     39     48
D43V1, multiclass
        clus
vv       3Q LOSS MUTATED 3Q LOSS WILD-TYPE
  CLUS_1               7                41
  CLUS_2               5                39
  CLUS_3              10                48
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  3Q LOSS MUTATED        9      8      5
  3Q LOSS WILD-TYPE     47     41     40
D43V2, multiclass
        clus
vv       3Q LOSS MUTATED 3Q LOSS WILD-TYPE
  CLUS_1               9                47
  CLUS_2               8                41
  CLUS_3               5                40
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       14      6      2
  3Q LOSS WILD-TYPE     56     34     38
D43V3, multiclass
        clus
vv       3Q LOSS MUTATED 3Q LOSS WILD-TYPE
  CLUS_1              14                56
  CLUS_2               6                34
  CLUS_3               2                38
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  3Q LOSS MUTATED       11      3      0      2      0      6      0
  3Q LOSS WILD-TYPE     32     24     12     22      8     17     13
D43V4, multiclass
        clus
vv       3Q LOSS MUTATED 3Q LOSS WILD-TYPE
  CLUS_1              11                32
  CLUS_2               3                24
  CLUS_3               0                12
  CLUS_4               2                22
  CLUS_5               0                 8
  CLUS_6               6                17
  CLUS_7               0                13
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  3Q LOSS MUTATED        4      5      0      3
  3Q LOSS WILD-TYPE      8     16     16     22
D43V5, multiclass
        clus
vv       3Q LOSS MUTATED 3Q LOSS WILD-TYPE
  CLUS_1               4                 8
  CLUS_2               5                16
  CLUS_3               0                16
  CLUS_4               3                22
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  3Q LOSS MUTATED        9      3      0
  3Q LOSS WILD-TYPE     35     12     15
D43V6, multiclass
        clus
vv       3Q LOSS MUTATED 3Q LOSS WILD-TYPE
  CLUS_1               9                35
  CLUS_2               3                12
  CLUS_3               0                15
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  3Q LOSS MUTATED        4      3      5      0
  3Q LOSS WILD-TYPE     18     10     15     19
D43V7, multiclass
        clus
vv       3Q LOSS MUTATED 3Q LOSS WILD-TYPE
  CLUS_1               4                18
  CLUS_2               3                10
  CLUS_3               5                15
  CLUS_4               0                19
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  3Q LOSS MUTATED        3      1      3      0      0      2      3
  3Q LOSS WILD-TYPE      8      7     12     11      5     11      8
D43V8, multiclass
        clus
vv       3Q LOSS MUTATED 3Q LOSS WILD-TYPE
  CLUS_1               3                 8
  CLUS_2               1                 7
  CLUS_3               3                12
  CLUS_4               0                11
  CLUS_5               0                 5
  CLUS_6               2                11
  CLUS_7               3                 8
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(44) Variable = 4P LOSS MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  4P LOSS MUTATED       27     29     36
  4P LOSS WILD-TYPE     21     15     22
D44V1, multiclass
        clus
vv       4P LOSS MUTATED 4P LOSS WILD-TYPE
  CLUS_1              27                21
  CLUS_2              29                15
  CLUS_3              36                22
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       36     35     21
  4P LOSS WILD-TYPE     20     14     24
D44V2, multiclass
        clus
vv       4P LOSS MUTATED 4P LOSS WILD-TYPE
  CLUS_1              36                20
  CLUS_2              35                14
  CLUS_3              21                24
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       45     29     18
  4P LOSS WILD-TYPE     25     11     22
D44V3, multiclass
        clus
vv       4P LOSS MUTATED 4P LOSS WILD-TYPE
  CLUS_1              45                25
  CLUS_2              29                11
  CLUS_3              18                22
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- 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
  4P LOSS MUTATED       25     20      9     10      6     16      6
  4P LOSS WILD-TYPE     18      7      3     14      2      7      7
D44V4, multiclass
        clus
vv       4P LOSS MUTATED 4P LOSS WILD-TYPE
  CLUS_1              25                18
  CLUS_2              20                 7
  CLUS_3               9                 3
  CLUS_4              10                14
  CLUS_5               6                 2
  CLUS_6              16                 7
  CLUS_7               6                 7
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  4P LOSS MUTATED        9     15      6     16
  4P LOSS WILD-TYPE      3      6     10      9
D44V5, multiclass
        clus
vv       4P LOSS MUTATED 4P LOSS WILD-TYPE
  CLUS_1               9                 3
  CLUS_2              15                 6
  CLUS_3               6                10
  CLUS_4              16                 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
  4P LOSS MUTATED       29     11      6
  4P LOSS WILD-TYPE     15      4      9
D44V6, multiclass
        clus
vv       4P LOSS MUTATED 4P LOSS WILD-TYPE
  CLUS_1              29                15
  CLUS_2              11                 4
  CLUS_3               6                 9
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  4P LOSS MUTATED       14      9     14      9
  4P LOSS WILD-TYPE      8      4      6     10
D44V7, multiclass
        clus
vv       4P LOSS MUTATED 4P LOSS WILD-TYPE
  CLUS_1              14                 8
  CLUS_2               9                 4
  CLUS_3              14                 6
  CLUS_4               9                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 CLUS_5 CLUS_6 CLUS_7
  4P LOSS MUTATED        8      4     11      4      3      7      9
  4P LOSS WILD-TYPE      3      4      4      7      2      6      2
D44V8, multiclass
        clus
vv       4P LOSS MUTATED 4P LOSS WILD-TYPE
  CLUS_1               8                 3
  CLUS_2               4                 4
  CLUS_3              11                 4
  CLUS_4               4                 7
  CLUS_5               3                 2
  CLUS_6               7                 6
  CLUS_7               9                 2
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(45) Variable = 4Q LOSS MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  4Q LOSS MUTATED       29     36     43
  4Q LOSS WILD-TYPE     19      8     15
D45V1, multiclass
        clus
vv       4Q LOSS MUTATED 4Q LOSS WILD-TYPE
  CLUS_1              29                19
  CLUS_2              36                 8
  CLUS_3              43                15
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  4Q LOSS MUTATED       40     42     26
  4Q LOSS WILD-TYPE     16      7     19
D45V2, multiclass
        clus
vv       4Q LOSS MUTATED 4Q LOSS WILD-TYPE
  CLUS_1              40                16
  CLUS_2              42                 7
  CLUS_3              26                19
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  4Q LOSS MUTATED       50     35     23
  4Q LOSS WILD-TYPE     20      5     17
D45V3, multiclass
        clus
vv       4Q LOSS MUTATED 4Q LOSS WILD-TYPE
  CLUS_1              50                20
  CLUS_2              35                 5
  CLUS_3              23                17
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  4Q LOSS MUTATED       27     23     10     13      7     21      7
  4Q LOSS WILD-TYPE     16      4      2     11      1      2      6
D45V4, multiclass
        clus
vv       4Q LOSS MUTATED 4Q LOSS WILD-TYPE
  CLUS_1              27                16
  CLUS_2              23                 4
  CLUS_3              10                 2
  CLUS_4              13                11
  CLUS_5               7                 1
  CLUS_6              21                 2
  CLUS_7               7                 6
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  4Q LOSS MUTATED        9     19      9     19
  4Q LOSS WILD-TYPE      3      2      7      6
D45V5, multiclass
        clus
vv       4Q LOSS MUTATED 4Q LOSS WILD-TYPE
  CLUS_1               9                 3
  CLUS_2              19                 2
  CLUS_3               9                 7
  CLUS_4              19                 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
  4Q LOSS MUTATED       33     14      9
  4Q LOSS WILD-TYPE     11      1      6
D45V6, multiclass
        clus
vv       4Q LOSS MUTATED 4Q LOSS WILD-TYPE
  CLUS_1              33                11
  CLUS_2              14                 1
  CLUS_3               9                 6
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger 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       18     11     14     13
  4Q LOSS WILD-TYPE      4      2      6      6
D45V7, multiclass
        clus
vv       4Q LOSS MUTATED 4Q LOSS WILD-TYPE
  CLUS_1              18                 4
  CLUS_2              11                 2
  CLUS_3              14                 6
  CLUS_4              13                 6
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  4Q LOSS MUTATED        9      6     14      7      3      9      8
  4Q LOSS WILD-TYPE      2      2      1      4      2      4      3
D45V8, multiclass
        clus
vv       4Q LOSS MUTATED 4Q LOSS WILD-TYPE
  CLUS_1               9                 2
  CLUS_2               6                 2
  CLUS_3              14                 1
  CLUS_4               7                 4
  CLUS_5               3                 2
  CLUS_6               9                 4
  CLUS_7               8                 3
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(46) Variable = 5P LOSS MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  5P LOSS MUTATED       33     35     35
  5P LOSS WILD-TYPE     15      9     23
D46V1, multiclass
        clus
vv       5P LOSS MUTATED 5P LOSS WILD-TYPE
  CLUS_1              33                15
  CLUS_2              35                 9
  CLUS_3              35                23
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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 LOSS MUTATED       43     30     30
  5P LOSS WILD-TYPE     13     19     15
D46V2, multiclass
        clus
vv       5P LOSS MUTATED 5P LOSS WILD-TYPE
  CLUS_1              43                13
  CLUS_2              30                19
  CLUS_3              30                15
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  5P LOSS MUTATED       54     24     25
  5P LOSS WILD-TYPE     16     16     15
D46V3, multiclass
        clus
vv       5P LOSS MUTATED 5P LOSS WILD-TYPE
  CLUS_1              54                16
  CLUS_2              24                16
  CLUS_3              25                15
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  5P LOSS MUTATED       30     24      9     15      4     13      8
  5P LOSS WILD-TYPE     13      3      3      9      4     10      5
D46V4, multiclass
        clus
vv       5P LOSS MUTATED 5P LOSS WILD-TYPE
  CLUS_1              30                13
  CLUS_2              24                 3
  CLUS_3               9                 3
  CLUS_4              15                 9
  CLUS_5               4                 4
  CLUS_6              13                10
  CLUS_7               8                 5
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  5P LOSS MUTATED        9     12     10     19
  5P LOSS WILD-TYPE      3      9      6      6
D46V5, multiclass
        clus
vv       5P LOSS MUTATED 5P LOSS WILD-TYPE
  CLUS_1               9                 3
  CLUS_2              12                 9
  CLUS_3              10                 6
  CLUS_4              19                 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
  5P LOSS MUTATED       33      7     10
  5P LOSS WILD-TYPE     11      8      5
D46V6, multiclass
        clus
vv       5P LOSS MUTATED 5P LOSS WILD-TYPE
  CLUS_1              33                11
  CLUS_2               7                 8
  CLUS_3              10                 5
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger 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 LOSS MUTATED       17      6     15     12
  5P LOSS WILD-TYPE      5      7      5      7
D46V7, multiclass
        clus
vv       5P LOSS MUTATED 5P LOSS WILD-TYPE
  CLUS_1              17                 5
  CLUS_2               6                 7
  CLUS_3              15                 5
  CLUS_4              12                 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 CLUS_5 CLUS_6 CLUS_7
  5P LOSS MUTATED        8      7      6      7      4     10      8
  5P LOSS WILD-TYPE      3      1      9      4      1      3      3
D46V8, multiclass
        clus
vv       5P LOSS MUTATED 5P LOSS WILD-TYPE
  CLUS_1               8                 3
  CLUS_2               7                 1
  CLUS_3               6                 9
  CLUS_4               7                 4
  CLUS_5               4                 1
  CLUS_6              10                 3
  CLUS_7               8                 3
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(47) Variable = 5Q LOSS MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  5Q LOSS MUTATED       33     35     33
  5Q LOSS WILD-TYPE     15      9     25
D47V1, multiclass
        clus
vv       5Q LOSS MUTATED 5Q LOSS WILD-TYPE
  CLUS_1              33                15
  CLUS_2              35                 9
  CLUS_3              33                25
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  5Q LOSS MUTATED       43     27     31
  5Q LOSS WILD-TYPE     13     22     14
D47V2, multiclass
        clus
vv       5Q LOSS MUTATED 5Q LOSS WILD-TYPE
  CLUS_1              43                13
  CLUS_2              27                22
  CLUS_3              31                14
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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 LOSS MUTATED       55     21     25
  5Q LOSS WILD-TYPE     15     19     15
D47V3, multiclass
        clus
vv       5Q LOSS MUTATED 5Q LOSS WILD-TYPE
  CLUS_1              55                15
  CLUS_2              21                19
  CLUS_3              25                15
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  5Q LOSS MUTATED       29     26      8     15      3     12      8
  5Q LOSS WILD-TYPE     14      1      4      9      5     11      5
D47V4, multiclass
        clus
vv       5Q LOSS MUTATED 5Q LOSS WILD-TYPE
  CLUS_1              29                14
  CLUS_2              26                 1
  CLUS_3               8                 4
  CLUS_4              15                 9
  CLUS_5               3                 5
  CLUS_6              12                11
  CLUS_7               8                 5
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  5Q LOSS MUTATED        9     13     10     20
  5Q LOSS WILD-TYPE      3      8      6      5
D47V5, multiclass
        clus
vv       5Q LOSS MUTATED 5Q LOSS WILD-TYPE
  CLUS_1               9                 3
  CLUS_2              13                 8
  CLUS_3              10                 6
  CLUS_4              20                 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
  5Q LOSS MUTATED       35      7     10
  5Q LOSS WILD-TYPE      9      8      5
D47V6, multiclass
        clus
vv       5Q LOSS MUTATED 5Q LOSS WILD-TYPE
  CLUS_1              35                 9
  CLUS_2               7                 8
  CLUS_3              10                 5
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger 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 LOSS MUTATED       18      6     16     12
  5Q LOSS WILD-TYPE      4      7      4      7
D47V7, multiclass
        clus
vv       5Q LOSS MUTATED 5Q LOSS WILD-TYPE
  CLUS_1              18                 4
  CLUS_2               6                 7
  CLUS_3              16                 4
  CLUS_4              12                 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 CLUS_5 CLUS_6 CLUS_7
  5Q LOSS MUTATED        8      7      6      7      4     11      9
  5Q LOSS WILD-TYPE      3      1      9      4      1      2      2
D47V8, multiclass
        clus
vv       5Q LOSS MUTATED 5Q LOSS WILD-TYPE
  CLUS_1               8                 3
  CLUS_2               7                 1
  CLUS_3               6                 9
  CLUS_4               7                 4
  CLUS_5               4                 1
  CLUS_6              11                 2
  CLUS_7               9                 2
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(48) Variable = 6P LOSS MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  6P LOSS MUTATED        3      2      8
  6P LOSS WILD-TYPE     45     42     50
D48V1, multiclass
        clus
vv       6P LOSS MUTATED 6P LOSS WILD-TYPE
  CLUS_1               3                45
  CLUS_2               2                42
  CLUS_3               8                50
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  6P LOSS MUTATED        1      7      5
  6P LOSS WILD-TYPE     55     42     40
D48V2, multiclass
        clus
vv       6P LOSS MUTATED 6P LOSS WILD-TYPE
  CLUS_1               1                55
  CLUS_2               7                42
  CLUS_3               5                40
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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        3      5      5
  6P LOSS WILD-TYPE     67     35     35
D48V3, multiclass
        clus
vv       6P LOSS MUTATED 6P LOSS WILD-TYPE
  CLUS_1               3                67
  CLUS_2               5                35
  CLUS_3               5                35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  6P LOSS MUTATED        1      2      2      0      1      3      4
  6P LOSS WILD-TYPE     42     25     10     24      7     20      9
D48V4, multiclass
        clus
vv       6P LOSS MUTATED 6P LOSS WILD-TYPE
  CLUS_1               1                42
  CLUS_2               2                25
  CLUS_3               2                10
  CLUS_4               0                24
  CLUS_5               1                 7
  CLUS_6               3                20
  CLUS_7               4                 9
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  6P LOSS MUTATED        0      2      1      2
  6P LOSS WILD-TYPE     12     19     15     23
D48V5, multiclass
        clus
vv       6P LOSS MUTATED 6P LOSS WILD-TYPE
  CLUS_1               0                12
  CLUS_2               2                19
  CLUS_3               1                15
  CLUS_4               2                23
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  6P LOSS MUTATED        2      2      1
  6P LOSS WILD-TYPE     42     13     14
D48V6, multiclass
        clus
vv       6P LOSS MUTATED 6P LOSS WILD-TYPE
  CLUS_1               2                42
  CLUS_2               2                13
  CLUS_3               1                14
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger 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        2      1      0      2
  6P LOSS WILD-TYPE     20     12     20     17
D48V7, multiclass
        clus
vv       6P LOSS MUTATED 6P LOSS WILD-TYPE
  CLUS_1               2                20
  CLUS_2               1                12
  CLUS_3               0                20
  CLUS_4               2                17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  6P LOSS MUTATED        0      0      2      1      0      2      0
  6P LOSS WILD-TYPE     11      8     13     10      5     11     11
D48V8, multiclass
        clus
vv       6P LOSS MUTATED 6P LOSS WILD-TYPE
  CLUS_1               0                11
  CLUS_2               0                 8
  CLUS_3               2                13
  CLUS_4               1                10
  CLUS_5               0                 5
  CLUS_6               2                11
  CLUS_7               0                11
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(49) Variable = 6Q LOSS MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  6Q LOSS MUTATED        4      2     10
  6Q LOSS WILD-TYPE     44     42     48
D49V1, multiclass
        clus
vv       6Q LOSS MUTATED 6Q LOSS WILD-TYPE
  CLUS_1               4                44
  CLUS_2               2                42
  CLUS_3              10                48
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  6Q LOSS MUTATED        1      9      6
  6Q LOSS WILD-TYPE     55     40     39
D49V2, multiclass
        clus
vv       6Q LOSS MUTATED 6Q LOSS WILD-TYPE
  CLUS_1               1                55
  CLUS_2               9                40
  CLUS_3               6                39
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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        3      7      6
  6Q LOSS WILD-TYPE     67     33     34
D49V3, multiclass
        clus
vv       6Q LOSS MUTATED 6Q LOSS WILD-TYPE
  CLUS_1               3                67
  CLUS_2               7                33
  CLUS_3               6                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 CLUS_5 CLUS_6 CLUS_7
  6Q LOSS MUTATED        1      2      2      0      2      4      5
  6Q LOSS WILD-TYPE     42     25     10     24      6     19      8
D49V4, multiclass
        clus
vv       6Q LOSS MUTATED 6Q LOSS WILD-TYPE
  CLUS_1               1                42
  CLUS_2               2                25
  CLUS_3               2                10
  CLUS_4               0                24
  CLUS_5               2                 6
  CLUS_6               4                19
  CLUS_7               5                 8
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  6Q LOSS MUTATED        1      2      2      2
  6Q LOSS WILD-TYPE     11     19     14     23
D49V5, multiclass
        clus
vv       6Q LOSS MUTATED 6Q LOSS WILD-TYPE
  CLUS_1               1                11
  CLUS_2               2                19
  CLUS_3               2                14
  CLUS_4               2                23
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  6Q LOSS MUTATED        3      2      2
  6Q LOSS WILD-TYPE     41     13     13
D49V6, multiclass
        clus
vv       6Q LOSS MUTATED 6Q LOSS WILD-TYPE
  CLUS_1               3                41
  CLUS_2               2                13
  CLUS_3               2                13
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  6Q LOSS MUTATED        2      1      1      3
  6Q LOSS WILD-TYPE     20     12     19     16
D49V7, multiclass
        clus
vv       6Q LOSS MUTATED 6Q LOSS WILD-TYPE
  CLUS_1               2                20
  CLUS_2               1                12
  CLUS_3               1                19
  CLUS_4               3                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 CLUS_5 CLUS_6 CLUS_7
  6Q LOSS MUTATED        1      0      2      2      0      2      0
  6Q LOSS WILD-TYPE     10      8     13      9      5     11     11
D49V8, multiclass
        clus
vv       6Q LOSS MUTATED 6Q LOSS WILD-TYPE
  CLUS_1               1                10
  CLUS_2               0                 8
  CLUS_3               2                13
  CLUS_4               2                 9
  CLUS_5               0                 5
  CLUS_6               2                11
  CLUS_7               0                11
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(50) Variable = 8P LOSS MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  8P LOSS MUTATED        3      2      7
  8P LOSS WILD-TYPE     45     42     51
D50V1, multiclass
        clus
vv       8P LOSS MUTATED 8P LOSS WILD-TYPE
  CLUS_1               3                45
  CLUS_2               2                42
  CLUS_3               7                51
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  8P LOSS MUTATED        1      7      4
  8P LOSS WILD-TYPE     55     42     41
D50V2, multiclass
        clus
vv       8P LOSS MUTATED 8P LOSS WILD-TYPE
  CLUS_1               1                55
  CLUS_2               7                42
  CLUS_3               4                41
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  8P LOSS MUTATED        1      5      6
  8P LOSS WILD-TYPE     69     35     34
D50V3, multiclass
        clus
vv       8P LOSS MUTATED 8P LOSS WILD-TYPE
  CLUS_1               1                69
  CLUS_2               5                35
  CLUS_3               6                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 CLUS_5 CLUS_6 CLUS_7
  8P LOSS MUTATED        1      0      1      3      1      3      3
  8P LOSS WILD-TYPE     42     27     11     21      7     20     10
D50V4, multiclass
        clus
vv       8P LOSS MUTATED 8P LOSS WILD-TYPE
  CLUS_1               1                42
  CLUS_2               0                27
  CLUS_3               1                11
  CLUS_4               3                21
  CLUS_5               1                 7
  CLUS_6               3                20
  CLUS_7               3                10
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  8P LOSS MUTATED        0      3      2      1
  8P LOSS WILD-TYPE     12     18     14     24
D50V5, multiclass
        clus
vv       8P LOSS MUTATED 8P LOSS WILD-TYPE
  CLUS_1               0                12
  CLUS_2               3                18
  CLUS_3               2                14
  CLUS_4               1                24
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  8P LOSS MUTATED        2      2      2
  8P LOSS WILD-TYPE     42     13     13
D50V6, multiclass
        clus
vv       8P LOSS MUTATED 8P LOSS WILD-TYPE
  CLUS_1               2                42
  CLUS_2               2                13
  CLUS_3               2                13
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  8P LOSS MUTATED        0      3      1      2
  8P LOSS WILD-TYPE     22     10     19     17
D50V7, multiclass
        clus
vv       8P LOSS MUTATED 8P LOSS WILD-TYPE
  CLUS_1               0                22
  CLUS_2               3                10
  CLUS_3               1                19
  CLUS_4               2                17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  8P LOSS MUTATED        0      0      3      2      0      0      1
  8P LOSS WILD-TYPE     11      8     12      9      5     13     10
D50V8, multiclass
        clus
vv       8P LOSS MUTATED 8P LOSS WILD-TYPE
  CLUS_1               0                11
  CLUS_2               0                 8
  CLUS_3               3                12
  CLUS_4               2                 9
  CLUS_5               0                 5
  CLUS_6               0                13
  CLUS_7               1                10
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(51) Variable = 8Q LOSS MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  8Q LOSS MUTATED        1      0      4
  8Q LOSS WILD-TYPE     47     44     54
D51V1, multiclass
        clus
vv       8Q LOSS MUTATED 8Q LOSS WILD-TYPE
  CLUS_1               1                47
  CLUS_2               0                44
  CLUS_3               4                54
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  8Q LOSS MUTATED        0      1      4
  8Q LOSS WILD-TYPE     56     48     41
D51V2, multiclass
        clus
vv       8Q LOSS MUTATED 8Q LOSS WILD-TYPE
  CLUS_1               0                56
  CLUS_2               1                48
  CLUS_3               4                41
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  8Q LOSS MUTATED        0      0      5
  8Q LOSS WILD-TYPE     70     40     35
D51V3, multiclass
        clus
vv       8Q LOSS MUTATED 8Q LOSS WILD-TYPE
  CLUS_1               0                70
  CLUS_2               0                40
  CLUS_3               5                35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  8Q LOSS MUTATED        0      0      0      3      0      0      2
  8Q LOSS WILD-TYPE     43     27     12     21      8     23     11
D51V4, multiclass
        clus
vv       8Q LOSS MUTATED 8Q LOSS WILD-TYPE
  CLUS_1               0                43
  CLUS_2               0                27
  CLUS_3               0                12
  CLUS_4               3                21
  CLUS_5               0                 8
  CLUS_6               0                23
  CLUS_7               2                11
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  8Q LOSS MUTATED        0      0      2      0
  8Q LOSS WILD-TYPE     12     21     14     25
D51V5, multiclass
[1] "Remove cluster labels:" "8Q LOSS MUTATED"       
clus
  8Q LOSS MUTATED 8Q LOSS WILD-TYPE 
                2                72 
       TCGA-2G-AAFE        TCGA-2G-AAFG        TCGA-2G-AAFN        TCGA-2G-AAFO 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-2G-AAG6        TCGA-2G-AAG7        TCGA-2G-AAGI        TCGA-2G-AAGO 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-2G-AAGP        TCGA-2G-AAGS        TCGA-2G-AAGZ        TCGA-2G-AAH0 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-2G-AAHC        TCGA-2G-AAHG        TCGA-2G-AAHL        TCGA-2G-AAKG 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-2G-AAKH        TCGA-2G-AAL7        TCGA-2G-AALF        TCGA-2G-AALS 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-2G-AALT        TCGA-2G-AAM4        TCGA-2X-A9D5        TCGA-S6-A8JX 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-SB-A6J6        TCGA-SB-A76C        TCGA-SN-A6IS        TCGA-SN-A84W 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-SN-A84X        TCGA-SN-A84Y        TCGA-VF-A8A9        TCGA-VF-A8AA 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-VF-A8AB        TCGA-VF-A8AC        TCGA-VF-A8AD        TCGA-VF-A8AE 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-W4-A7U4        TCGA-WZ-A7V3        TCGA-WZ-A7V4        TCGA-WZ-A7V5 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-WZ-A8D5        TCGA-X3-A8G4        TCGA-XE-A8H5        TCGA-XE-A9SE 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-XE-AANI        TCGA-XE-AANJ        TCGA-XE-AANR        TCGA-XE-AANV 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-XE-AAO6        TCGA-XE-AAOB        TCGA-XE-AAOC        TCGA-XE-AAOD 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-XE-AAOF        TCGA-XE-AAOJ        TCGA-XY-A89B        TCGA-XY-A8S2 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-XY-A8S3        TCGA-XY-A9T9        TCGA-YU-A90Q        TCGA-YU-A90S 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-YU-A90W        TCGA-YU-A90Y        TCGA-YU-A912        TCGA-YU-A94D 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-YU-AA61        TCGA-ZM-AA05        TCGA-ZM-AA06        TCGA-ZM-AA0B 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-ZM-AA0D        TCGA-ZM-AA0E        TCGA-ZM-AA0F        TCGA-ZM-AA0H 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  8Q LOSS MUTATED        0      0      2
  8Q LOSS WILD-TYPE     44     15     13
D51V6, multiclass
[1] "Remove cluster labels:" "8Q LOSS MUTATED"       
clus
  8Q LOSS MUTATED 8Q LOSS WILD-TYPE 
                2                72 
       TCGA-2G-AAFE        TCGA-2G-AAFG        TCGA-2G-AAFN        TCGA-2G-AAFO 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-2G-AAG6        TCGA-2G-AAG7        TCGA-2G-AAGI        TCGA-2G-AAGO 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-2G-AAGP        TCGA-2G-AAGS        TCGA-2G-AAGZ        TCGA-2G-AAH0 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-2G-AAHC        TCGA-2G-AAHG        TCGA-2G-AAHL        TCGA-2G-AAKG 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-2G-AAKH        TCGA-2G-AAL7        TCGA-2G-AALF        TCGA-2G-AALS 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-2G-AALT        TCGA-2G-AAM4        TCGA-2X-A9D5        TCGA-S6-A8JX 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-SB-A6J6        TCGA-SB-A76C        TCGA-SN-A6IS        TCGA-SN-A84W 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-SN-A84X        TCGA-SN-A84Y        TCGA-VF-A8A9        TCGA-VF-A8AA 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-VF-A8AB        TCGA-VF-A8AC        TCGA-VF-A8AD        TCGA-VF-A8AE 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-W4-A7U4        TCGA-WZ-A7V3        TCGA-WZ-A7V4        TCGA-WZ-A7V5 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-WZ-A8D5        TCGA-X3-A8G4        TCGA-XE-A8H5        TCGA-XE-A9SE 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-XE-AANI        TCGA-XE-AANJ        TCGA-XE-AANR        TCGA-XE-AANV 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-XE-AAO6        TCGA-XE-AAOB        TCGA-XE-AAOC        TCGA-XE-AAOD 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-XE-AAOF        TCGA-XE-AAOJ        TCGA-XY-A89B        TCGA-XY-A8S2 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-XY-A8S3        TCGA-XY-A9T9        TCGA-YU-A90Q        TCGA-YU-A90S 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-YU-A90W        TCGA-YU-A90Y        TCGA-YU-A912        TCGA-YU-A94D 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-YU-AA61        TCGA-ZM-AA05        TCGA-ZM-AA06        TCGA-ZM-AA0B 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-ZM-AA0D        TCGA-ZM-AA0E        TCGA-ZM-AA0F        TCGA-ZM-AA0H 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  8Q LOSS MUTATED        0      0      0      2
  8Q LOSS WILD-TYPE     22     13     20     17
D51V7, multiclass
[1] "Remove cluster labels:" "8Q LOSS MUTATED"       
clus
  8Q LOSS MUTATED 8Q LOSS WILD-TYPE 
                2                72 
       TCGA-2G-AAFE        TCGA-2G-AAFG        TCGA-2G-AAFN        TCGA-2G-AAFO 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-2G-AAG6        TCGA-2G-AAG7        TCGA-2G-AAGI        TCGA-2G-AAGO 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-2G-AAGP        TCGA-2G-AAGS        TCGA-2G-AAGZ        TCGA-2G-AAH0 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-2G-AAHC        TCGA-2G-AAHG        TCGA-2G-AAHL        TCGA-2G-AAKG 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-2G-AAKH        TCGA-2G-AAL7        TCGA-2G-AALF        TCGA-2G-AALS 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-2G-AALT        TCGA-2G-AAM4        TCGA-2X-A9D5        TCGA-S6-A8JX 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-SB-A6J6        TCGA-SB-A76C        TCGA-SN-A6IS        TCGA-SN-A84W 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-SN-A84X        TCGA-SN-A84Y        TCGA-VF-A8A9        TCGA-VF-A8AA 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-VF-A8AB        TCGA-VF-A8AC        TCGA-VF-A8AD        TCGA-VF-A8AE 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-W4-A7U4        TCGA-WZ-A7V3        TCGA-WZ-A7V4        TCGA-WZ-A7V5 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-WZ-A8D5        TCGA-X3-A8G4        TCGA-XE-A8H5        TCGA-XE-A9SE 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-XE-AANI        TCGA-XE-AANJ        TCGA-XE-AANR        TCGA-XE-AANV 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-XE-AAO6        TCGA-XE-AAOB        TCGA-XE-AAOC        TCGA-XE-AAOD 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-XE-AAOF        TCGA-XE-AAOJ        TCGA-XY-A89B        TCGA-XY-A8S2 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-XY-A8S3        TCGA-XY-A9T9        TCGA-YU-A90Q        TCGA-YU-A90S 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-YU-A90W        TCGA-YU-A90Y        TCGA-YU-A912        TCGA-YU-A94D 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-YU-AA61        TCGA-ZM-AA05        TCGA-ZM-AA06        TCGA-ZM-AA0B 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-ZM-AA0D        TCGA-ZM-AA0E        TCGA-ZM-AA0F        TCGA-ZM-AA0H 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  8Q LOSS MUTATED        0      0      0      2      0      0      0
  8Q LOSS WILD-TYPE     11      8     15      9      5     13     11
D51V8, multiclass
[1] "Remove cluster labels:" "8Q LOSS MUTATED"       
clus
  8Q LOSS MUTATED 8Q LOSS WILD-TYPE 
                2                72 
       TCGA-2G-AAFE        TCGA-2G-AAFG        TCGA-2G-AAFN        TCGA-2G-AAFO 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-2G-AAG6        TCGA-2G-AAG7        TCGA-2G-AAGI        TCGA-2G-AAGO 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-2G-AAGP        TCGA-2G-AAGS        TCGA-2G-AAGZ        TCGA-2G-AAH0 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-2G-AAHC        TCGA-2G-AAHG        TCGA-2G-AAHL        TCGA-2G-AAKG 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-2G-AAKH        TCGA-2G-AAL7        TCGA-2G-AALF        TCGA-2G-AALS 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-2G-AALT        TCGA-2G-AAM4        TCGA-2X-A9D5        TCGA-S6-A8JX 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-SB-A6J6        TCGA-SB-A76C        TCGA-SN-A6IS        TCGA-SN-A84W 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-SN-A84X        TCGA-SN-A84Y        TCGA-VF-A8A9        TCGA-VF-A8AA 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-VF-A8AB        TCGA-VF-A8AC        TCGA-VF-A8AD        TCGA-VF-A8AE 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-W4-A7U4        TCGA-WZ-A7V3        TCGA-WZ-A7V4        TCGA-WZ-A7V5 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-WZ-A8D5        TCGA-X3-A8G4        TCGA-XE-A8H5        TCGA-XE-A9SE 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-XE-AANI        TCGA-XE-AANJ        TCGA-XE-AANR        TCGA-XE-AANV 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-XE-AAO6        TCGA-XE-AAOB        TCGA-XE-AAOC        TCGA-XE-AAOD 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-XE-AAOF        TCGA-XE-AAOJ        TCGA-XY-A89B        TCGA-XY-A8S2 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-XY-A8S3        TCGA-XY-A9T9        TCGA-YU-A90Q        TCGA-YU-A90S 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-YU-A90W        TCGA-YU-A90Y        TCGA-YU-A912        TCGA-YU-A94D 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-YU-AA61        TCGA-ZM-AA05        TCGA-ZM-AA06        TCGA-ZM-AA0B 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 
       TCGA-ZM-AA0D        TCGA-ZM-AA0E        TCGA-ZM-AA0F        TCGA-ZM-AA0H 
"8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" "8Q LOSS WILD-TYPE" 

Clustering(52) Variable = 9P LOSS MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  9P LOSS MUTATED       15     16     32
  9P LOSS WILD-TYPE     33     28     26
D52V1, multiclass
        clus
vv       9P LOSS MUTATED 9P LOSS WILD-TYPE
  CLUS_1              15                33
  CLUS_2              16                28
  CLUS_3              32                26
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  9P LOSS MUTATED       23     21     19
  9P LOSS WILD-TYPE     33     28     26
D52V2, multiclass
        clus
vv       9P LOSS MUTATED 9P LOSS WILD-TYPE
  CLUS_1              23                33
  CLUS_2              21                28
  CLUS_3              19                26
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  9P LOSS MUTATED       28     17     18
  9P LOSS WILD-TYPE     42     23     22
D52V3, multiclass
        clus
vv       9P LOSS MUTATED 9P LOSS WILD-TYPE
  CLUS_1              28                42
  CLUS_2              17                23
  CLUS_3              18                22
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- 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
  9P LOSS MUTATED       15     13      8     11      2     10      4
  9P LOSS WILD-TYPE     28     14      4     13      6     13      9
D52V4, multiclass
        clus
vv       9P LOSS MUTATED 9P LOSS WILD-TYPE
  CLUS_1              15                28
  CLUS_2              13                14
  CLUS_3               8                 4
  CLUS_4              11                13
  CLUS_5               2                 6
  CLUS_6              10                13
  CLUS_7               4                 9
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  9P LOSS MUTATED        3     10      5     12
  9P LOSS WILD-TYPE      9     11     11     13
D52V5, multiclass
        clus
vv       9P LOSS MUTATED 9P LOSS WILD-TYPE
  CLUS_1               3                 9
  CLUS_2              10                11
  CLUS_3               5                11
  CLUS_4              12                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
  9P LOSS MUTATED       17      8      5
  9P LOSS WILD-TYPE     27      7     10
D52V6, multiclass
        clus
vv       9P LOSS MUTATED 9P LOSS WILD-TYPE
  CLUS_1              17                27
  CLUS_2               8                 7
  CLUS_3               5                10
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  9P LOSS MUTATED       12      5      5      8
  9P LOSS WILD-TYPE     10      8     15     11
D52V7, multiclass
        clus
vv       9P LOSS MUTATED 9P LOSS WILD-TYPE
  CLUS_1              12                10
  CLUS_2               5                 8
  CLUS_3               5                15
  CLUS_4               8                11
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  9P LOSS MUTATED        2      4      7      5      1      7      4
  9P LOSS WILD-TYPE      9      4      8      6      4      6      7
D52V8, multiclass
        clus
vv       9P LOSS MUTATED 9P LOSS WILD-TYPE
  CLUS_1               2                 9
  CLUS_2               4                 4
  CLUS_3               7                 8
  CLUS_4               5                 6
  CLUS_5               1                 4
  CLUS_6               7                 6
  CLUS_7               4                 7
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(53) Variable = 9Q LOSS MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  9Q LOSS MUTATED       11     13     34
  9Q LOSS WILD-TYPE     37     31     24
D53V1, multiclass
        clus
vv       9Q LOSS MUTATED 9Q LOSS WILD-TYPE
  CLUS_1              11                37
  CLUS_2              13                31
  CLUS_3              34                24
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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 LOSS MUTATED       18     19     21
  9Q LOSS WILD-TYPE     38     30     24
D53V2, multiclass
        clus
vv       9Q LOSS MUTATED 9Q LOSS WILD-TYPE
  CLUS_1              18                38
  CLUS_2              19                30
  CLUS_3              21                24
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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 LOSS MUTATED       23     16     19
  9Q LOSS WILD-TYPE     47     24     21
D53V3, multiclass
        clus
vv       9Q LOSS MUTATED 9Q LOSS WILD-TYPE
  CLUS_1              23                47
  CLUS_2              16                24
  CLUS_3              19                21
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  9Q LOSS MUTATED       13     10      8     13      0     11      3
  9Q LOSS WILD-TYPE     30     17      4     11      8     12     10
D53V4, multiclass
        clus
vv       9Q LOSS MUTATED 9Q LOSS WILD-TYPE
  CLUS_1              13                30
  CLUS_2              10                17
  CLUS_3               8                 4
  CLUS_4              13                11
  CLUS_5               0                 8
  CLUS_6              11                12
  CLUS_7               3                10
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  9Q LOSS MUTATED        3     10      7     10
  9Q LOSS WILD-TYPE      9     11      9     15
D53V5, multiclass
        clus
vv       9Q LOSS MUTATED 9Q LOSS WILD-TYPE
  CLUS_1               3                 9
  CLUS_2              10                11
  CLUS_3               7                 9
  CLUS_4              10                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
  9Q LOSS MUTATED       13     10      7
  9Q LOSS WILD-TYPE     31      5      8
D53V6, multiclass
        clus
vv       9Q LOSS MUTATED 9Q LOSS WILD-TYPE
  CLUS_1              13                31
  CLUS_2              10                 5
  CLUS_3               7                 8
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger 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 LOSS MUTATED        9      7      4     10
  9Q LOSS WILD-TYPE     13      6     16      9
D53V7, multiclass
        clus
vv       9Q LOSS MUTATED 9Q LOSS WILD-TYPE
  CLUS_1               9                13
  CLUS_2               7                 6
  CLUS_3               4                16
  CLUS_4              10                 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 CLUS_5 CLUS_6 CLUS_7
  9Q LOSS MUTATED        2      2      9      6      2      6      3
  9Q LOSS WILD-TYPE      9      6      6      5      3      7      8
D53V8, multiclass
        clus
vv       9Q LOSS MUTATED 9Q LOSS WILD-TYPE
  CLUS_1               2                 9
  CLUS_2               2                 6
  CLUS_3               9                 6
  CLUS_4               6                 5
  CLUS_5               2                 3
  CLUS_6               6                 7
  CLUS_7               3                 8
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(54) Variable = 10P LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  10P LOSS MUTATED       20     19     38
  10P LOSS WILD-TYPE     28     25     20
D54V1, multiclass
        clus
vv       10P LOSS MUTATED 10P LOSS WILD-TYPE
  CLUS_1               20                 28
  CLUS_2               19                 25
  CLUS_3               38                 20
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  10P LOSS MUTATED       20     36     21
  10P LOSS WILD-TYPE     36     13     24
D54V2, multiclass
        clus
vv       10P LOSS MUTATED 10P LOSS WILD-TYPE
  CLUS_1               20                 36
  CLUS_2               36                 13
  CLUS_3               21                 24
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       27     31     19
  10P LOSS WILD-TYPE     43      9     21
D54V3, multiclass
        clus
vv       10P LOSS MUTATED 10P LOSS WILD-TYPE
  CLUS_1               27                 43
  CLUS_2               31                  9
  CLUS_3               19                 21
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  10P LOSS MUTATED       16     11      9     13      6     18      4
  10P LOSS WILD-TYPE     27     16      3     11      2      5      9
D54V4, multiclass
        clus
vv       10P LOSS MUTATED 10P LOSS WILD-TYPE
  CLUS_1               16                 27
  CLUS_2               11                 16
  CLUS_3                9                  3
  CLUS_4               13                 11
  CLUS_5                6                  2
  CLUS_6               18                  5
  CLUS_7                4                  9
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  10P LOSS MUTATED        6     12      8     13
  10P LOSS WILD-TYPE      6      9      8     12
D54V5, multiclass
        clus
vv       10P LOSS MUTATED 10P LOSS WILD-TYPE
  CLUS_1                6                  6
  CLUS_2               12                  9
  CLUS_3                8                  8
  CLUS_4               13                 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
  10P LOSS MUTATED       21     10      8
  10P LOSS WILD-TYPE     23      5      7
D54V6, multiclass
        clus
vv       10P LOSS MUTATED 10P LOSS WILD-TYPE
  CLUS_1               21                 23
  CLUS_2               10                  5
  CLUS_3                8                  7
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  10P LOSS MUTATED       12      9      8     10
  10P LOSS WILD-TYPE     10      4     12      9
D54V7, multiclass
        clus
vv       10P LOSS MUTATED 10P LOSS WILD-TYPE
  CLUS_1               12                 10
  CLUS_2                9                  4
  CLUS_3                8                 12
  CLUS_4               10                  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 CLUS_5 CLUS_6 CLUS_7
  10P LOSS MUTATED        6      4     11      5      3      7      3
  10P LOSS WILD-TYPE      5      4      4      6      2      6      8
D54V8, multiclass
        clus
vv       10P LOSS MUTATED 10P LOSS WILD-TYPE
  CLUS_1                6                  5
  CLUS_2                4                  4
  CLUS_3               11                  4
  CLUS_4                5                  6
  CLUS_5                3                  2
  CLUS_6                7                  6
  CLUS_7                3                  8
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(55) Variable = 10Q LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  10Q LOSS MUTATED       19     16     37
  10Q LOSS WILD-TYPE     29     28     21
D55V1, multiclass
        clus
vv       10Q LOSS MUTATED 10Q LOSS WILD-TYPE
  CLUS_1               19                 29
  CLUS_2               16                 28
  CLUS_3               37                 21
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  10Q LOSS MUTATED       16     36     20
  10Q LOSS WILD-TYPE     40     13     25
D55V2, multiclass
        clus
vv       10Q LOSS MUTATED 10Q LOSS WILD-TYPE
  CLUS_1               16                 40
  CLUS_2               36                 13
  CLUS_3               20                 25
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  10Q LOSS MUTATED       24     30     18
  10Q LOSS WILD-TYPE     46     10     22
D55V3, multiclass
        clus
vv       10Q LOSS MUTATED 10Q LOSS WILD-TYPE
  CLUS_1               24                 46
  CLUS_2               30                 10
  CLUS_3               18                 22
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- 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
  10Q LOSS MUTATED       16      8      9     12      5     18      4
  10Q LOSS WILD-TYPE     27     19      3     12      3      5      9
D55V4, multiclass
        clus
vv       10Q LOSS MUTATED 10Q LOSS WILD-TYPE
  CLUS_1               16                 27
  CLUS_2                8                 19
  CLUS_3                9                  3
  CLUS_4               12                 12
  CLUS_5                5                  3
  CLUS_6               18                  5
  CLUS_7                4                  9
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  10Q LOSS MUTATED        6     13      7      9
  10Q LOSS WILD-TYPE      6      8      9     16
D55V5, multiclass
        clus
vv       10Q LOSS MUTATED 10Q LOSS WILD-TYPE
  CLUS_1                6                  6
  CLUS_2               13                  8
  CLUS_3                7                  9
  CLUS_4                9                 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
  10Q LOSS MUTATED       17     11      7
  10Q LOSS WILD-TYPE     27      4      8
D55V6, multiclass
        clus
vv       10Q LOSS MUTATED 10Q LOSS WILD-TYPE
  CLUS_1               17                 27
  CLUS_2               11                  4
  CLUS_3                7                  8
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  10Q LOSS MUTATED        8     10      8      9
  10Q LOSS WILD-TYPE     14      3     12     10
D55V7, multiclass
        clus
vv       10Q LOSS MUTATED 10Q LOSS WILD-TYPE
  CLUS_1                8                 14
  CLUS_2               10                  3
  CLUS_3                8                 12
  CLUS_4                9                 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 CLUS_5 CLUS_6 CLUS_7
  10Q LOSS MUTATED        6      2     12      4      3      5      3
  10Q LOSS WILD-TYPE      5      6      3      7      2      8      8
D55V8, multiclass
        clus
vv       10Q LOSS MUTATED 10Q LOSS WILD-TYPE
  CLUS_1                6                  5
  CLUS_2                2                  6
  CLUS_3               12                  3
  CLUS_4                4                  7
  CLUS_5                3                  2
  CLUS_6                5                  8
  CLUS_7                3                  8
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(56) Variable = 11P LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  11P LOSS MUTATED       25     36     37
  11P LOSS WILD-TYPE     23      8     21
D56V1, multiclass
        clus
vv       11P LOSS MUTATED 11P LOSS WILD-TYPE
  CLUS_1               25                 23
  CLUS_2               36                  8
  CLUS_3               37                 21
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  11P LOSS MUTATED       41     32     25
  11P LOSS WILD-TYPE     15     17     20
D56V2, multiclass
        clus
vv       11P LOSS MUTATED 11P LOSS WILD-TYPE
  CLUS_1               41                 15
  CLUS_2               32                 17
  CLUS_3               25                 20
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  11P LOSS MUTATED       54     28     16
  11P LOSS WILD-TYPE     16     12     24
D56V3, multiclass
        clus
vv       11P LOSS MUTATED 11P LOSS WILD-TYPE
  CLUS_1               54                 16
  CLUS_2               28                 12
  CLUS_3               16                 24
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- 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
  11P LOSS MUTATED       32     22      8     12      4     18      2
  11P LOSS WILD-TYPE     11      5      4     12      4      5     11
D56V4, multiclass
        clus
vv       11P LOSS MUTATED 11P LOSS WILD-TYPE
  CLUS_1               32                 11
  CLUS_2               22                  5
  CLUS_3                8                  4
  CLUS_4               12                 12
  CLUS_5                4                  4
  CLUS_6               18                  5
  CLUS_7                2                 11
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  11P LOSS MUTATED       10     16      4     21
  11P LOSS WILD-TYPE      2      5     12      4
D56V5, multiclass
        clus
vv       11P LOSS MUTATED 11P LOSS WILD-TYPE
  CLUS_1               10                  2
  CLUS_2               16                  5
  CLUS_3                4                 12
  CLUS_4               21                  4
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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       36     11      4
  11P LOSS WILD-TYPE      8      4     11
D56V6, multiclass
        clus
vv       11P LOSS MUTATED 11P LOSS WILD-TYPE
  CLUS_1               36                  8
  CLUS_2               11                  4
  CLUS_3                4                 11
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  11P LOSS MUTATED       19      9     16      7
  11P LOSS WILD-TYPE      3      4      4     12
D56V7, multiclass
        clus
vv       11P LOSS MUTATED 11P LOSS WILD-TYPE
  CLUS_1               19                  3
  CLUS_2                9                  4
  CLUS_3               16                  4
  CLUS_4                7                 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 CLUS_5 CLUS_6 CLUS_7
  11P LOSS MUTATED       10      6     10      3      2     11      9
  11P LOSS WILD-TYPE      1      2      5      8      3      2      2
D56V8, multiclass
        clus
vv       11P LOSS MUTATED 11P LOSS WILD-TYPE
  CLUS_1               10                  1
  CLUS_2                6                  2
  CLUS_3               10                  5
  CLUS_4                3                  8
  CLUS_5                2                  3
  CLUS_6               11                  2
  CLUS_7                9                  2
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(57) Variable = 11Q LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  11Q LOSS MUTATED       30     44     41
  11Q LOSS WILD-TYPE     18      0     17
D57V1, multiclass
        clus
vv       11Q LOSS MUTATED 11Q LOSS WILD-TYPE
  CLUS_1               30                 18
  CLUS_2               44                  0
  CLUS_3               41                 17
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  11Q LOSS MUTATED       47     38     30
  11Q LOSS WILD-TYPE      9     11     15
D57V2, multiclass
        clus
vv       11Q LOSS MUTATED 11Q LOSS WILD-TYPE
  CLUS_1               47                  9
  CLUS_2               38                 11
  CLUS_3               30                 15
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  11Q LOSS MUTATED       62     32     21
  11Q LOSS WILD-TYPE      8      8     19
D57V3, multiclass
        clus
vv       11Q LOSS MUTATED 11Q LOSS WILD-TYPE
  CLUS_1               62                  8
  CLUS_2               32                  8
  CLUS_3               21                 19
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  11Q LOSS MUTATED       35     27     11     15      6     18      3
  11Q LOSS WILD-TYPE      8      0      1      9      2      5     10
D57V4, multiclass
        clus
vv       11Q LOSS MUTATED 11Q LOSS WILD-TYPE
  CLUS_1               35                  8
  CLUS_2               27                  0
  CLUS_3               11                  1
  CLUS_4               15                  9
  CLUS_5                6                  2
  CLUS_6               18                  5
  CLUS_7                3                 10
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  11Q LOSS MUTATED        9     19      8     25
  11Q LOSS WILD-TYPE      3      2      8      0
D57V5, multiclass
        clus
vv       11Q LOSS MUTATED 11Q LOSS WILD-TYPE
  CLUS_1                9                  3
  CLUS_2               19                  2
  CLUS_3                8                  8
  CLUS_4               25                  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
  11Q LOSS MUTATED       40     13      8
  11Q LOSS WILD-TYPE      4      2      7
D57V6, multiclass
        clus
vv       11Q LOSS MUTATED 11Q LOSS WILD-TYPE
  CLUS_1               40                  4
  CLUS_2               13                  2
  CLUS_3                8                  7
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  11Q LOSS MUTATED       22     10     17     12
  11Q LOSS WILD-TYPE      0      3      3      7
D57V7, multiclass
        clus
vv       11Q LOSS MUTATED 11Q LOSS WILD-TYPE
  CLUS_1               22                  0
  CLUS_2               10                  3
  CLUS_3               17                  3
  CLUS_4               12                  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 CLUS_5 CLUS_6 CLUS_7
  11Q LOSS MUTATED       10      8     12      5      4     13      9
  11Q LOSS WILD-TYPE      1      0      3      6      1      0      2
D57V8, multiclass
        clus
vv       11Q LOSS MUTATED 11Q LOSS WILD-TYPE
  CLUS_1               10                  1
  CLUS_2                8                  0
  CLUS_3               12                  3
  CLUS_4                5                  6
  CLUS_5                4                  1
  CLUS_6               13                  0
  CLUS_7                9                  2
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(58) Variable = 13Q LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  13Q LOSS MUTATED       34     39     40
  13Q LOSS WILD-TYPE     14      5     18
D58V1, multiclass
        clus
vv       13Q LOSS MUTATED 13Q LOSS WILD-TYPE
  CLUS_1               34                 14
  CLUS_2               39                  5
  CLUS_3               40                 18
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  13Q LOSS MUTATED       46     36     31
  13Q LOSS WILD-TYPE     10     13     14
D58V2, multiclass
        clus
vv       13Q LOSS MUTATED 13Q LOSS WILD-TYPE
  CLUS_1               46                 10
  CLUS_2               36                 13
  CLUS_3               31                 14
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       58     31     24
  13Q LOSS WILD-TYPE     12      9     16
D58V3, multiclass
        clus
vv       13Q LOSS MUTATED 13Q LOSS WILD-TYPE
  CLUS_1               58                 12
  CLUS_2               31                  9
  CLUS_3               24                 16
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- 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
  13Q LOSS MUTATED       31     27     11     14      6     17      7
  13Q LOSS WILD-TYPE     12      0      1     10      2      6      6
D58V4, multiclass
        clus
vv       13Q LOSS MUTATED 13Q LOSS WILD-TYPE
  CLUS_1               31                 12
  CLUS_2               27                  0
  CLUS_3               11                  1
  CLUS_4               14                 10
  CLUS_5                6                  2
  CLUS_6               17                  6
  CLUS_7                7                  6
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  13Q LOSS MUTATED        9     17      9     22
  13Q LOSS WILD-TYPE      3      4      7      3
D58V5, multiclass
        clus
vv       13Q LOSS MUTATED 13Q LOSS WILD-TYPE
  CLUS_1                9                  3
  CLUS_2               17                  4
  CLUS_3                9                  7
  CLUS_4               22                  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
  13Q LOSS MUTATED       37     11      9
  13Q LOSS WILD-TYPE      7      4      6
D58V6, multiclass
        clus
vv       13Q LOSS MUTATED 13Q LOSS WILD-TYPE
  CLUS_1               37                  7
  CLUS_2               11                  4
  CLUS_3                9                  6
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger 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       22      9     13     13
  13Q LOSS WILD-TYPE      0      4      7      6
D58V7, multiclass
        clus
vv       13Q LOSS MUTATED 13Q LOSS WILD-TYPE
  CLUS_1               22                  0
  CLUS_2                9                  4
  CLUS_3               13                  7
  CLUS_4               13                  6
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  13Q LOSS MUTATED        7      8     11      8      2     13      8
  13Q LOSS WILD-TYPE      4      0      4      3      3      0      3
D58V8, multiclass
        clus
vv       13Q LOSS MUTATED 13Q LOSS WILD-TYPE
  CLUS_1                7                  4
  CLUS_2                8                  0
  CLUS_3               11                  4
  CLUS_4                8                  3
  CLUS_5                2                  3
  CLUS_6               13                  0
  CLUS_7                8                  3
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(59) Variable = 14Q LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  14Q LOSS MUTATED        5      3     12
  14Q LOSS WILD-TYPE     43     41     46
D59V1, multiclass
        clus
vv       14Q LOSS MUTATED 14Q LOSS WILD-TYPE
  CLUS_1                5                 43
  CLUS_2                3                 41
  CLUS_3               12                 46
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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 LOSS MUTATED        2     14      4
  14Q LOSS WILD-TYPE     54     35     41
D59V2, multiclass
        clus
vv       14Q LOSS MUTATED 14Q LOSS WILD-TYPE
  CLUS_1                2                 54
  CLUS_2               14                 35
  CLUS_3                4                 41
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  14Q LOSS MUTATED        3     10      7
  14Q LOSS WILD-TYPE     67     30     33
D59V3, multiclass
        clus
vv       14Q LOSS MUTATED 14Q LOSS WILD-TYPE
  CLUS_1                3                 67
  CLUS_2               10                 30
  CLUS_3                7                 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 CLUS_5 CLUS_6 CLUS_7
  14Q LOSS MUTATED        0      3      0      5      0     10      2
  14Q LOSS WILD-TYPE     43     24     12     19      8     13     11
D59V4, multiclass
        clus
vv       14Q LOSS MUTATED 14Q LOSS WILD-TYPE
  CLUS_1                0                 43
  CLUS_2                3                 24
  CLUS_3                0                 12
  CLUS_4                5                 19
  CLUS_5                0                  8
  CLUS_6               10                 13
  CLUS_7                2                 11
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  14Q LOSS MUTATED        0      3      3      0
  14Q LOSS WILD-TYPE     12     18     13     25
D59V5, multiclass
        clus
vv       14Q LOSS MUTATED 14Q LOSS WILD-TYPE
  CLUS_1                0                 12
  CLUS_2                3                 18
  CLUS_3                3                 13
  CLUS_4                0                 25
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  14Q LOSS MUTATED        0      3      3
  14Q LOSS WILD-TYPE     44     12     12
D59V6, multiclass
        clus
vv       14Q LOSS MUTATED 14Q LOSS WILD-TYPE
  CLUS_1                0                 44
  CLUS_2                3                 12
  CLUS_3                3                 12
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger 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 LOSS MUTATED        0      3      0      3
  14Q LOSS WILD-TYPE     22     10     20     16
D59V7, multiclass
        clus
vv       14Q LOSS MUTATED 14Q LOSS WILD-TYPE
  CLUS_1                0                 22
  CLUS_2                3                 10
  CLUS_3                0                 20
  CLUS_4                3                 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 CLUS_5 CLUS_6 CLUS_7
  14Q LOSS MUTATED        0      0      3      3      0      0      0
  14Q LOSS WILD-TYPE     11      8     12      8      5     13     11
D59V8, multiclass
        clus
vv       14Q LOSS MUTATED 14Q LOSS WILD-TYPE
  CLUS_1                0                 11
  CLUS_2                0                  8
  CLUS_3                3                 12
  CLUS_4                3                  8
  CLUS_5                0                  5
  CLUS_6                0                 13
  CLUS_7                0                 11
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(60) Variable = 15Q LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  15Q LOSS MUTATED       11      2     16
  15Q LOSS WILD-TYPE     37     42     42
D60V1, multiclass
        clus
vv       15Q LOSS MUTATED 15Q LOSS WILD-TYPE
  CLUS_1               11                 37
  CLUS_2                2                 42
  CLUS_3               16                 42
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  15Q LOSS MUTATED        1     17     11
  15Q LOSS WILD-TYPE     55     32     34
D60V2, multiclass
        clus
vv       15Q LOSS MUTATED 15Q LOSS WILD-TYPE
  CLUS_1                1                 55
  CLUS_2               17                 32
  CLUS_3               11                 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
  15Q LOSS MUTATED        1     13     15
  15Q LOSS WILD-TYPE     69     27     25
D60V3, multiclass
        clus
vv       15Q LOSS MUTATED 15Q LOSS WILD-TYPE
  CLUS_1                1                 69
  CLUS_2               13                 27
  CLUS_3               15                 25
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  15Q LOSS MUTATED        0      1      3      7      4      8      6
  15Q LOSS WILD-TYPE     43     26      9     17      4     15      7
D60V4, multiclass
        clus
vv       15Q LOSS MUTATED 15Q LOSS WILD-TYPE
  CLUS_1                0                 43
  CLUS_2                1                 26
  CLUS_3                3                  9
  CLUS_4                7                 17
  CLUS_5                4                  4
  CLUS_6                8                 15
  CLUS_7                6                  7
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  15Q LOSS MUTATED        0      4      6      1
  15Q LOSS WILD-TYPE     12     17     10     24
D60V5, multiclass
        clus
vv       15Q LOSS MUTATED 15Q LOSS WILD-TYPE
  CLUS_1                0                 12
  CLUS_2                4                 17
  CLUS_3                6                 10
  CLUS_4                1                 24
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  15Q LOSS MUTATED        2      3      6
  15Q LOSS WILD-TYPE     42     12      9
D60V6, multiclass
        clus
vv       15Q LOSS MUTATED 15Q LOSS WILD-TYPE
  CLUS_1                2                 42
  CLUS_2                3                 12
  CLUS_3                6                  9
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  15Q LOSS MUTATED        1      2      0      8
  15Q LOSS WILD-TYPE     21     11     20     11
D60V7, multiclass
        clus
vv       15Q LOSS MUTATED 15Q LOSS WILD-TYPE
  CLUS_1                1                 21
  CLUS_2                2                 11
  CLUS_3                0                 20
  CLUS_4                8                 11
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  15Q LOSS MUTATED        0      1      4      6      0      0      0
  15Q LOSS WILD-TYPE     11      7     11      5      5     13     11
D60V8, multiclass
        clus
vv       15Q LOSS MUTATED 15Q LOSS WILD-TYPE
  CLUS_1                0                 11
  CLUS_2                1                  7
  CLUS_3                4                 11
  CLUS_4                6                  5
  CLUS_5                0                  5
  CLUS_6                0                 13
  CLUS_7                0                 11
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(61) Variable = 16P LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  16P LOSS MUTATED       12     18     14
  16P LOSS WILD-TYPE     36     26     44
D61V1, multiclass
        clus
vv       16P LOSS MUTATED 16P LOSS WILD-TYPE
  CLUS_1               12                 36
  CLUS_2               18                 26
  CLUS_3               14                 44
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       17     21      6
  16P LOSS WILD-TYPE     39     28     39
D61V2, multiclass
        clus
vv       16P LOSS MUTATED 16P LOSS WILD-TYPE
  CLUS_1               17                 39
  CLUS_2               21                 28
  CLUS_3                6                 39
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       19     17      8
  16P LOSS WILD-TYPE     51     23     32
D61V3, multiclass
        clus
vv       16P LOSS MUTATED 16P LOSS WILD-TYPE
  CLUS_1               19                 51
  CLUS_2               17                 23
  CLUS_3                8                 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 CLUS_5 CLUS_6 CLUS_7
  16P LOSS MUTATED       11      8      5      3      4      9      4
  16P LOSS WILD-TYPE     32     19      7     21      4     14      9
D61V4, multiclass
        clus
vv       16P LOSS MUTATED 16P LOSS WILD-TYPE
  CLUS_1               11                 32
  CLUS_2                8                 19
  CLUS_3                5                  7
  CLUS_4                3                 21
  CLUS_5                4                  4
  CLUS_6                9                 14
  CLUS_7                4                  9
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  16P LOSS MUTATED        4     12      3      8
  16P LOSS WILD-TYPE      8      9     13     17
D61V5, multiclass
        clus
vv       16P LOSS MUTATED 16P LOSS WILD-TYPE
  CLUS_1                4                  8
  CLUS_2               12                  9
  CLUS_3                3                 13
  CLUS_4                8                 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
  16P LOSS MUTATED       17      7      3
  16P LOSS WILD-TYPE     27      8     12
D61V6, multiclass
        clus
vv       16P LOSS MUTATED 16P LOSS WILD-TYPE
  CLUS_1               17                 27
  CLUS_2                7                  8
  CLUS_3                3                 12
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger 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        9      7      6      5
  16P LOSS WILD-TYPE     13      6     14     14
D61V7, multiclass
        clus
vv       16P LOSS MUTATED 16P LOSS WILD-TYPE
  CLUS_1                9                 13
  CLUS_2                7                  6
  CLUS_3                6                 14
  CLUS_4                5                 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 CLUS_5 CLUS_6 CLUS_7
  16P LOSS MUTATED        4      6      7      2      2      4      2
  16P LOSS WILD-TYPE      7      2      8      9      3      9      9
D61V8, multiclass
        clus
vv       16P LOSS MUTATED 16P LOSS WILD-TYPE
  CLUS_1                4                  7
  CLUS_2                6                  2
  CLUS_3                7                  8
  CLUS_4                2                  9
  CLUS_5                2                  3
  CLUS_6                4                  9
  CLUS_7                2                  9
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(62) Variable = 16Q LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  16Q LOSS MUTATED       13     21     17
  16Q LOSS WILD-TYPE     35     23     41
D62V1, multiclass
        clus
vv       16Q LOSS MUTATED 16Q LOSS WILD-TYPE
  CLUS_1               13                 35
  CLUS_2               21                 23
  CLUS_3               17                 41
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  16Q LOSS MUTATED       19     22     10
  16Q LOSS WILD-TYPE     37     27     35
D62V2, multiclass
        clus
vv       16Q LOSS MUTATED 16Q LOSS WILD-TYPE
  CLUS_1               19                 37
  CLUS_2               22                 27
  CLUS_3               10                 35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  16Q LOSS MUTATED       22     18     11
  16Q LOSS WILD-TYPE     48     22     29
D62V3, multiclass
        clus
vv       16Q LOSS MUTATED 16Q LOSS WILD-TYPE
  CLUS_1               22                 48
  CLUS_2               18                 22
  CLUS_3               11                 29
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- 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
  16Q LOSS MUTATED       13      9      6      5      4     10      4
  16Q LOSS WILD-TYPE     30     18      6     19      4     13      9
D62V4, multiclass
        clus
vv       16Q LOSS MUTATED 16Q LOSS WILD-TYPE
  CLUS_1               13                 30
  CLUS_2                9                 18
  CLUS_3                6                  6
  CLUS_4                5                 19
  CLUS_5                4                  4
  CLUS_6               10                 13
  CLUS_7                4                  9
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  16Q LOSS MUTATED        5     12      3      7
  16Q LOSS WILD-TYPE      7      9     13     18
D62V5, multiclass
        clus
vv       16Q LOSS MUTATED 16Q LOSS WILD-TYPE
  CLUS_1                5                  7
  CLUS_2               12                  9
  CLUS_3                3                 13
  CLUS_4                7                 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
  16Q LOSS MUTATED       17      7      3
  16Q LOSS WILD-TYPE     27      8     12
D62V6, multiclass
        clus
vv       16Q LOSS MUTATED 16Q LOSS WILD-TYPE
  CLUS_1               17                 27
  CLUS_2                7                  8
  CLUS_3                3                 12
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger 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        9      7      6      5
  16Q LOSS WILD-TYPE     13      6     14     14
D62V7, multiclass
        clus
vv       16Q LOSS MUTATED 16Q LOSS WILD-TYPE
  CLUS_1                9                 13
  CLUS_2                7                  6
  CLUS_3                6                 14
  CLUS_4                5                 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 CLUS_5 CLUS_6 CLUS_7
  16Q LOSS MUTATED        5      5      7      2      2      4      2
  16Q LOSS WILD-TYPE      6      3      8      9      3      9      9
D62V8, multiclass
        clus
vv       16Q LOSS MUTATED 16Q LOSS WILD-TYPE
  CLUS_1                5                  6
  CLUS_2                5                  3
  CLUS_3                7                  8
  CLUS_4                2                  9
  CLUS_5                2                  3
  CLUS_6                4                  9
  CLUS_7                2                  9
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(63) Variable = 17P LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  17P LOSS MUTATED        5     23      9
  17P LOSS WILD-TYPE     43     21     49
D63V1, multiclass
        clus
vv       17P LOSS MUTATED 17P LOSS WILD-TYPE
  CLUS_1                5                 43
  CLUS_2               23                 21
  CLUS_3                9                 49
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  17P LOSS MUTATED       18      6     13
  17P LOSS WILD-TYPE     38     43     32
D63V2, multiclass
        clus
vv       17P LOSS MUTATED 17P LOSS WILD-TYPE
  CLUS_1               18                 38
  CLUS_2                6                 43
  CLUS_3               13                 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
  17P LOSS MUTATED       26      5      6
  17P LOSS WILD-TYPE     44     35     34
D63V3, multiclass
        clus
vv       17P LOSS MUTATED 17P LOSS WILD-TYPE
  CLUS_1               26                 44
  CLUS_2                5                 35
  CLUS_3                6                 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 CLUS_5 CLUS_6 CLUS_7
  17P LOSS MUTATED       10     16      2      1      0      4      4
  17P LOSS WILD-TYPE     33     11     10     23      8     19      9
D63V4, multiclass
        clus
vv       17P LOSS MUTATED 17P LOSS WILD-TYPE
  CLUS_1               10                 33
  CLUS_2               16                 11
  CLUS_3                2                 10
  CLUS_4                1                 23
  CLUS_5                0                  8
  CLUS_6                4                 19
  CLUS_7                4                  9
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  17P LOSS MUTATED        2      4      2     13
  17P LOSS WILD-TYPE     10     17     14     12
D63V5, multiclass
        clus
vv       17P LOSS MUTATED 17P LOSS WILD-TYPE
  CLUS_1                2                 10
  CLUS_2                4                 17
  CLUS_3                2                 14
  CLUS_4               13                 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
  17P LOSS MUTATED       17      2      2
  17P LOSS WILD-TYPE     27     13     13
D63V6, multiclass
        clus
vv       17P LOSS MUTATED 17P LOSS WILD-TYPE
  CLUS_1               17                 27
  CLUS_2                2                 13
  CLUS_3                2                 13
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  17P LOSS MUTATED       13      1      4      3
  17P LOSS WILD-TYPE      9     12     16     16
D63V7, multiclass
        clus
vv       17P LOSS MUTATED 17P LOSS WILD-TYPE
  CLUS_1               13                  9
  CLUS_2                1                 12
  CLUS_3                4                 16
  CLUS_4                3                 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 CLUS_5 CLUS_6 CLUS_7
  17P LOSS MUTATED        2      3      2      1      1      9      3
  17P LOSS WILD-TYPE      9      5     13     10      4      4      8
D63V8, multiclass
        clus
vv       17P LOSS MUTATED 17P LOSS WILD-TYPE
  CLUS_1                2                  9
  CLUS_2                3                  5
  CLUS_3                2                 13
  CLUS_4                1                 10
  CLUS_5                1                  4
  CLUS_6                9                  4
  CLUS_7                3                  8
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(64) Variable = 17Q LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  17Q LOSS MUTATED        1     10      5
  17Q LOSS WILD-TYPE     47     34     53
D64V1, multiclass
        clus
vv       17Q LOSS MUTATED 17Q LOSS WILD-TYPE
  CLUS_1                1                 47
  CLUS_2               10                 34
  CLUS_3                5                 53
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  17Q LOSS MUTATED        9      2      5
  17Q LOSS WILD-TYPE     47     47     40
D64V2, multiclass
        clus
vv       17Q LOSS MUTATED 17Q LOSS WILD-TYPE
  CLUS_1                9                 47
  CLUS_2                2                 47
  CLUS_3                5                 40
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       13      2      1
  17Q LOSS WILD-TYPE     57     38     39
D64V3, multiclass
        clus
vv       17Q LOSS MUTATED 17Q LOSS WILD-TYPE
  CLUS_1               13                 57
  CLUS_2                2                 38
  CLUS_3                1                 39
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- 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
  17Q LOSS MUTATED        5      8      0      0      0      2      1
  17Q LOSS WILD-TYPE     38     19     12     24      8     21     12
D64V4, multiclass
        clus
vv       17Q LOSS MUTATED 17Q LOSS WILD-TYPE
  CLUS_1                5                 38
  CLUS_2                8                 19
  CLUS_3                0                 12
  CLUS_4                0                 24
  CLUS_5                0                  8
  CLUS_6                2                 21
  CLUS_7                1                 12
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  17Q LOSS MUTATED        1      1      0      6
  17Q LOSS WILD-TYPE     11     20     16     19
D64V5, multiclass
        clus
vv       17Q LOSS MUTATED 17Q LOSS WILD-TYPE
  CLUS_1                1                 11
  CLUS_2                1                 20
  CLUS_3                0                 16
  CLUS_4                6                 19
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  17Q LOSS MUTATED        8      0      0
  17Q LOSS WILD-TYPE     36     15     15
D64V6, multiclass
        clus
vv       17Q LOSS MUTATED 17Q LOSS WILD-TYPE
  CLUS_1                8                 36
  CLUS_2                0                 15
  CLUS_3                0                 15
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  17Q LOSS MUTATED        6      0      2      0
  17Q LOSS WILD-TYPE     16     13     18     19
D64V7, multiclass
        clus
vv       17Q LOSS MUTATED 17Q LOSS WILD-TYPE
  CLUS_1                6                 16
  CLUS_2                0                 13
  CLUS_3                2                 18
  CLUS_4                0                 19
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  17Q LOSS MUTATED        1      2      0      0      0      4      1
  17Q LOSS WILD-TYPE     10      6     15     11      5      9     10
D64V8, multiclass
        clus
vv       17Q LOSS MUTATED 17Q LOSS WILD-TYPE
  CLUS_1                1                 10
  CLUS_2                2                  6
  CLUS_3                0                 15
  CLUS_4                0                 11
  CLUS_5                0                  5
  CLUS_6                4                  9
  CLUS_7                1                 10
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(65) Variable = 18P LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  18P LOSS MUTATED       35     35     46
  18P LOSS WILD-TYPE     13      9     12
D65V1, multiclass
        clus
vv       18P LOSS MUTATED 18P LOSS WILD-TYPE
  CLUS_1               35                 13
  CLUS_2               35                  9
  CLUS_3               46                 12
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       42     43     31
  18P LOSS WILD-TYPE     14      6     14
D65V2, multiclass
        clus
vv       18P LOSS MUTATED 18P LOSS WILD-TYPE
  CLUS_1               42                 14
  CLUS_2               43                  6
  CLUS_3               31                 14
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       53     36     27
  18P LOSS WILD-TYPE     17      4     13
D65V3, multiclass
        clus
vv       18P LOSS MUTATED 18P LOSS WILD-TYPE
  CLUS_1               53                 17
  CLUS_2               36                  4
  CLUS_3               27                 13
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  18P LOSS MUTATED       33     20     11     15      7     21      9
  18P LOSS WILD-TYPE     10      7      1      9      1      2      4
D65V4, multiclass
        clus
vv       18P LOSS MUTATED 18P LOSS WILD-TYPE
  CLUS_1               33                 10
  CLUS_2               20                  7
  CLUS_3               11                  1
  CLUS_4               15                  9
  CLUS_5                7                  1
  CLUS_6               21                  2
  CLUS_7                9                  4
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  18P LOSS MUTATED       11     18      9     20
  18P LOSS WILD-TYPE      1      3      7      5
D65V5, multiclass
        clus
vv       18P LOSS MUTATED 18P LOSS WILD-TYPE
  CLUS_1               11                  1
  CLUS_2               18                  3
  CLUS_3                9                  7
  CLUS_4               20                  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
  18P LOSS MUTATED       35     14      9
  18P LOSS WILD-TYPE      9      1      6
D65V6, multiclass
        clus
vv       18P LOSS MUTATED 18P LOSS WILD-TYPE
  CLUS_1               35                  9
  CLUS_2               14                  1
  CLUS_3                9                  6
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger 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       21     10     14     13
  18P LOSS WILD-TYPE      1      3      6      6
D65V7, multiclass
        clus
vv       18P LOSS MUTATED 18P LOSS WILD-TYPE
  CLUS_1               21                  1
  CLUS_2               10                  3
  CLUS_3               14                  6
  CLUS_4               13                  6
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  18P LOSS MUTATED       10      7     13      6      4     12      6
  18P LOSS WILD-TYPE      1      1      2      5      1      1      5
D65V8, multiclass
        clus
vv       18P LOSS MUTATED 18P LOSS WILD-TYPE
  CLUS_1               10                  1
  CLUS_2                7                  1
  CLUS_3               13                  2
  CLUS_4                6                  5
  CLUS_5                4                  1
  CLUS_6               12                  1
  CLUS_7                6                  5
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(66) Variable = 18Q LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  18Q LOSS MUTATED       35     40     47
  18Q LOSS WILD-TYPE     13      4     11
D66V1, multiclass
        clus
vv       18Q LOSS MUTATED 18Q LOSS WILD-TYPE
  CLUS_1               35                 13
  CLUS_2               40                  4
  CLUS_3               47                 11
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  18Q LOSS MUTATED       45     43     34
  18Q LOSS WILD-TYPE     11      6     11
D66V2, multiclass
        clus
vv       18Q LOSS MUTATED 18Q LOSS WILD-TYPE
  CLUS_1               45                 11
  CLUS_2               43                  6
  CLUS_3               34                 11
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  18Q LOSS MUTATED       58     36     28
  18Q LOSS WILD-TYPE     12      4     12
D66V3, multiclass
        clus
vv       18Q LOSS MUTATED 18Q LOSS WILD-TYPE
  CLUS_1               58                 12
  CLUS_2               36                  4
  CLUS_3               28                 12
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- 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
  18Q LOSS MUTATED       33     25     11     16      7     21      9
  18Q LOSS WILD-TYPE     10      2      1      8      1      2      4
D66V4, multiclass
        clus
vv       18Q LOSS MUTATED 18Q LOSS WILD-TYPE
  CLUS_1               33                 10
  CLUS_2               25                  2
  CLUS_3               11                  1
  CLUS_4               16                  8
  CLUS_5                7                  1
  CLUS_6               21                  2
  CLUS_7                9                  4
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  18Q LOSS MUTATED       11     19      9     21
  18Q LOSS WILD-TYPE      1      2      7      4
D66V5, multiclass
        clus
vv       18Q LOSS MUTATED 18Q LOSS WILD-TYPE
  CLUS_1               11                  1
  CLUS_2               19                  2
  CLUS_3                9                  7
  CLUS_4               21                  4
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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       37     14      9
  18Q LOSS WILD-TYPE      7      1      6
D66V6, multiclass
        clus
vv       18Q LOSS MUTATED 18Q LOSS WILD-TYPE
  CLUS_1               37                  7
  CLUS_2               14                  1
  CLUS_3                9                  6
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger 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       22     11     14     13
  18Q LOSS WILD-TYPE      0      2      6      6
D66V7, multiclass
        clus
vv       18Q LOSS MUTATED 18Q LOSS WILD-TYPE
  CLUS_1               22                  0
  CLUS_2               11                  2
  CLUS_3               14                  6
  CLUS_4               13                  6
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  18Q LOSS MUTATED       10      8     13      6      4     13      6
  18Q LOSS WILD-TYPE      1      0      2      5      1      0      5
D66V8, multiclass
        clus
vv       18Q LOSS MUTATED 18Q LOSS WILD-TYPE
  CLUS_1               10                  1
  CLUS_2                8                  0
  CLUS_3               13                  2
  CLUS_4                6                  5
  CLUS_5                4                  1
  CLUS_6               13                  0
  CLUS_7                6                  5
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(67) Variable = 19P LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  19P LOSS MUTATED       12      5     33
  19P LOSS WILD-TYPE     36     39     25
D67V1, multiclass
        clus
vv       19P LOSS MUTATED 19P LOSS WILD-TYPE
  CLUS_1               12                 36
  CLUS_2                5                 39
  CLUS_3               33                 25
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  19P LOSS MUTATED        2     31     17
  19P LOSS WILD-TYPE     54     18     28
D67V2, multiclass
        clus
vv       19P LOSS MUTATED 19P LOSS WILD-TYPE
  CLUS_1                2                 54
  CLUS_2               31                 18
  CLUS_3               17                 28
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  19P LOSS MUTATED        2     27     21
  19P LOSS WILD-TYPE     68     13     19
D67V3, multiclass
        clus
vv       19P LOSS MUTATED 19P LOSS WILD-TYPE
  CLUS_1                2                 68
  CLUS_2               27                 13
  CLUS_3               21                 19
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  19P LOSS MUTATED        0      2      9     12      5     16      6
  19P LOSS WILD-TYPE     43     25      3     12      3      7      7
D67V4, multiclass
        clus
vv       19P LOSS MUTATED 19P LOSS WILD-TYPE
  CLUS_1                0                 43
  CLUS_2                2                 25
  CLUS_3                9                  3
  CLUS_4               12                 12
  CLUS_5                5                  3
  CLUS_6               16                  7
  CLUS_7                6                  7
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  19P LOSS MUTATED        0     15      7      1
  19P LOSS WILD-TYPE     12      6      9     24
D67V5, multiclass
        clus
vv       19P LOSS MUTATED 19P LOSS WILD-TYPE
  CLUS_1                0                 12
  CLUS_2               15                  6
  CLUS_3                7                  9
  CLUS_4                1                 24
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  19P LOSS MUTATED        2     14      7
  19P LOSS WILD-TYPE     42      1      8
D67V6, multiclass
        clus
vv       19P LOSS MUTATED 19P LOSS WILD-TYPE
  CLUS_1                2                 42
  CLUS_2               14                  1
  CLUS_3                7                  8
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger 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        1     11      0     11
  19P LOSS WILD-TYPE     21      2     20      8
D67V7, multiclass
        clus
vv       19P LOSS MUTATED 19P LOSS WILD-TYPE
  CLUS_1                1                 21
  CLUS_2               11                  2
  CLUS_3                0                 20
  CLUS_4               11                  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 CLUS_5 CLUS_6 CLUS_7
  19P LOSS MUTATED        0      0     14      6      2      1      0
  19P LOSS WILD-TYPE     11      8      1      5      3     12     11
D67V8, multiclass
        clus
vv       19P LOSS MUTATED 19P LOSS WILD-TYPE
  CLUS_1                0                 11
  CLUS_2                0                  8
  CLUS_3               14                  1
  CLUS_4                6                  5
  CLUS_5                2                  3
  CLUS_6                1                 12
  CLUS_7                0                 11
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(68) Variable = 19Q LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  19Q LOSS MUTATED       11      7     35
  19Q LOSS WILD-TYPE     37     37     23
D68V1, multiclass
        clus
vv       19Q LOSS MUTATED 19Q LOSS WILD-TYPE
  CLUS_1               11                 37
  CLUS_2                7                 37
  CLUS_3               35                 23
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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     34     18
  19Q LOSS WILD-TYPE     55     15     27
D68V2, multiclass
        clus
vv       19Q LOSS MUTATED 19Q LOSS WILD-TYPE
  CLUS_1                1                 55
  CLUS_2               34                 15
  CLUS_3               18                 27
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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     30     22
  19Q LOSS WILD-TYPE     69     10     18
D68V3, multiclass
        clus
vv       19Q LOSS MUTATED 19Q LOSS WILD-TYPE
  CLUS_1                1                 69
  CLUS_2               30                 10
  CLUS_3               22                 18
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  19Q LOSS MUTATED        0      1      9     13      5     19      6
  19Q LOSS WILD-TYPE     43     26      3     11      3      4      7
D68V4, multiclass
        clus
vv       19Q LOSS MUTATED 19Q LOSS WILD-TYPE
  CLUS_1                0                 43
  CLUS_2                1                 26
  CLUS_3                9                  3
  CLUS_4               13                 11
  CLUS_5                5                  3
  CLUS_6               19                  4
  CLUS_7                6                  7
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  19Q LOSS MUTATED        0     15      6      1
  19Q LOSS WILD-TYPE     12      6     10     24
D68V5, multiclass
        clus
vv       19Q LOSS MUTATED 19Q LOSS WILD-TYPE
  CLUS_1                0                 12
  CLUS_2               15                  6
  CLUS_3                6                 10
  CLUS_4                1                 24
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  19Q LOSS MUTATED        2     14      6
  19Q LOSS WILD-TYPE     42      1      9
D68V6, multiclass
        clus
vv       19Q LOSS MUTATED 19Q LOSS WILD-TYPE
  CLUS_1                2                 42
  CLUS_2               14                  1
  CLUS_3                6                  9
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  19Q LOSS MUTATED        1     11      0     10
  19Q LOSS WILD-TYPE     21      2     20      9
D68V7, multiclass
        clus
vv       19Q LOSS MUTATED 19Q LOSS WILD-TYPE
  CLUS_1                1                 21
  CLUS_2               11                  2
  CLUS_3                0                 20
  CLUS_4               10                  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 CLUS_5 CLUS_6 CLUS_7
  19Q LOSS MUTATED        0      0     14      5      2      1      0
  19Q LOSS WILD-TYPE     11      8      1      6      3     12     11
D68V8, multiclass
        clus
vv       19Q LOSS MUTATED 19Q LOSS WILD-TYPE
  CLUS_1                0                 11
  CLUS_2                0                  8
  CLUS_3               14                  1
  CLUS_4                5                  6
  CLUS_5                2                  3
  CLUS_6                1                 12
  CLUS_7                0                 11
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(69) Variable = 20P LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  20P LOSS MUTATED        6      9     15
  20P LOSS WILD-TYPE     42     35     43
D69V1, multiclass
        clus
vv       20P LOSS MUTATED 20P LOSS WILD-TYPE
  CLUS_1                6                 42
  CLUS_2                9                 35
  CLUS_3               15                 43
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  20P LOSS MUTATED        8     14      8
  20P LOSS WILD-TYPE     48     35     37
D69V2, multiclass
        clus
vv       20P LOSS MUTATED 20P LOSS WILD-TYPE
  CLUS_1                8                 48
  CLUS_2               14                 35
  CLUS_3                8                 37
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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 LOSS MUTATED       11     12      7
  20P LOSS WILD-TYPE     59     28     33
D69V3, multiclass
        clus
vv       20P LOSS MUTATED 20P LOSS WILD-TYPE
  CLUS_1               11                 59
  CLUS_2               12                 28
  CLUS_3                7                 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 CLUS_5 CLUS_6 CLUS_7
  20P LOSS MUTATED        4      7      3      5      2      8      1
  20P LOSS WILD-TYPE     39     20      9     19      6     15     12
D69V4, multiclass
        clus
vv       20P LOSS MUTATED 20P LOSS WILD-TYPE
  CLUS_1                4                 39
  CLUS_2                7                 20
  CLUS_3                3                  9
  CLUS_4                5                 19
  CLUS_5                2                  6
  CLUS_6                8                 15
  CLUS_7                1                 12
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  20P LOSS MUTATED        2      6      2      5
  20P LOSS WILD-TYPE     10     15     14     20
D69V5, multiclass
        clus
vv       20P LOSS MUTATED 20P LOSS WILD-TYPE
  CLUS_1                2                 10
  CLUS_2                6                 15
  CLUS_3                2                 14
  CLUS_4                5                 20
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  20P LOSS MUTATED        7      6      2
  20P LOSS WILD-TYPE     37      9     13
D69V6, multiclass
        clus
vv       20P LOSS MUTATED 20P LOSS WILD-TYPE
  CLUS_1                7                 37
  CLUS_2                6                  9
  CLUS_3                2                 13
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  20P LOSS MUTATED        5      5      2      3
  20P LOSS WILD-TYPE     17      8     18     16
D69V7, multiclass
        clus
vv       20P LOSS MUTATED 20P LOSS WILD-TYPE
  CLUS_1                5                 17
  CLUS_2                5                  8
  CLUS_3                2                 18
  CLUS_4                3                 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 CLUS_5 CLUS_6 CLUS_7
  20P LOSS MUTATED        2      3      6      2      0      2      0
  20P LOSS WILD-TYPE      9      5      9      9      5     11     11
D69V8, multiclass
        clus
vv       20P LOSS MUTATED 20P LOSS WILD-TYPE
  CLUS_1                2                  9
  CLUS_2                3                  5
  CLUS_3                6                  9
  CLUS_4                2                  9
  CLUS_5                0                  5
  CLUS_6                2                 11
  CLUS_7                0                 11
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(70) Variable = 20Q LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  20Q LOSS MUTATED        3      5      7
  20Q LOSS WILD-TYPE     45     39     51
D70V1, multiclass
        clus
vv       20Q LOSS MUTATED 20Q LOSS WILD-TYPE
  CLUS_1                3                 45
  CLUS_2                5                 39
  CLUS_3                7                 51
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  20Q LOSS MUTATED        4      7      4
  20Q LOSS WILD-TYPE     52     42     41
D70V2, multiclass
        clus
vv       20Q LOSS MUTATED 20Q LOSS WILD-TYPE
  CLUS_1                4                 52
  CLUS_2                7                 42
  CLUS_3                4                 41
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  20Q LOSS MUTATED        6      7      2
  20Q LOSS WILD-TYPE     64     33     38
D70V3, multiclass
        clus
vv       20Q LOSS MUTATED 20Q LOSS WILD-TYPE
  CLUS_1                6                 64
  CLUS_2                7                 33
  CLUS_3                2                 38
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  20Q LOSS MUTATED        2      4      1      2      2      4      0
  20Q LOSS WILD-TYPE     41     23     11     22      6     19     13
D70V4, multiclass
        clus
vv       20Q LOSS MUTATED 20Q LOSS WILD-TYPE
  CLUS_1                2                 41
  CLUS_2                4                 23
  CLUS_3                1                 11
  CLUS_4                2                 22
  CLUS_5                2                  6
  CLUS_6                4                 19
  CLUS_7                0                 13
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  20Q LOSS MUTATED        2      4      1      1
  20Q LOSS WILD-TYPE     10     17     15     24
D70V5, multiclass
        clus
vv       20Q LOSS MUTATED 20Q LOSS WILD-TYPE
  CLUS_1                2                 10
  CLUS_2                4                 17
  CLUS_3                1                 15
  CLUS_4                1                 24
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  20Q LOSS MUTATED        3      4      1
  20Q LOSS WILD-TYPE     41     11     14
D70V6, multiclass
        clus
vv       20Q LOSS MUTATED 20Q LOSS WILD-TYPE
  CLUS_1                3                 41
  CLUS_2                4                 11
  CLUS_3                1                 14
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger 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 LOSS MUTATED        1      4      2      1
  20Q LOSS WILD-TYPE     21      9     18     18
D70V7, multiclass
        clus
vv       20Q LOSS MUTATED 20Q LOSS WILD-TYPE
  CLUS_1                1                 21
  CLUS_2                4                  9
  CLUS_3                2                 18
  CLUS_4                1                 18
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  20Q LOSS MUTATED        2      0      4      1      0      1      0
  20Q LOSS WILD-TYPE      9      8     11     10      5     12     11
D70V8, multiclass
        clus
vv       20Q LOSS MUTATED 20Q LOSS WILD-TYPE
  CLUS_1                2                  9
  CLUS_2                0                  8
  CLUS_3                4                 11
  CLUS_4                1                 10
  CLUS_5                0                  5
  CLUS_6                1                 12
  CLUS_7                0                 11
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(71) Variable = 22Q LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  22Q LOSS MUTATED        9      9     27
  22Q LOSS WILD-TYPE     39     35     31
D71V1, multiclass
        clus
vv       22Q LOSS MUTATED 22Q LOSS WILD-TYPE
  CLUS_1                9                 39
  CLUS_2                9                 35
  CLUS_3               27                 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
  22Q LOSS MUTATED        4     28     13
  22Q LOSS WILD-TYPE     52     21     32
D71V2, multiclass
        clus
vv       22Q LOSS MUTATED 22Q LOSS WILD-TYPE
  CLUS_1                4                 52
  CLUS_2               28                 21
  CLUS_3               13                 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
  22Q LOSS MUTATED        6     23     16
  22Q LOSS WILD-TYPE     64     17     24
D71V3, multiclass
        clus
vv       22Q LOSS MUTATED 22Q LOSS WILD-TYPE
  CLUS_1                6                 64
  CLUS_2               23                 17
  CLUS_3               16                 24
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- 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
  22Q LOSS MUTATED        5      1      7     10      4     13      5
  22Q LOSS WILD-TYPE     38     26      5     14      4     10      8
D71V4, multiclass
        clus
vv       22Q LOSS MUTATED 22Q LOSS WILD-TYPE
  CLUS_1                5                 38
  CLUS_2                1                 26
  CLUS_3                7                  5
  CLUS_4               10                 14
  CLUS_5                4                  4
  CLUS_6               13                 10
  CLUS_7                5                  8
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  22Q LOSS MUTATED        2      9      7      1
  22Q LOSS WILD-TYPE     10     12      9     24
D71V5, multiclass
        clus
vv       22Q LOSS MUTATED 22Q LOSS WILD-TYPE
  CLUS_1                2                 10
  CLUS_2                9                 12
  CLUS_3                7                  9
  CLUS_4                1                 24
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  22Q LOSS MUTATED        3     10      6
  22Q LOSS WILD-TYPE     41      5      9
D71V6, multiclass
        clus
vv       22Q LOSS MUTATED 22Q LOSS WILD-TYPE
  CLUS_1                3                 41
  CLUS_2               10                  5
  CLUS_3                6                  9
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  22Q LOSS MUTATED        0      7      3      9
  22Q LOSS WILD-TYPE     22      6     17     10
D71V7, multiclass
        clus
vv       22Q LOSS MUTATED 22Q LOSS WILD-TYPE
  CLUS_1                0                 22
  CLUS_2                7                  6
  CLUS_3                3                 17
  CLUS_4                9                 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 CLUS_5 CLUS_6 CLUS_7
  22Q LOSS MUTATED        2      0      9      5      2      0      1
  22Q LOSS WILD-TYPE      9      8      6      6      3     13     10
D71V8, multiclass
        clus
vv       22Q LOSS MUTATED 22Q LOSS WILD-TYPE
  CLUS_1                2                  9
  CLUS_2                0                  8
  CLUS_3                9                  6
  CLUS_4                5                  6
  CLUS_5                2                  3
  CLUS_6                0                 13
  CLUS_7                1                 10
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(72) Variable = XQ LOSS MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  XQ LOSS MUTATED        1     11     17
  XQ LOSS WILD-TYPE     47     33     41
D72V1, multiclass
        clus
vv       XQ LOSS MUTATED XQ LOSS WILD-TYPE
  CLUS_1               1                47
  CLUS_2              11                33
  CLUS_3              17                41
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  XQ LOSS MUTATED        6      6     17
  XQ LOSS WILD-TYPE     50     43     28
D72V2, multiclass
        clus
vv       XQ LOSS MUTATED XQ LOSS WILD-TYPE
  CLUS_1               6                50
  CLUS_2               6                43
  CLUS_3              17                28
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  XQ LOSS MUTATED       11      6     12
  XQ LOSS WILD-TYPE     59     34     28
D72V3, multiclass
        clus
vv       XQ LOSS MUTATED XQ LOSS WILD-TYPE
  CLUS_1              11                59
  CLUS_2               6                34
  CLUS_3              12                28
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  XQ LOSS MUTATED        4      7      4      7      0      3      4
  XQ LOSS WILD-TYPE     39     20      8     17      8     20      9
D72V4, multiclass
        clus
vv       XQ LOSS MUTATED XQ LOSS WILD-TYPE
  CLUS_1               4                39
  CLUS_2               7                20
  CLUS_3               4                 8
  CLUS_4               7                17
  CLUS_5               0                 8
  CLUS_6               3                20
  CLUS_7               4                 9
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  XQ LOSS MUTATED        0      3      4      4
  XQ LOSS WILD-TYPE     12     18     12     21
D72V5, multiclass
        clus
vv       XQ LOSS MUTATED XQ LOSS WILD-TYPE
  CLUS_1               0                12
  CLUS_2               3                18
  CLUS_3               4                12
  CLUS_4               4                21
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        4      3      4
  XQ LOSS WILD-TYPE     40     12     11
D72V6, multiclass
        clus
vv       XQ LOSS MUTATED XQ LOSS WILD-TYPE
  CLUS_1               4                40
  CLUS_2               3                12
  CLUS_3               4                11
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  XQ LOSS MUTATED        4      2      0      5
  XQ LOSS WILD-TYPE     18     11     20     14
D72V7, multiclass
        clus
vv       XQ LOSS MUTATED XQ LOSS WILD-TYPE
  CLUS_1               4                18
  CLUS_2               2                11
  CLUS_3               0                20
  CLUS_4               5                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 CLUS_5 CLUS_6 CLUS_7
  XQ LOSS MUTATED        0      1      2      4      1      3      0
  XQ LOSS WILD-TYPE     11      7     13      7      4     10     11
D72V8, multiclass
        clus
vv       XQ LOSS MUTATED XQ LOSS WILD-TYPE
  CLUS_1               0                11
  CLUS_2               1                 7
  CLUS_3               2                13
  CLUS_4               4                 7
  CLUS_5               1                 4
  CLUS_6               3                10
  CLUS_7               0                11
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
