[1] "ofn"        "-oTREAD-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/READ-TP/20140629/READ-TP.transferedmergedcluster.txt"
[1] "dfn:"
[1] "/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_Correlate_Genomic_Events_Preprocess/READ-TP/19781849/transformed.cor.cli.txt"

nPatients in clinical file=169, in cluster file=165, common to both=165
[1] "Reduce the number of clustering variables from 82 to 80."
[1]  80 165
[1] "1P GAIN MUTATION ANALYSIS"
[1] 3
  1P GAIN MUTATED 1P GAIN WILD-TYPE 
               12               153 
  1P GAIN MUTATED 1P GAIN WILD-TYPE 
               12               153 
[1] "1Q GAIN MUTATION ANALYSIS"
[1] 3
  1Q GAIN MUTATED 1Q GAIN WILD-TYPE 
               34               131 
  1Q GAIN MUTATED 1Q GAIN WILD-TYPE 
               34               131 
[1] "2P GAIN MUTATION ANALYSIS"
[1] 3
  2P GAIN MUTATED 2P GAIN WILD-TYPE 
               41               124 
  2P GAIN MUTATED 2P GAIN WILD-TYPE 
               41               124 
[1] "2Q GAIN MUTATION ANALYSIS"
[1] 3
  2Q GAIN MUTATED 2Q GAIN WILD-TYPE 
               43               122 
  2Q GAIN MUTATED 2Q GAIN WILD-TYPE 
               43               122 
[1] "3P GAIN MUTATION ANALYSIS"
[1] 3
  3P GAIN MUTATED 3P GAIN WILD-TYPE 
               27               138 
  3P GAIN MUTATED 3P GAIN WILD-TYPE 
               27               138 
[1] "3Q GAIN MUTATION ANALYSIS"
[1] 3
  3Q GAIN MUTATED 3Q GAIN WILD-TYPE 
               34               131 
  3Q GAIN MUTATED 3Q GAIN WILD-TYPE 
               34               131 
[1] "4P GAIN MUTATION ANALYSIS"
[1] 3
  4P GAIN MUTATED 4P GAIN WILD-TYPE 
                9               156 
  4P GAIN MUTATED 4P GAIN WILD-TYPE 
                9               156 
[1] "4Q GAIN MUTATION ANALYSIS"
[1] 3
  4Q GAIN MUTATED 4Q GAIN WILD-TYPE 
                5               160 
  4Q GAIN MUTATED 4Q GAIN WILD-TYPE 
                5               160 
[1] "5P GAIN MUTATION ANALYSIS"
[1] 3
  5P GAIN MUTATED 5P GAIN WILD-TYPE 
               36               129 
  5P GAIN MUTATED 5P GAIN WILD-TYPE 
               36               129 
[1] "5Q GAIN MUTATION ANALYSIS"
[1] 3
  5Q GAIN MUTATED 5Q GAIN WILD-TYPE 
               24               141 
  5Q GAIN MUTATED 5Q GAIN WILD-TYPE 
               24               141 
[1] "6P GAIN MUTATION ANALYSIS"
[1] 3
  6P GAIN MUTATED 6P GAIN WILD-TYPE 
               41               124 
  6P GAIN MUTATED 6P GAIN WILD-TYPE 
               41               124 
[1] "6Q GAIN MUTATION ANALYSIS"
[1] 3
  6Q GAIN MUTATED 6Q GAIN WILD-TYPE 
               36               129 
  6Q GAIN MUTATED 6Q GAIN WILD-TYPE 
               36               129 
[1] "7P GAIN MUTATION ANALYSIS"
[1] 3
  7P GAIN MUTATED 7P GAIN WILD-TYPE 
              102                63 
  7P GAIN MUTATED 7P GAIN WILD-TYPE 
              102                63 
[1] "7Q GAIN MUTATION ANALYSIS"
[1] 3
  7Q GAIN MUTATED 7Q GAIN WILD-TYPE 
               85                80 
  7Q GAIN MUTATED 7Q GAIN WILD-TYPE 
               85                80 
[1] "8P GAIN MUTATION ANALYSIS"
[1] 3
  8P GAIN MUTATED 8P GAIN WILD-TYPE 
               42               123 
  8P GAIN MUTATED 8P GAIN WILD-TYPE 
               42               123 
[1] "8Q GAIN MUTATION ANALYSIS"
[1] 3
  8Q GAIN MUTATED 8Q GAIN WILD-TYPE 
               89                76 
  8Q GAIN MUTATED 8Q GAIN WILD-TYPE 
               89                76 
[1] "9P GAIN MUTATION ANALYSIS"
[1] 3
  9P GAIN MUTATED 9P GAIN WILD-TYPE 
               42               123 
  9P GAIN MUTATED 9P GAIN WILD-TYPE 
               42               123 
[1] "9Q GAIN MUTATION ANALYSIS"
[1] 3
  9Q GAIN MUTATED 9Q GAIN WILD-TYPE 
               33               132 
  9Q GAIN MUTATED 9Q GAIN WILD-TYPE 
               33               132 
[1] "10P GAIN MUTATION ANALYSIS"
[1] 3
  10P GAIN MUTATED 10P GAIN WILD-TYPE 
                13                152 
  10P GAIN MUTATED 10P GAIN WILD-TYPE 
                13                152 
[1] "10Q GAIN MUTATION ANALYSIS"
[1] 3
  10Q GAIN MUTATED 10Q GAIN WILD-TYPE 
                 7                158 
  10Q GAIN MUTATED 10Q GAIN WILD-TYPE 
                 7                158 
[1] "11P GAIN MUTATION ANALYSIS"
[1] 3
  11P GAIN MUTATED 11P GAIN WILD-TYPE 
                32                133 
  11P GAIN MUTATED 11P GAIN WILD-TYPE 
                32                133 
[1] "11Q GAIN MUTATION ANALYSIS"
[1] 3
  11Q GAIN MUTATED 11Q GAIN WILD-TYPE 
                26                139 
  11Q GAIN MUTATED 11Q GAIN WILD-TYPE 
                26                139 
[1] "12P GAIN MUTATION ANALYSIS"
[1] 3
  12P GAIN MUTATED 12P GAIN WILD-TYPE 
                33                132 
  12P GAIN MUTATED 12P GAIN WILD-TYPE 
                33                132 
[1] "12Q GAIN MUTATION ANALYSIS"
[1] 3
  12Q GAIN MUTATED 12Q GAIN WILD-TYPE 
                24                141 
  12Q GAIN MUTATED 12Q GAIN WILD-TYPE 
                24                141 
[1] "13Q GAIN MUTATION ANALYSIS"
[1] 3
  13Q GAIN MUTATED 13Q GAIN WILD-TYPE 
               113                 52 
  13Q GAIN MUTATED 13Q GAIN WILD-TYPE 
               113                 52 
[1] "14Q GAIN MUTATION ANALYSIS"
[1] 3
  14Q GAIN MUTATED 14Q GAIN WILD-TYPE 
                 8                157 
  14Q GAIN MUTATED 14Q GAIN WILD-TYPE 
                 8                157 
[1] "15Q GAIN MUTATION ANALYSIS"
[1] 3
  15Q GAIN MUTATED 15Q GAIN WILD-TYPE 
                 3                162 
  15Q GAIN MUTATED 15Q GAIN WILD-TYPE 
                 3                162 
[1] "16P GAIN MUTATION ANALYSIS"
[1] 3
  16P GAIN MUTATED 16P GAIN WILD-TYPE 
                41                124 
  16P GAIN MUTATED 16P GAIN WILD-TYPE 
                41                124 
[1] "16Q GAIN MUTATION ANALYSIS"
[1] 3
  16Q GAIN MUTATED 16Q GAIN WILD-TYPE 
                41                124 
  16Q GAIN MUTATED 16Q GAIN WILD-TYPE 
                41                124 
[1] "17P GAIN MUTATION ANALYSIS"
[1] 3
  17P GAIN MUTATED 17P GAIN WILD-TYPE 
                 8                157 
  17P GAIN MUTATED 17P GAIN WILD-TYPE 
                 8                157 
[1] "17Q GAIN MUTATION ANALYSIS"
[1] 3
  17Q GAIN MUTATED 17Q GAIN WILD-TYPE 
                32                133 
  17Q GAIN MUTATED 17Q GAIN WILD-TYPE 
                32                133 
[1] "18P GAIN MUTATION ANALYSIS"
[1] 3
  18P GAIN MUTATED 18P GAIN WILD-TYPE 
                 8                157 
  18P GAIN MUTATED 18P GAIN WILD-TYPE 
                 8                157 
[1] "18Q GAIN MUTATION ANALYSIS"
[1] 3
  18Q GAIN MUTATED 18Q GAIN WILD-TYPE 
                 6                159 
  18Q GAIN MUTATED 18Q GAIN WILD-TYPE 
                 6                159 
[1] "19P GAIN MUTATION ANALYSIS"
[1] 3
  19P GAIN MUTATED 19P GAIN WILD-TYPE 
                33                132 
  19P GAIN MUTATED 19P GAIN WILD-TYPE 
                33                132 
[1] "19Q GAIN MUTATION ANALYSIS"
[1] 3
  19Q GAIN MUTATED 19Q GAIN WILD-TYPE 
                32                133 
  19Q GAIN MUTATED 19Q GAIN WILD-TYPE 
                32                133 
[1] "20P GAIN MUTATION ANALYSIS"
[1] 3
  20P GAIN MUTATED 20P GAIN WILD-TYPE 
               109                 56 
  20P GAIN MUTATED 20P GAIN WILD-TYPE 
               109                 56 
[1] "20Q GAIN MUTATION ANALYSIS"
[1] 3
  20Q GAIN MUTATED 20Q GAIN WILD-TYPE 
               145                 20 
  20Q GAIN MUTATED 20Q GAIN WILD-TYPE 
               145                 20 
[1] "21Q GAIN MUTATION ANALYSIS"
[1] 3
  21Q GAIN MUTATED 21Q GAIN WILD-TYPE 
                10                155 
  21Q GAIN MUTATED 21Q GAIN WILD-TYPE 
                10                155 
[1] "22Q GAIN MUTATION ANALYSIS"
[1] 3
  22Q GAIN MUTATED 22Q GAIN WILD-TYPE 
                 9                156 
  22Q GAIN MUTATED 22Q GAIN WILD-TYPE 
                 9                156 
[1] "XP GAIN MUTATION ANALYSIS"
[1] 3
  XP GAIN MUTATED XP GAIN WILD-TYPE 
               34               131 
  XP GAIN MUTATED XP GAIN WILD-TYPE 
               34               131 
[1] "XQ GAIN MUTATION ANALYSIS"
[1] 3
  XQ GAIN MUTATED XQ GAIN WILD-TYPE 
               34               131 
  XQ GAIN MUTATED XQ GAIN WILD-TYPE 
               34               131 
[1] "1P LOSS MUTATION ANALYSIS"
[1] 3
  1P LOSS MUTATED 1P LOSS WILD-TYPE 
               46               119 
  1P LOSS MUTATED 1P LOSS WILD-TYPE 
               46               119 
[1] "1Q LOSS MUTATION ANALYSIS"
[1] 3
  1Q LOSS MUTATED 1Q LOSS WILD-TYPE 
               26               139 
  1Q LOSS MUTATED 1Q LOSS WILD-TYPE 
               26               139 
[1] "2P LOSS MUTATION ANALYSIS"
[1] 3
  2P LOSS MUTATED 2P LOSS WILD-TYPE 
               11               154 
  2P LOSS MUTATED 2P LOSS WILD-TYPE 
               11               154 
[1] "2Q LOSS MUTATION ANALYSIS"
[1] 3
  2Q LOSS MUTATED 2Q LOSS WILD-TYPE 
                6               159 
  2Q LOSS MUTATED 2Q LOSS WILD-TYPE 
                6               159 
[1] "3P LOSS MUTATION ANALYSIS"
[1] 3
  3P LOSS MUTATED 3P LOSS WILD-TYPE 
               15               150 
  3P LOSS MUTATED 3P LOSS WILD-TYPE 
               15               150 
[1] "3Q LOSS MUTATION ANALYSIS"
[1] 3
  3Q LOSS MUTATED 3Q LOSS WILD-TYPE 
               10               155 
  3Q LOSS MUTATED 3Q LOSS WILD-TYPE 
               10               155 
[1] "4P LOSS MUTATION ANALYSIS"
[1] 3
  4P LOSS MUTATED 4P LOSS WILD-TYPE 
               59               106 
  4P LOSS MUTATED 4P LOSS WILD-TYPE 
               59               106 
[1] "4Q LOSS MUTATION ANALYSIS"
[1] 3
  4Q LOSS MUTATED 4Q LOSS WILD-TYPE 
               66                99 
  4Q LOSS MUTATED 4Q LOSS WILD-TYPE 
               66                99 
[1] "5P LOSS MUTATION ANALYSIS"
[1] 3
  5P LOSS MUTATED 5P LOSS WILD-TYPE 
               26               139 
  5P LOSS MUTATED 5P LOSS WILD-TYPE 
               26               139 
[1] "5Q LOSS MUTATION ANALYSIS"
[1] 3
  5Q LOSS MUTATED 5Q LOSS WILD-TYPE 
               40               125 
  5Q LOSS MUTATED 5Q LOSS WILD-TYPE 
               40               125 
[1] "6P LOSS MUTATION ANALYSIS"
[1] 3
  6P LOSS MUTATED 6P LOSS WILD-TYPE 
               13               152 
  6P LOSS MUTATED 6P LOSS WILD-TYPE 
               13               152 
[1] "6Q LOSS MUTATION ANALYSIS"
[1] 3
  6Q LOSS MUTATED 6Q LOSS WILD-TYPE 
               22               143 
  6Q LOSS MUTATED 6Q LOSS WILD-TYPE 
               22               143 
[1] "7Q LOSS MUTATION ANALYSIS"
[1] 3
  7Q LOSS MUTATED 7Q LOSS WILD-TYPE 
                3               162 
  7Q LOSS MUTATED 7Q LOSS WILD-TYPE 
                3               162 
[1] "8P LOSS MUTATION ANALYSIS"
[1] 3
  8P LOSS MUTATED 8P LOSS WILD-TYPE 
               73                92 
  8P LOSS MUTATED 8P LOSS WILD-TYPE 
               73                92 
[1] "8Q LOSS MUTATION ANALYSIS"
[1] 3
  8Q LOSS MUTATED 8Q LOSS WILD-TYPE 
               11               154 
  8Q LOSS MUTATED 8Q LOSS WILD-TYPE 
               11               154 
[1] "9P LOSS MUTATION ANALYSIS"
[1] 3
  9P LOSS MUTATED 9P LOSS WILD-TYPE 
               23               142 
  9P LOSS MUTATED 9P LOSS WILD-TYPE 
               23               142 
[1] "9Q LOSS MUTATION ANALYSIS"
[1] 3
  9Q LOSS MUTATED 9Q LOSS WILD-TYPE 
               23               142 
  9Q LOSS MUTATED 9Q LOSS WILD-TYPE 
               23               142 
[1] "10P LOSS MUTATION ANALYSIS"
[1] 3
  10P LOSS MUTATED 10P LOSS WILD-TYPE 
                33                132 
  10P LOSS MUTATED 10P LOSS WILD-TYPE 
                33                132 
[1] "10Q LOSS MUTATION ANALYSIS"
[1] 3
  10Q LOSS MUTATED 10Q LOSS WILD-TYPE 
                38                127 
  10Q LOSS MUTATED 10Q LOSS WILD-TYPE 
                38                127 
[1] "11P LOSS MUTATION ANALYSIS"
[1] 3
  11P LOSS MUTATED 11P LOSS WILD-TYPE 
                23                142 
  11P LOSS MUTATED 11P LOSS WILD-TYPE 
                23                142 
[1] "11Q LOSS MUTATION ANALYSIS"
[1] 3
  11Q LOSS MUTATED 11Q LOSS WILD-TYPE 
                30                135 
  11Q LOSS MUTATED 11Q LOSS WILD-TYPE 
                30                135 
[1] "12P LOSS MUTATION ANALYSIS"
[1] 3
  12P LOSS MUTATED 12P LOSS WILD-TYPE 
                22                143 
  12P LOSS MUTATED 12P LOSS WILD-TYPE 
                22                143 
[1] "12Q LOSS MUTATION ANALYSIS"
[1] 3
  12Q LOSS MUTATED 12Q LOSS WILD-TYPE 
                19                146 
  12Q LOSS MUTATED 12Q LOSS WILD-TYPE 
                19                146 
[1] "13Q LOSS MUTATION ANALYSIS"
[1] 3
  13Q LOSS MUTATED 13Q LOSS WILD-TYPE 
                 8                157 
  13Q LOSS MUTATED 13Q LOSS WILD-TYPE 
                 8                157 
[1] "14Q LOSS MUTATION ANALYSIS"
[1] 3
  14Q LOSS MUTATED 14Q LOSS WILD-TYPE 
                67                 98 
  14Q LOSS MUTATED 14Q LOSS WILD-TYPE 
                67                 98 
[1] "15Q LOSS MUTATION ANALYSIS"
[1] 3
  15Q LOSS MUTATED 15Q LOSS WILD-TYPE 
                73                 92 
  15Q LOSS MUTATED 15Q LOSS WILD-TYPE 
                73                 92 
[1] "16P LOSS MUTATION ANALYSIS"
[1] 3
  16P LOSS MUTATED 16P LOSS WILD-TYPE 
                 9                156 
  16P LOSS MUTATED 16P LOSS WILD-TYPE 
                 9                156 
[1] "16Q LOSS MUTATION ANALYSIS"
[1] 3
  16Q LOSS MUTATED 16Q LOSS WILD-TYPE 
                15                150 
  16Q LOSS MUTATED 16Q LOSS WILD-TYPE 
                15                150 
[1] "17P LOSS MUTATION ANALYSIS"
[1] 3
  17P LOSS MUTATED 17P LOSS WILD-TYPE 
               107                 58 
  17P LOSS MUTATED 17P LOSS WILD-TYPE 
               107                 58 
[1] "17Q LOSS MUTATION ANALYSIS"
[1] 3
  17Q LOSS MUTATED 17Q LOSS WILD-TYPE 
                26                139 
  17Q LOSS MUTATED 17Q LOSS WILD-TYPE 
                26                139 
[1] "18P LOSS MUTATION ANALYSIS"
[1] 3
  18P LOSS MUTATED 18P LOSS WILD-TYPE 
               128                 37 
  18P LOSS MUTATED 18P LOSS WILD-TYPE 
               128                 37 
[1] "18Q LOSS MUTATION ANALYSIS"
[1] 3
  18Q LOSS MUTATED 18Q LOSS WILD-TYPE 
               138                 27 
  18Q LOSS MUTATED 18Q LOSS WILD-TYPE 
               138                 27 
[1] "19P LOSS MUTATION ANALYSIS"
[1] 3
  19P LOSS MUTATED 19P LOSS WILD-TYPE 
                21                144 
  19P LOSS MUTATED 19P LOSS WILD-TYPE 
                21                144 
[1] "19Q LOSS MUTATION ANALYSIS"
[1] 3
  19Q LOSS MUTATED 19Q LOSS WILD-TYPE 
                20                145 
  19Q LOSS MUTATED 19Q LOSS WILD-TYPE 
                20                145 
[1] "20P LOSS MUTATION ANALYSIS"
[1] 3
  20P LOSS MUTATED 20P LOSS WILD-TYPE 
                23                142 
  20P LOSS MUTATED 20P LOSS WILD-TYPE 
                23                142 
[1] "21Q LOSS MUTATION ANALYSIS"
[1] 3
  21Q LOSS MUTATED 21Q LOSS WILD-TYPE 
                68                 97 
  21Q LOSS MUTATED 21Q LOSS WILD-TYPE 
                68                 97 
[1] "22Q LOSS MUTATION ANALYSIS"
[1] 3
  22Q LOSS MUTATED 22Q LOSS WILD-TYPE 
                58                107 
  22Q LOSS MUTATED 22Q LOSS WILD-TYPE 
                58                107 
[1] "XP LOSS MUTATION ANALYSIS"
[1] 3
  XP LOSS MUTATED XP LOSS WILD-TYPE 
               25               140 
  XP LOSS MUTATED XP LOSS WILD-TYPE 
               25               140 
[1] "XQ LOSS MUTATION ANALYSIS"
[1] 3
  XQ LOSS MUTATED XQ LOSS WILD-TYPE 
               24               141 
  XQ LOSS MUTATED XQ LOSS WILD-TYPE 
               24               141 
[1] "data2feature, selection=ALL"
 [1] "MRNA_CNMF"                   "MRNA_CHIERARCHICAL"         
 [3] "CN_CNMF"                     "METHLYATION_CNMF"           
 [5] "RPPA_CNMF"                   "RPPA_CHIERARCHICAL"         
 [7] "MRNASEQ_CNMF"                "MRNASEQ_CHIERARCHICAL"      
 [9] "MIRSEQ_CNMF"                 "MIRSEQ_CHIERARCHICAL"       
[11] "MIRSEQ_MATURE_CNMF"          "MIRSEQ_MATURE_CHIERARCHICAL"

Input Data has 12 rows and 165 columns.

Variable 1:'MRNA_CNMF':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 2:'MRNA_CHIERARCHICAL':	nDistinctValues=8,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 3:'CN_CNMF':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 4:'METHLYATION_CNMF':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 5:'RPPA_CNMF':	nDistinctValues=5,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 6:'RPPA_CHIERARCHICAL':	nDistinctValues=6,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 7:'MRNASEQ_CNMF':	nDistinctValues=5,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 8:'MRNASEQ_CHIERARCHICAL':	nDistinctValues=7,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 9:'MIRSEQ_CNMF':	nDistinctValues=5,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 10:'MIRSEQ_CHIERARCHICAL':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 11:'MIRSEQ_MATURE_CNMF':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 12:'MIRSEQ_MATURE_CHIERARCHICAL':	nDistinctValues=5,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
[1] "## **** detect survival parameters (defined in index such as ind_OS, ind_MFS, ind_RFS, ind_RFS, ind_BCR and ind_d2ssd) *** ##"
[1] "detected survival parameters using [ind_OS, overall_survival]"
[1] "survival parameters accumulated so far"
NULL
[1] "detected survival parameters using [ind_OS, curated_overall_survival]"
[1] "survival parameters accumulated so far"
NULL
[1] "detected survival parameters using [ind_TCGAOS]"
[1] "survival parameters accumulated so far"
NULL
[1] "detected survivial parameters using [ind_MFS]"
[1] "survival parameters accumulated so far"
NULL
[1] "detected survival parameters using [ind_RFS]"
[1] "survival parameters accumulated so far"
NULL
[1] "detected survival parameters using [ind_BCR]"
[1] "survival parameters accumulated so far"
NULL
[1] "detected survival parameters using [ind_Progression]"
[1] "survival parameters accumulated so far"
NULL
[1] "detected survival parameters using [index_additional_survival_time]"
[1] "survival parameters accumulated so far"
NULL
[1] "detected survival parameters using condition: [is.null(surv.mat)&&(selection=='SURV')]"
[1] "survival parameters accumulated so far"
NULL
[1] "************ conversion from categorical data to rank data ********** "
[1] "****** SUMMARY ***** "
Output Data has 165 columns, 0 survival variables, and 12 non-survival variables.
[1] "* survival variables: "
NULL
[1] "* non-survival variables: "
 [1] "MRNA_CNMF"                   "MRNA_CHIERARCHICAL"         
 [3] "CN_CNMF"                     "METHLYATION_CNMF"           
 [5] "RPPA_CNMF"                   "RPPA_CHIERARCHICAL"         
 [7] "MRNASEQ_CNMF"                "MRNASEQ_CHIERARCHICAL"      
 [9] "MIRSEQ_CNMF"                 "MIRSEQ_CHIERARCHICAL"       
[11] "MIRSEQ_MATURE_CNMF"          "MIRSEQ_MATURE_CHIERARCHICAL"
MRNA_CNMF, nv=3, binary=FALSE, numeric=FALSE
MRNA_CHIERARCHICAL, nv=8, binary=FALSE, numeric=FALSE
CN_CNMF, nv=4, binary=FALSE, numeric=FALSE
METHLYATION_CNMF, nv=3, binary=FALSE, numeric=FALSE
RPPA_CNMF, nv=5, binary=FALSE, numeric=FALSE
RPPA_CHIERARCHICAL, nv=6, binary=FALSE, numeric=FALSE
MRNASEQ_CNMF, nv=5, binary=FALSE, numeric=FALSE
MRNASEQ_CHIERARCHICAL, nv=7, binary=FALSE, numeric=FALSE
MIRSEQ_CNMF, nv=5, binary=FALSE, numeric=FALSE
MIRSEQ_CHIERARCHICAL, nv=3, binary=FALSE, numeric=FALSE
MIRSEQ_MATURE_CNMF, nv=4, binary=FALSE, numeric=FALSE
MIRSEQ_MATURE_CHIERARCHICAL, nv=5, binary=FALSE, numeric=FALSE

Clustering(1) Variable = 1P GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  1P GAIN MUTATED        1      3      1
  1P GAIN WILD-TYPE     24     19     21
D1V1, multiclass
        clus
vv       1P GAIN MUTATED 1P GAIN WILD-TYPE
  CLUS_1               1                24
  CLUS_2               3                19
  CLUS_3               1                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 CLUS_8
  1P GAIN MUTATED        0      2      1      1      1      0      0      0
  1P GAIN WILD-TYPE      6     11     12      8      7      9      8      3
D1V2, multiclass
        clus
vv       1P GAIN MUTATED 1P GAIN WILD-TYPE
  CLUS_1               0                 6
  CLUS_2               2                11
  CLUS_3               1                12
  CLUS_4               1                 8
  CLUS_5               1                 7
  CLUS_6               0                 9
  CLUS_7               0                 8
  CLUS_8               0                 3
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  1P GAIN MUTATED        5      3      1      3
  1P GAIN WILD-TYPE     61     29     30     33
D1V3, multiclass
        clus
vv       1P GAIN MUTATED 1P GAIN WILD-TYPE
  CLUS_1               5                61
  CLUS_2               3                29
  CLUS_3               1                30
  CLUS_4               3                33
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  1P GAIN MUTATED        2      2      4
  1P GAIN WILD-TYPE     26     37     25
D1V4, multiclass
        clus
vv       1P GAIN MUTATED 1P GAIN WILD-TYPE
  CLUS_1               2                26
  CLUS_2               2                37
  CLUS_3               4                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
  1P GAIN MUTATED        4      4      0      1      0
  1P GAIN WILD-TYPE     38     23     25     29      3
D1V5, multiclass
        clus
vv       1P GAIN MUTATED 1P GAIN WILD-TYPE
  CLUS_1               4                38
  CLUS_2               4                23
  CLUS_3               0                25
  CLUS_4               1                29
  CLUS_5               0                 3
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  1P GAIN MUTATED        0      1      4      0      3      1
  1P GAIN WILD-TYPE     20     19     20     18     26     15
D1V6, multiclass
        clus
vv       1P GAIN MUTATED 1P GAIN WILD-TYPE
  CLUS_1               0                20
  CLUS_2               1                19
  CLUS_3               4                20
  CLUS_4               0                18
  CLUS_5               3                26
  CLUS_6               1                15
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  1P GAIN MUTATED        4      1      3      0      4
  1P GAIN WILD-TYPE     25     13     30     28     56
D1V7, multiclass
        clus
vv       1P GAIN MUTATED 1P GAIN WILD-TYPE
  CLUS_1               4                25
  CLUS_2               1                13
  CLUS_3               3                30
  CLUS_4               0                28
  CLUS_5               4                56
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  1P GAIN MUTATED        2      4      1      0      3      2      0
  1P GAIN WILD-TYPE     25     32     11     19     29     16     20
D1V8, multiclass
        clus
vv       1P GAIN MUTATED 1P GAIN WILD-TYPE
  CLUS_1               2                25
  CLUS_2               4                32
  CLUS_3               1                11
  CLUS_4               0                19
  CLUS_5               3                29
  CLUS_6               2                16
  CLUS_7               0                20
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  1P GAIN MUTATED        1      3      1      1      4
  1P GAIN WILD-TYPE     17     39     16      7     52
D1V9, multiclass
        clus
vv       1P GAIN MUTATED 1P GAIN WILD-TYPE
  CLUS_1               1                17
  CLUS_2               3                39
  CLUS_3               1                16
  CLUS_4               1                 7
  CLUS_5               4                52
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  1P GAIN MUTATED        3      4      3
  1P GAIN WILD-TYPE     19     59     53
D1V10, multiclass
        clus
vv       1P GAIN MUTATED 1P GAIN WILD-TYPE
  CLUS_1               3                19
  CLUS_2               4                59
  CLUS_3               3                53
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  1P GAIN MUTATED        1      1      1      0
  1P GAIN WILD-TYPE      8     13     13     13
D1V11, multiclass
        clus
vv       1P GAIN MUTATED 1P GAIN WILD-TYPE
  CLUS_1               1                 8
  CLUS_2               1                13
  CLUS_3               1                13
  CLUS_4               0                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
  1P GAIN MUTATED        0      1      1      0      1
  1P GAIN WILD-TYPE      9     12     17      5      4
D1V12, multiclass
        clus
vv       1P GAIN MUTATED 1P GAIN WILD-TYPE
  CLUS_1               0                 9
  CLUS_2               1                12
  CLUS_3               1                17
  CLUS_4               0                 5
  CLUS_5               1                 4
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(2) Variable = 1Q GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  1Q GAIN MUTATED        3      5      5
  1Q GAIN WILD-TYPE     22     17     17
D2V1, multiclass
        clus
vv       1Q GAIN MUTATED 1Q GAIN WILD-TYPE
  CLUS_1               3                22
  CLUS_2               5                17
  CLUS_3               5                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 CLUS_8
  1Q GAIN MUTATED        1      3      2      2      3      1      0      1
  1Q GAIN WILD-TYPE      5     10     11      7      5      8      8      2
D2V2, multiclass
        clus
vv       1Q GAIN MUTATED 1Q GAIN WILD-TYPE
  CLUS_1               1                 5
  CLUS_2               3                10
  CLUS_3               2                11
  CLUS_4               2                 7
  CLUS_5               3                 5
  CLUS_6               1                 8
  CLUS_7               0                 8
  CLUS_8               1                 2
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  1Q GAIN MUTATED       10     10      4     10
  1Q GAIN WILD-TYPE     56     22     27     26
D2V3, multiclass
        clus
vv       1Q GAIN MUTATED 1Q GAIN WILD-TYPE
  CLUS_1              10                56
  CLUS_2              10                22
  CLUS_3               4                27
  CLUS_4              10                26
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  1Q GAIN MUTATED        4      9      9
  1Q GAIN WILD-TYPE     24     30     20
D2V4, multiclass
        clus
vv       1Q GAIN MUTATED 1Q GAIN WILD-TYPE
  CLUS_1               4                24
  CLUS_2               9                30
  CLUS_3               9                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
  1Q GAIN MUTATED       13      6      2      7      0
  1Q GAIN WILD-TYPE     29     21     23     23      3
D2V5, multiclass
        clus
vv       1Q GAIN MUTATED 1Q GAIN WILD-TYPE
  CLUS_1              13                29
  CLUS_2               6                21
  CLUS_3               2                23
  CLUS_4               7                23
  CLUS_5               0                 3
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  1Q GAIN MUTATED        2      2      6      3     11      4
  1Q GAIN WILD-TYPE     18     18     18     15     18     12
D2V6, multiclass
        clus
vv       1Q GAIN MUTATED 1Q GAIN WILD-TYPE
  CLUS_1               2                18
  CLUS_2               2                18
  CLUS_3               6                18
  CLUS_4               3                15
  CLUS_5              11                18
  CLUS_6               4                12
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  1Q GAIN MUTATED        8      2      9      3     12
  1Q GAIN WILD-TYPE     21     12     24     25     48
D2V7, multiclass
        clus
vv       1Q GAIN MUTATED 1Q GAIN WILD-TYPE
  CLUS_1               8                21
  CLUS_2               2                12
  CLUS_3               9                24
  CLUS_4               3                25
  CLUS_5              12                48
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  1Q GAIN MUTATED        6      8      3      3      6      4      4
  1Q GAIN WILD-TYPE     21     28      9     16     26     14     16
D2V8, multiclass
        clus
vv       1Q GAIN MUTATED 1Q GAIN WILD-TYPE
  CLUS_1               6                21
  CLUS_2               8                28
  CLUS_3               3                 9
  CLUS_4               3                16
  CLUS_5               6                26
  CLUS_6               4                14
  CLUS_7               4                16
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  1Q GAIN MUTATED        4     10      1      2     10
  1Q GAIN WILD-TYPE     14     32     16      6     46
D2V9, multiclass
        clus
vv       1Q GAIN MUTATED 1Q GAIN WILD-TYPE
  CLUS_1               4                14
  CLUS_2              10                32
  CLUS_3               1                16
  CLUS_4               2                 6
  CLUS_5              10                46
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  1Q GAIN MUTATED        5     12     10
  1Q GAIN WILD-TYPE     17     51     46
D2V10, multiclass
        clus
vv       1Q GAIN MUTATED 1Q GAIN WILD-TYPE
  CLUS_1               5                17
  CLUS_2              12                51
  CLUS_3              10                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 CLUS_4
  1Q GAIN MUTATED        1      2      2      3
  1Q GAIN WILD-TYPE      8     12     12     10
D2V11, multiclass
        clus
vv       1Q GAIN MUTATED 1Q GAIN WILD-TYPE
  CLUS_1               1                 8
  CLUS_2               2                12
  CLUS_3               2                12
  CLUS_4               3                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
  1Q GAIN MUTATED        0      2      5      0      1
  1Q GAIN WILD-TYPE      9     11     13      5      4
D2V12, multiclass
        clus
vv       1Q GAIN MUTATED 1Q GAIN WILD-TYPE
  CLUS_1               0                 9
  CLUS_2               2                11
  CLUS_3               5                13
  CLUS_4               0                 5
  CLUS_5               1                 4
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(3) Variable = 2P GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  2P GAIN MUTATED        4      2      5
  2P GAIN WILD-TYPE     21     20     17
D3V1, multiclass
        clus
vv       2P GAIN MUTATED 2P GAIN WILD-TYPE
  CLUS_1               4                21
  CLUS_2               2                20
  CLUS_3               5                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 CLUS_8
  2P GAIN MUTATED        3      1      1      0      3      0      3      0
  2P GAIN WILD-TYPE      3     12     12      9      5      9      5      3
D3V2, multiclass
        clus
vv       2P GAIN MUTATED 2P GAIN WILD-TYPE
  CLUS_1               3                 3
  CLUS_2               1                12
  CLUS_3               1                12
  CLUS_4               0                 9
  CLUS_5               3                 5
  CLUS_6               0                 9
  CLUS_7               3                 5
  CLUS_8               0                 3
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  2P GAIN MUTATED       14      8     12      7
  2P GAIN WILD-TYPE     52     24     19     29
D3V3, multiclass
        clus
vv       2P GAIN MUTATED 2P GAIN WILD-TYPE
  CLUS_1              14                52
  CLUS_2               8                24
  CLUS_3              12                19
  CLUS_4               7                29
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  2P GAIN MUTATED       14     10      5
  2P GAIN WILD-TYPE     14     29     24
D3V4, multiclass
        clus
vv       2P GAIN MUTATED 2P GAIN WILD-TYPE
  CLUS_1              14                14
  CLUS_2              10                29
  CLUS_3               5                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
  2P GAIN MUTATED       13      9      4      8      0
  2P GAIN WILD-TYPE     29     18     21     22      3
D3V5, multiclass
        clus
vv       2P GAIN MUTATED 2P GAIN WILD-TYPE
  CLUS_1              13                29
  CLUS_2               9                18
  CLUS_3               4                21
  CLUS_4               8                22
  CLUS_5               0                 3
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  2P GAIN MUTATED        5      7      6      5      5      6
  2P GAIN WILD-TYPE     15     13     18     13     24     10
D3V6, multiclass
        clus
vv       2P GAIN MUTATED 2P GAIN WILD-TYPE
  CLUS_1               5                15
  CLUS_2               7                13
  CLUS_3               6                18
  CLUS_4               5                13
  CLUS_5               5                24
  CLUS_6               6                10
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  2P GAIN MUTATED       11      3      5     11     10
  2P GAIN WILD-TYPE     18     11     28     17     50
D3V7, multiclass
        clus
vv       2P GAIN MUTATED 2P GAIN WILD-TYPE
  CLUS_1              11                18
  CLUS_2               3                11
  CLUS_3               5                28
  CLUS_4              11                17
  CLUS_5              10                50
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  2P GAIN MUTATED       12      8      2      7      7      0      4
  2P GAIN WILD-TYPE     15     28     10     12     25     18     16
D3V8, multiclass
        clus
vv       2P GAIN MUTATED 2P GAIN WILD-TYPE
  CLUS_1              12                15
  CLUS_2               8                28
  CLUS_3               2                10
  CLUS_4               7                12
  CLUS_5               7                25
  CLUS_6               0                18
  CLUS_7               4                16
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  2P GAIN MUTATED        6     12      5      3      8
  2P GAIN WILD-TYPE     12     30     12      5     48
D3V9, multiclass
        clus
vv       2P GAIN MUTATED 2P GAIN WILD-TYPE
  CLUS_1               6                12
  CLUS_2              12                30
  CLUS_3               5                12
  CLUS_4               3                 5
  CLUS_5               8                48
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  2P GAIN MUTATED        3     21     10
  2P GAIN WILD-TYPE     19     42     46
D3V10, multiclass
        clus
vv       2P GAIN MUTATED 2P GAIN WILD-TYPE
  CLUS_1               3                19
  CLUS_2              21                42
  CLUS_3              10                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 CLUS_4
  2P GAIN MUTATED        4      6      5      3
  2P GAIN WILD-TYPE      5      8      9     10
D3V11, multiclass
        clus
vv       2P GAIN MUTATED 2P GAIN WILD-TYPE
  CLUS_1               4                 5
  CLUS_2               6                 8
  CLUS_3               5                 9
  CLUS_4               3                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
  2P GAIN MUTATED        2      4      6      3      3
  2P GAIN WILD-TYPE      7      9     12      2      2
D3V12, multiclass
        clus
vv       2P GAIN MUTATED 2P GAIN WILD-TYPE
  CLUS_1               2                 7
  CLUS_2               4                 9
  CLUS_3               6                12
  CLUS_4               3                 2
  CLUS_5               3                 2
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(4) Variable = 2Q GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  2Q GAIN MUTATED        4      2      8
  2Q GAIN WILD-TYPE     21     20     14
D4V1, multiclass
        clus
vv       2Q GAIN MUTATED 2Q GAIN WILD-TYPE
  CLUS_1               4                21
  CLUS_2               2                20
  CLUS_3               8                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 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  2Q GAIN MUTATED        3      1      1      3      3      0      3      0
  2Q GAIN WILD-TYPE      3     12     12      6      5      9      5      3
D4V2, multiclass
        clus
vv       2Q GAIN MUTATED 2Q GAIN WILD-TYPE
  CLUS_1               3                 3
  CLUS_2               1                12
  CLUS_3               1                12
  CLUS_4               3                 6
  CLUS_5               3                 5
  CLUS_6               0                 9
  CLUS_7               3                 5
  CLUS_8               0                 3
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  2Q GAIN MUTATED       13     11     12      7
  2Q GAIN WILD-TYPE     53     21     19     29
D4V3, multiclass
        clus
vv       2Q GAIN MUTATED 2Q GAIN WILD-TYPE
  CLUS_1              13                53
  CLUS_2              11                21
  CLUS_3              12                19
  CLUS_4               7                29
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  2Q GAIN MUTATED       13      8      7
  2Q GAIN WILD-TYPE     15     31     22
D4V4, multiclass
        clus
vv       2Q GAIN MUTATED 2Q GAIN WILD-TYPE
  CLUS_1              13                15
  CLUS_2               8                31
  CLUS_3               7                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
  2Q GAIN MUTATED       13      8      5      9      0
  2Q GAIN WILD-TYPE     29     19     20     21      3
D4V5, multiclass
        clus
vv       2Q GAIN MUTATED 2Q GAIN WILD-TYPE
  CLUS_1              13                29
  CLUS_2               8                19
  CLUS_3               5                20
  CLUS_4               9                21
  CLUS_5               0                 3
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  2Q GAIN MUTATED        5      6      6      7      5      6
  2Q GAIN WILD-TYPE     15     14     18     11     24     10
D4V6, multiclass
        clus
vv       2Q GAIN MUTATED 2Q GAIN WILD-TYPE
  CLUS_1               5                15
  CLUS_2               6                14
  CLUS_3               6                18
  CLUS_4               7                11
  CLUS_5               5                24
  CLUS_6               6                10
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  2Q GAIN MUTATED       11      2      5     11     13
  2Q GAIN WILD-TYPE     18     12     28     17     47
D4V7, multiclass
        clus
vv       2Q GAIN MUTATED 2Q GAIN WILD-TYPE
  CLUS_1              11                18
  CLUS_2               2                12
  CLUS_3               5                28
  CLUS_4              11                17
  CLUS_5              13                47
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  2Q GAIN MUTATED       14      6      2      6     10      0      4
  2Q GAIN WILD-TYPE     13     30     10     13     22     18     16
D4V8, multiclass
        clus
vv       2Q GAIN MUTATED 2Q GAIN WILD-TYPE
  CLUS_1              14                13
  CLUS_2               6                30
  CLUS_3               2                10
  CLUS_4               6                13
  CLUS_5              10                22
  CLUS_6               0                18
  CLUS_7               4                16
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  2Q GAIN MUTATED        7      9      6      3     10
  2Q GAIN WILD-TYPE     11     33     11      5     46
D4V9, multiclass
        clus
vv       2Q GAIN MUTATED 2Q GAIN WILD-TYPE
  CLUS_1               7                11
  CLUS_2               9                33
  CLUS_3               6                11
  CLUS_4               3                 5
  CLUS_5              10                46
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  2Q GAIN MUTATED        3     19     13
  2Q GAIN WILD-TYPE     19     44     43
D4V10, multiclass
        clus
vv       2Q GAIN MUTATED 2Q GAIN WILD-TYPE
  CLUS_1               3                19
  CLUS_2              19                44
  CLUS_3              13                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 CLUS_4
  2Q GAIN MUTATED        4      6      4      1
  2Q GAIN WILD-TYPE      5      8     10     12
D4V11, multiclass
        clus
vv       2Q GAIN MUTATED 2Q GAIN WILD-TYPE
  CLUS_1               4                 5
  CLUS_2               6                 8
  CLUS_3               4                10
  CLUS_4               1                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
  2Q GAIN MUTATED        2      4      3      3      3
  2Q GAIN WILD-TYPE      7      9     15      2      2
D4V12, multiclass
        clus
vv       2Q GAIN MUTATED 2Q GAIN WILD-TYPE
  CLUS_1               2                 7
  CLUS_2               4                 9
  CLUS_3               3                15
  CLUS_4               3                 2
  CLUS_5               3                 2
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(5) Variable = 3P GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  3P GAIN MUTATED        3      2      3
  3P GAIN WILD-TYPE     22     20     19
D5V1, multiclass
        clus
vv       3P GAIN MUTATED 3P GAIN WILD-TYPE
  CLUS_1               3                22
  CLUS_2               2                20
  CLUS_3               3                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 CLUS_8
  3P GAIN MUTATED        1      1      2      2      1      0      1      0
  3P GAIN WILD-TYPE      5     12     11      7      7      9      7      3
D5V2, multiclass
        clus
vv       3P GAIN MUTATED 3P GAIN WILD-TYPE
  CLUS_1               1                 5
  CLUS_2               1                12
  CLUS_3               2                11
  CLUS_4               2                 7
  CLUS_5               1                 7
  CLUS_6               0                 9
  CLUS_7               1                 7
  CLUS_8               0                 3
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  3P GAIN MUTATED        3     10      9      5
  3P GAIN WILD-TYPE     63     22     22     31
D5V3, multiclass
        clus
vv       3P GAIN MUTATED 3P GAIN WILD-TYPE
  CLUS_1               3                63
  CLUS_2              10                22
  CLUS_3               9                22
  CLUS_4               5                31
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  3P GAIN MUTATED        6      6      7
  3P GAIN WILD-TYPE     22     33     22
D5V4, multiclass
        clus
vv       3P GAIN MUTATED 3P GAIN WILD-TYPE
  CLUS_1               6                22
  CLUS_2               6                33
  CLUS_3               7                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
  3P GAIN MUTATED       11      5      3      2      0
  3P GAIN WILD-TYPE     31     22     22     28      3
D5V5, multiclass
        clus
vv       3P GAIN MUTATED 3P GAIN WILD-TYPE
  CLUS_1              11                31
  CLUS_2               5                22
  CLUS_3               3                22
  CLUS_4               2                28
  CLUS_5               0                 3
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  3P GAIN MUTATED        4      4      3      1      4      5
  3P GAIN WILD-TYPE     16     16     21     17     25     11
D5V6, multiclass
        clus
vv       3P GAIN MUTATED 3P GAIN WILD-TYPE
  CLUS_1               4                16
  CLUS_2               4                16
  CLUS_3               3                21
  CLUS_4               1                17
  CLUS_5               4                25
  CLUS_6               5                11
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  3P GAIN MUTATED        9      0      4      5      9
  3P GAIN WILD-TYPE     20     14     29     23     51
D5V7, multiclass
        clus
vv       3P GAIN MUTATED 3P GAIN WILD-TYPE
  CLUS_1               9                20
  CLUS_2               0                14
  CLUS_3               4                29
  CLUS_4               5                23
  CLUS_5               9                51
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  3P GAIN MUTATED        5      6      3      4      4      2      3
  3P GAIN WILD-TYPE     22     30      9     15     28     16     17
D5V8, multiclass
        clus
vv       3P GAIN MUTATED 3P GAIN WILD-TYPE
  CLUS_1               5                22
  CLUS_2               6                30
  CLUS_3               3                 9
  CLUS_4               4                15
  CLUS_5               4                28
  CLUS_6               2                16
  CLUS_7               3                17
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  3P GAIN MUTATED        4     11      2      2      7
  3P GAIN WILD-TYPE     14     31     15      6     49
D5V9, multiclass
        clus
vv       3P GAIN MUTATED 3P GAIN WILD-TYPE
  CLUS_1               4                14
  CLUS_2              11                31
  CLUS_3               2                15
  CLUS_4               2                 6
  CLUS_5               7                49
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  3P GAIN MUTATED        3     15      8
  3P GAIN WILD-TYPE     19     48     48
D5V10, multiclass
        clus
vv       3P GAIN MUTATED 3P GAIN WILD-TYPE
  CLUS_1               3                19
  CLUS_2              15                48
  CLUS_3               8                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 CLUS_4
  3P GAIN MUTATED        3      4      2      2
  3P GAIN WILD-TYPE      6     10     12     11
D5V11, multiclass
        clus
vv       3P GAIN MUTATED 3P GAIN WILD-TYPE
  CLUS_1               3                 6
  CLUS_2               4                10
  CLUS_3               2                12
  CLUS_4               2                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
  3P GAIN MUTATED        1      3      4      1      2
  3P GAIN WILD-TYPE      8     10     14      4      3
D5V12, multiclass
        clus
vv       3P GAIN MUTATED 3P GAIN WILD-TYPE
  CLUS_1               1                 8
  CLUS_2               3                10
  CLUS_3               4                14
  CLUS_4               1                 4
  CLUS_5               2                 3
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(6) Variable = 3Q GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  3Q GAIN MUTATED        5      2      4
  3Q GAIN WILD-TYPE     20     20     18
D6V1, multiclass
        clus
vv       3Q GAIN MUTATED 3Q GAIN WILD-TYPE
  CLUS_1               5                20
  CLUS_2               2                20
  CLUS_3               4                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 CLUS_8
  3Q GAIN MUTATED        2      2      2      3      1      0      1      0
  3Q GAIN WILD-TYPE      4     11     11      6      7      9      7      3
D6V2, multiclass
        clus
vv       3Q GAIN MUTATED 3Q GAIN WILD-TYPE
  CLUS_1               2                 4
  CLUS_2               2                11
  CLUS_3               2                11
  CLUS_4               3                 6
  CLUS_5               1                 7
  CLUS_6               0                 9
  CLUS_7               1                 7
  CLUS_8               0                 3
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  3Q GAIN MUTATED        4     12     11      7
  3Q GAIN WILD-TYPE     62     20     20     29
D6V3, multiclass
        clus
vv       3Q GAIN MUTATED 3Q GAIN WILD-TYPE
  CLUS_1               4                62
  CLUS_2              12                20
  CLUS_3              11                20
  CLUS_4               7                29
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  3Q GAIN MUTATED        6      9      8
  3Q GAIN WILD-TYPE     22     30     21
D6V4, multiclass
        clus
vv       3Q GAIN MUTATED 3Q GAIN WILD-TYPE
  CLUS_1               6                22
  CLUS_2               9                30
  CLUS_3               8                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
  3Q GAIN MUTATED       11      7      5      3      0
  3Q GAIN WILD-TYPE     31     20     20     27      3
D6V5, multiclass
        clus
vv       3Q GAIN MUTATED 3Q GAIN WILD-TYPE
  CLUS_1              11                31
  CLUS_2               7                20
  CLUS_3               5                20
  CLUS_4               3                27
  CLUS_5               0                 3
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  3Q GAIN MUTATED        4      5      3      3      4      7
  3Q GAIN WILD-TYPE     16     15     21     15     25      9
D6V6, multiclass
        clus
vv       3Q GAIN MUTATED 3Q GAIN WILD-TYPE
  CLUS_1               4                16
  CLUS_2               5                15
  CLUS_3               3                21
  CLUS_4               3                15
  CLUS_5               4                25
  CLUS_6               7                 9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  3Q GAIN MUTATED        9      0      5      8     12
  3Q GAIN WILD-TYPE     20     14     28     20     48
D6V7, multiclass
        clus
vv       3Q GAIN MUTATED 3Q GAIN WILD-TYPE
  CLUS_1               9                20
  CLUS_2               0                14
  CLUS_3               5                28
  CLUS_4               8                20
  CLUS_5              12                48
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  3Q GAIN MUTATED        8      6      3      5      7      2      3
  3Q GAIN WILD-TYPE     19     30      9     14     25     16     17
D6V8, multiclass
        clus
vv       3Q GAIN MUTATED 3Q GAIN WILD-TYPE
  CLUS_1               8                19
  CLUS_2               6                30
  CLUS_3               3                 9
  CLUS_4               5                14
  CLUS_5               7                25
  CLUS_6               2                16
  CLUS_7               3                17
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  3Q GAIN MUTATED        5     13      2      3      9
  3Q GAIN WILD-TYPE     13     29     15      5     47
D6V9, multiclass
        clus
vv       3Q GAIN MUTATED 3Q GAIN WILD-TYPE
  CLUS_1               5                13
  CLUS_2              13                29
  CLUS_3               2                15
  CLUS_4               3                 5
  CLUS_5               9                47
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  3Q GAIN MUTATED        3     18     11
  3Q GAIN WILD-TYPE     19     45     45
D6V10, multiclass
        clus
vv       3Q GAIN MUTATED 3Q GAIN WILD-TYPE
  CLUS_1               3                19
  CLUS_2              18                45
  CLUS_3              11                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 CLUS_4
  3Q GAIN MUTATED        3      5      3      2
  3Q GAIN WILD-TYPE      6      9     11     11
D6V11, multiclass
        clus
vv       3Q GAIN MUTATED 3Q GAIN WILD-TYPE
  CLUS_1               3                 6
  CLUS_2               5                 9
  CLUS_3               3                11
  CLUS_4               2                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
  3Q GAIN MUTATED        3      3      4      1      2
  3Q GAIN WILD-TYPE      6     10     14      4      3
D6V12, multiclass
        clus
vv       3Q GAIN MUTATED 3Q GAIN WILD-TYPE
  CLUS_1               3                 6
  CLUS_2               3                10
  CLUS_3               4                14
  CLUS_4               1                 4
  CLUS_5               2                 3
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(7) Variable = 4P GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  4P GAIN MUTATED        1      1      1
  4P GAIN WILD-TYPE     24     21     21
D7V1, multiclass
        clus
vv       4P GAIN MUTATED 4P GAIN WILD-TYPE
  CLUS_1               1                24
  CLUS_2               1                21
  CLUS_3               1                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 CLUS_8
  4P GAIN MUTATED        0      1      0      0      0      1      1      0
  4P GAIN WILD-TYPE      6     12     13      9      8      8      7      3
D7V2, multiclass
        clus
vv       4P GAIN MUTATED 4P GAIN WILD-TYPE
  CLUS_1               0                 6
  CLUS_2               1                12
  CLUS_3               0                13
  CLUS_4               0                 9
  CLUS_5               0                 8
  CLUS_6               1                 8
  CLUS_7               1                 7
  CLUS_8               0                 3
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  4P GAIN MUTATED        4      1      2      2
  4P GAIN WILD-TYPE     62     31     29     34
D7V3, multiclass
        clus
vv       4P GAIN MUTATED 4P GAIN WILD-TYPE
  CLUS_1               4                62
  CLUS_2               1                31
  CLUS_3               2                29
  CLUS_4               2                34
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  4P GAIN MUTATED        2      3      1
  4P GAIN WILD-TYPE     26     36     28
D7V4, multiclass
        clus
vv       4P GAIN MUTATED 4P GAIN WILD-TYPE
  CLUS_1               2                26
  CLUS_2               3                36
  CLUS_3               1                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
  4P GAIN MUTATED        2      0      1      4      1
  4P GAIN WILD-TYPE     40     27     24     26      2
D7V5, multiclass
        clus
vv       4P GAIN MUTATED 4P GAIN WILD-TYPE
  CLUS_1               2                40
  CLUS_2               0                27
  CLUS_3               1                24
  CLUS_4               4                26
  CLUS_5               1                 2
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  4P GAIN MUTATED        0      0      1      4      1      2
  4P GAIN WILD-TYPE     20     20     23     14     28     14
D7V6, multiclass
        clus
vv       4P GAIN MUTATED 4P GAIN WILD-TYPE
  CLUS_1               0                20
  CLUS_2               0                20
  CLUS_3               1                23
  CLUS_4               4                14
  CLUS_5               1                28
  CLUS_6               2                14
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  4P GAIN MUTATED        1      2      2      2      2
  4P GAIN WILD-TYPE     28     12     31     26     58
D7V7, multiclass
        clus
vv       4P GAIN MUTATED 4P GAIN WILD-TYPE
  CLUS_1               1                28
  CLUS_2               2                12
  CLUS_3               2                31
  CLUS_4               2                26
  CLUS_5               2                58
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  4P GAIN MUTATED        1      4      0      2      1      0      1
  4P GAIN WILD-TYPE     26     32     12     17     31     18     19
D7V8, multiclass
        clus
vv       4P GAIN MUTATED 4P GAIN WILD-TYPE
  CLUS_1               1                26
  CLUS_2               4                32
  CLUS_3               0                12
  CLUS_4               2                17
  CLUS_5               1                31
  CLUS_6               0                18
  CLUS_7               1                19
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  4P GAIN MUTATED        0      6      0      0      3
  4P GAIN WILD-TYPE     18     36     17      8     53
D7V9, multiclass
        clus
vv       4P GAIN MUTATED 4P GAIN WILD-TYPE
  CLUS_1               0                18
  CLUS_2               6                36
  CLUS_3               0                17
  CLUS_4               0                 8
  CLUS_5               3                53
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  4P GAIN MUTATED        0      6      3
  4P GAIN WILD-TYPE     22     57     53
D7V10, multiclass
        clus
vv       4P GAIN MUTATED 4P GAIN WILD-TYPE
  CLUS_1               0                22
  CLUS_2               6                57
  CLUS_3               3                53
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  4P GAIN MUTATED        0      1      2      2
  4P GAIN WILD-TYPE      9     13     12     11
D7V11, multiclass
        clus
vv       4P GAIN MUTATED 4P GAIN WILD-TYPE
  CLUS_1               0                 9
  CLUS_2               1                13
  CLUS_3               2                12
  CLUS_4               2                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
  4P GAIN MUTATED        1      1      3      0      0
  4P GAIN WILD-TYPE      8     12     15      5      5
D7V12, multiclass
        clus
vv       4P GAIN MUTATED 4P GAIN WILD-TYPE
  CLUS_1               1                 8
  CLUS_2               1                12
  CLUS_3               3                15
  CLUS_4               0                 5
  CLUS_5               0                 5
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(8) Variable = 4Q GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  4Q GAIN MUTATED        0      1      2
  4Q GAIN WILD-TYPE     25     21     20
D8V1, multiclass
        clus
vv       4Q GAIN MUTATED 4Q GAIN WILD-TYPE
  CLUS_1               0                25
  CLUS_2               1                21
  CLUS_3               2                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 CLUS_8
  4Q GAIN MUTATED        0      1      0      0      1      0      1      0
  4Q GAIN WILD-TYPE      6     12     13      9      7      9      7      3
D8V2, multiclass
        clus
vv       4Q GAIN MUTATED 4Q GAIN WILD-TYPE
  CLUS_1               0                 6
  CLUS_2               1                12
  CLUS_3               0                13
  CLUS_4               0                 9
  CLUS_5               1                 7
  CLUS_6               0                 9
  CLUS_7               1                 7
  CLUS_8               0                 3
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  4Q GAIN MUTATED        1      1      1      2
  4Q GAIN WILD-TYPE     65     31     30     34
D8V3, multiclass
        clus
vv       4Q GAIN MUTATED 4Q GAIN WILD-TYPE
  CLUS_1               1                65
  CLUS_2               1                31
  CLUS_3               1                30
  CLUS_4               2                34
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  4Q GAIN MUTATED        1      1      0
  4Q GAIN WILD-TYPE     27     38     29
D8V4, multiclass
[1] "Remove cluster labels:" "4Q GAIN MUTATED"       
clus
  4Q GAIN MUTATED 4Q GAIN WILD-TYPE 
                2                94 
       TCGA-AF-2687        TCGA-AF-2690        TCGA-AF-2693        TCGA-AF-3911 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-AF-4110        TCGA-AF-6136        TCGA-AF-6655        TCGA-AF-6672 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-AF-A56K        TCGA-AF-A56L        TCGA-AF-A56N        TCGA-AG-3591 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-AG-3592        TCGA-AG-3725        TCGA-AG-3731        TCGA-AG-3732 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-AG-3742        TCGA-AG-4021        TCGA-AG-4022        TCGA-AG-A01W 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-AG-A01Y        TCGA-AG-A020        TCGA-AG-A026        TCGA-AG-A02N 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-AH-6544        TCGA-AH-6547        TCGA-AH-6643        TCGA-AH-6644 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-AH-6897        TCGA-AH-6903        TCGA-BM-6198        TCGA-CI-6619 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-CI-6620        TCGA-CI-6621        TCGA-CI-6622        TCGA-CI-6623 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-CI-6624        TCGA-CL-4957        TCGA-CL-5917        TCGA-CL-5918 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-DC-4745        TCGA-DC-4749        TCGA-DC-5337        TCGA-DC-5869 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-DC-6154        TCGA-DC-6155        TCGA-DC-6156        TCGA-DC-6157 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-DC-6158        TCGA-DC-6160        TCGA-DC-6681        TCGA-DC-6683 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-DT-5265        TCGA-DY-A0XA        TCGA-DY-A1DC        TCGA-DY-A1DD 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-DY-A1DE        TCGA-DY-A1DF        TCGA-DY-A1H8        TCGA-EF-5830 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-EF-5831        TCGA-EI-6506        TCGA-EI-6507        TCGA-EI-6508 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-EI-6509        TCGA-EI-6510        TCGA-EI-6511        TCGA-EI-6512 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-EI-6513        TCGA-EI-6514        TCGA-EI-6881        TCGA-EI-6882 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-EI-6883        TCGA-EI-6884        TCGA-EI-6885        TCGA-EI-6917 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-EI-7002        TCGA-EI-7004        TCGA-F5-6464        TCGA-F5-6465 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-F5-6571        TCGA-F5-6702        TCGA-F5-6810        TCGA-F5-6811 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-F5-6812        TCGA-F5-6813        TCGA-F5-6814        TCGA-F5-6861 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-F5-6863        TCGA-F5-6864        TCGA-G5-6233        TCGA-G5-6235 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-G5-6572        TCGA-G5-6641 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  4Q GAIN MUTATED        1      0      0      2      1
  4Q GAIN WILD-TYPE     41     27     25     28      2
D8V5, multiclass
        clus
vv       4Q GAIN MUTATED 4Q GAIN WILD-TYPE
  CLUS_1               1                41
  CLUS_2               0                27
  CLUS_3               0                25
  CLUS_4               2                28
  CLUS_5               1                 2
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  4Q GAIN MUTATED        0      0      1      2      0      1
  4Q GAIN WILD-TYPE     20     20     23     16     29     15
D8V6, multiclass
        clus
vv       4Q GAIN MUTATED 4Q GAIN WILD-TYPE
  CLUS_1               0                20
  CLUS_2               0                20
  CLUS_3               1                23
  CLUS_4               2                16
  CLUS_5               0                29
  CLUS_6               1                15
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  4Q GAIN MUTATED        0      1      1      1      2
  4Q GAIN WILD-TYPE     29     13     32     27     58
D8V7, multiclass
        clus
vv       4Q GAIN MUTATED 4Q GAIN WILD-TYPE
  CLUS_1               0                29
  CLUS_2               1                13
  CLUS_3               1                32
  CLUS_4               1                27
  CLUS_5               2                58
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  4Q GAIN MUTATED        1      1      0      1      1      0      1
  4Q GAIN WILD-TYPE     26     35     12     18     31     18     19
D8V8, multiclass
        clus
vv       4Q GAIN MUTATED 4Q GAIN WILD-TYPE
  CLUS_1               1                26
  CLUS_2               1                35
  CLUS_3               0                12
  CLUS_4               1                18
  CLUS_5               1                31
  CLUS_6               0                18
  CLUS_7               1                19
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  4Q GAIN MUTATED        0      2      1      0      2
  4Q GAIN WILD-TYPE     18     40     16      8     54
D8V9, multiclass
        clus
vv       4Q GAIN MUTATED 4Q GAIN WILD-TYPE
  CLUS_1               0                18
  CLUS_2               2                40
  CLUS_3               1                16
  CLUS_4               0                 8
  CLUS_5               2                54
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  4Q GAIN MUTATED        1      2      2
  4Q GAIN WILD-TYPE     21     61     54
D8V10, multiclass
        clus
vv       4Q GAIN MUTATED 4Q GAIN WILD-TYPE
  CLUS_1               1                21
  CLUS_2               2                61
  CLUS_3               2                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 CLUS_4
  4Q GAIN MUTATED        0      0      1      1
  4Q GAIN WILD-TYPE      9     14     13     12
D8V11, multiclass
[1] "Remove cluster labels:" "4Q GAIN MUTATED"       
clus
  4Q GAIN MUTATED 4Q GAIN WILD-TYPE 
                2                48 
       TCGA-AF-2687        TCGA-AF-3911        TCGA-AF-4110        TCGA-AF-6655 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-AF-6672        TCGA-AG-3725        TCGA-AG-3731        TCGA-AG-3732 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-AG-4021        TCGA-AG-4022        TCGA-AH-6544        TCGA-AH-6547 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-AH-6643        TCGA-BM-6198        TCGA-CI-6619        TCGA-CI-6620 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-CI-6621        TCGA-CI-6624        TCGA-CL-5918        TCGA-DC-4749 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-DC-5337        TCGA-DC-5869        TCGA-DC-6156        TCGA-DC-6157 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-DC-6158        TCGA-DC-6681        TCGA-DC-6683        TCGA-DY-A1DC 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-DY-A1DD        TCGA-DY-A1DE        TCGA-DY-A1H8        TCGA-EI-6506 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-EI-6507        TCGA-EI-6509        TCGA-EI-6511        TCGA-EI-6513 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-EI-6514        TCGA-F5-6464        TCGA-F5-6465        TCGA-F5-6571 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-F5-6702        TCGA-F5-6810        TCGA-F5-6811        TCGA-F5-6812 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-G5-6233        TCGA-G5-6235        TCGA-G5-6572        TCGA-G5-6641 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  4Q GAIN MUTATED        1      0      1      0      0
  4Q GAIN WILD-TYPE      8     13     17      5      5
D8V12, multiclass
[1] "Remove cluster labels:" "4Q GAIN MUTATED"       
clus
  4Q GAIN MUTATED 4Q GAIN WILD-TYPE 
                2                48 
       TCGA-AF-2687        TCGA-AF-3911        TCGA-AF-4110        TCGA-AF-6655 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-AF-6672        TCGA-AG-3725        TCGA-AG-3731        TCGA-AG-3732 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-AG-4021        TCGA-AG-4022        TCGA-AH-6544        TCGA-AH-6547 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-AH-6643        TCGA-BM-6198        TCGA-CI-6619        TCGA-CI-6620 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-CI-6621        TCGA-CI-6624        TCGA-CL-5918        TCGA-DC-4749 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-DC-5337        TCGA-DC-5869        TCGA-DC-6156        TCGA-DC-6157 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-DC-6158        TCGA-DC-6681        TCGA-DC-6683        TCGA-DY-A1DC 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-DY-A1DD        TCGA-DY-A1DE        TCGA-DY-A1H8        TCGA-EI-6506 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-EI-6507        TCGA-EI-6509        TCGA-EI-6511        TCGA-EI-6513 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-EI-6514        TCGA-F5-6464        TCGA-F5-6465        TCGA-F5-6571 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-F5-6702        TCGA-F5-6810        TCGA-F5-6811        TCGA-F5-6812 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-G5-6233        TCGA-G5-6235        TCGA-G5-6572        TCGA-G5-6641 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 

Clustering(9) Variable = 5P GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  5P GAIN MUTATED        6      2      7
  5P GAIN WILD-TYPE     19     20     15
D9V1, multiclass
        clus
vv       5P GAIN MUTATED 5P GAIN WILD-TYPE
  CLUS_1               6                19
  CLUS_2               2                20
  CLUS_3               7                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 CLUS_8
  5P GAIN MUTATED        0      3      3      2      2      0      5      0
  5P GAIN WILD-TYPE      6     10     10      7      6      9      3      3
D9V2, multiclass
        clus
vv       5P GAIN MUTATED 5P GAIN WILD-TYPE
  CLUS_1               0                 6
  CLUS_2               3                10
  CLUS_3               3                10
  CLUS_4               2                 7
  CLUS_5               2                 6
  CLUS_6               0                 9
  CLUS_7               5                 3
  CLUS_8               0                 3
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  5P GAIN MUTATED        5     10      9     12
  5P GAIN WILD-TYPE     61     22     22     24
D9V3, multiclass
        clus
vv       5P GAIN MUTATED 5P GAIN WILD-TYPE
  CLUS_1               5                61
  CLUS_2              10                22
  CLUS_3               9                22
  CLUS_4              12                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
  5P GAIN MUTATED        7      5     10
  5P GAIN WILD-TYPE     21     34     19
D9V4, multiclass
        clus
vv       5P GAIN MUTATED 5P GAIN WILD-TYPE
  CLUS_1               7                21
  CLUS_2               5                34
  CLUS_3              10                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
  5P GAIN MUTATED        7      9      5      7      0
  5P GAIN WILD-TYPE     35     18     20     23      3
D9V5, multiclass
        clus
vv       5P GAIN MUTATED 5P GAIN WILD-TYPE
  CLUS_1               7                35
  CLUS_2               9                18
  CLUS_3               5                20
  CLUS_4               7                23
  CLUS_5               0                 3
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  5P GAIN MUTATED        3      7      6      4      5      3
  5P GAIN WILD-TYPE     17     13     18     14     24     13
D9V6, multiclass
        clus
vv       5P GAIN MUTATED 5P GAIN WILD-TYPE
  CLUS_1               3                17
  CLUS_2               7                13
  CLUS_3               6                18
  CLUS_4               4                14
  CLUS_5               5                24
  CLUS_6               3                13
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  5P GAIN MUTATED       10      0      7      7     12
  5P GAIN WILD-TYPE     19     14     26     21     48
D9V7, multiclass
        clus
vv       5P GAIN MUTATED 5P GAIN WILD-TYPE
  CLUS_1              10                19
  CLUS_2               0                14
  CLUS_3               7                26
  CLUS_4               7                21
  CLUS_5              12                48
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  5P GAIN MUTATED        8      2      9      2     10      2      3
  5P GAIN WILD-TYPE     19     34      3     17     22     16     17
D9V8, multiclass
        clus
vv       5P GAIN MUTATED 5P GAIN WILD-TYPE
  CLUS_1               8                19
  CLUS_2               2                34
  CLUS_3               9                 3
  CLUS_4               2                17
  CLUS_5              10                22
  CLUS_6               2                16
  CLUS_7               3                17
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  5P GAIN MUTATED        5      9      2      4      9
  5P GAIN WILD-TYPE     13     33     15      4     47
D9V9, multiclass
        clus
vv       5P GAIN MUTATED 5P GAIN WILD-TYPE
  CLUS_1               5                13
  CLUS_2               9                33
  CLUS_3               2                15
  CLUS_4               4                 4
  CLUS_5               9                47
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  5P GAIN MUTATED        4     14     11
  5P GAIN WILD-TYPE     18     49     45
D9V10, multiclass
        clus
vv       5P GAIN MUTATED 5P GAIN WILD-TYPE
  CLUS_1               4                18
  CLUS_2              14                49
  CLUS_3              11                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 CLUS_4
  5P GAIN MUTATED        4      4      3      2
  5P GAIN WILD-TYPE      5     10     11     11
D9V11, multiclass
        clus
vv       5P GAIN MUTATED 5P GAIN WILD-TYPE
  CLUS_1               4                 5
  CLUS_2               4                10
  CLUS_3               3                11
  CLUS_4               2                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
  5P GAIN MUTATED        1      4      4      2      2
  5P GAIN WILD-TYPE      8      9     14      3      3
D9V12, multiclass
        clus
vv       5P GAIN MUTATED 5P GAIN WILD-TYPE
  CLUS_1               1                 8
  CLUS_2               4                 9
  CLUS_3               4                14
  CLUS_4               2                 3
  CLUS_5               2                 3
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(10) Variable = 5Q GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  5Q GAIN MUTATED        4      1      5
  5Q GAIN WILD-TYPE     21     21     17
D10V1, multiclass
        clus
vv       5Q GAIN MUTATED 5Q GAIN WILD-TYPE
  CLUS_1               4                21
  CLUS_2               1                21
  CLUS_3               5                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 CLUS_8
  5Q GAIN MUTATED        0      2      2      0      2      0      4      0
  5Q GAIN WILD-TYPE      6     11     11      9      6      9      4      3
D10V2, multiclass
        clus
vv       5Q GAIN MUTATED 5Q GAIN WILD-TYPE
  CLUS_1               0                 6
  CLUS_2               2                11
  CLUS_3               2                11
  CLUS_4               0                 9
  CLUS_5               2                 6
  CLUS_6               0                 9
  CLUS_7               4                 4
  CLUS_8               0                 3
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  5Q GAIN MUTATED        3      6      5     10
  5Q GAIN WILD-TYPE     63     26     26     26
D10V3, multiclass
        clus
vv       5Q GAIN MUTATED 5Q GAIN WILD-TYPE
  CLUS_1               3                63
  CLUS_2               6                26
  CLUS_3               5                26
  CLUS_4              10                26
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  5Q GAIN MUTATED        3      3      8
  5Q GAIN WILD-TYPE     25     36     21
D10V4, multiclass
        clus
vv       5Q GAIN MUTATED 5Q GAIN WILD-TYPE
  CLUS_1               3                25
  CLUS_2               3                36
  CLUS_3               8                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
  5Q GAIN MUTATED        3      6      4      4      0
  5Q GAIN WILD-TYPE     39     21     21     26      3
D10V5, multiclass
        clus
vv       5Q GAIN MUTATED 5Q GAIN WILD-TYPE
  CLUS_1               3                39
  CLUS_2               6                21
  CLUS_3               4                21
  CLUS_4               4                26
  CLUS_5               0                 3
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  5Q GAIN MUTATED        2      5      3      3      2      2
  5Q GAIN WILD-TYPE     18     15     21     15     27     14
D10V6, multiclass
        clus
vv       5Q GAIN MUTATED 5Q GAIN WILD-TYPE
  CLUS_1               2                18
  CLUS_2               5                15
  CLUS_3               3                21
  CLUS_4               3                15
  CLUS_5               2                27
  CLUS_6               2                14
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  5Q GAIN MUTATED        5      0      5      6      8
  5Q GAIN WILD-TYPE     24     14     28     22     52
D10V7, multiclass
        clus
vv       5Q GAIN MUTATED 5Q GAIN WILD-TYPE
  CLUS_1               5                24
  CLUS_2               0                14
  CLUS_3               5                28
  CLUS_4               6                22
  CLUS_5               8                52
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  5Q GAIN MUTATED        5      2      5      2      6      1      3
  5Q GAIN WILD-TYPE     22     34      7     17     26     17     17
D10V8, multiclass
        clus
vv       5Q GAIN MUTATED 5Q GAIN WILD-TYPE
  CLUS_1               5                22
  CLUS_2               2                34
  CLUS_3               5                 7
  CLUS_4               2                17
  CLUS_5               6                26
  CLUS_6               1                17
  CLUS_7               3                17
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  5Q GAIN MUTATED        3      7      0      2      6
  5Q GAIN WILD-TYPE     15     35     17      6     50
D10V9, multiclass
        clus
vv       5Q GAIN MUTATED 5Q GAIN WILD-TYPE
  CLUS_1               3                15
  CLUS_2               7                35
  CLUS_3               0                17
  CLUS_4               2                 6
  CLUS_5               6                50
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  5Q GAIN MUTATED        1      9      8
  5Q GAIN WILD-TYPE     21     54     48
D10V10, multiclass
        clus
vv       5Q GAIN MUTATED 5Q GAIN WILD-TYPE
  CLUS_1               1                21
  CLUS_2               9                54
  CLUS_3               8                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 CLUS_4
  5Q GAIN MUTATED        2      2      2      2
  5Q GAIN WILD-TYPE      7     12     12     11
D10V11, multiclass
        clus
vv       5Q GAIN MUTATED 5Q GAIN WILD-TYPE
  CLUS_1               2                 7
  CLUS_2               2                12
  CLUS_3               2                12
  CLUS_4               2                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
  5Q GAIN MUTATED        0      3      3      1      1
  5Q GAIN WILD-TYPE      9     10     15      4      4
D10V12, multiclass
        clus
vv       5Q GAIN MUTATED 5Q GAIN WILD-TYPE
  CLUS_1               0                 9
  CLUS_2               3                10
  CLUS_3               3                15
  CLUS_4               1                 4
  CLUS_5               1                 4
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(11) Variable = 6P GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  6P GAIN MUTATED        3      6      6
  6P GAIN WILD-TYPE     22     16     16
D11V1, multiclass
        clus
vv       6P GAIN MUTATED 6P GAIN WILD-TYPE
  CLUS_1               3                22
  CLUS_2               6                16
  CLUS_3               6                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 CLUS_8
  6P GAIN MUTATED        0      2      3      3      3      1      3      0
  6P GAIN WILD-TYPE      6     11     10      6      5      8      5      3
D11V2, multiclass
        clus
vv       6P GAIN MUTATED 6P GAIN WILD-TYPE
  CLUS_1               0                 6
  CLUS_2               2                11
  CLUS_3               3                10
  CLUS_4               3                 6
  CLUS_5               3                 5
  CLUS_6               1                 8
  CLUS_7               3                 5
  CLUS_8               0                 3
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  6P GAIN MUTATED       11     15      9      6
  6P GAIN WILD-TYPE     55     17     22     30
D11V3, multiclass
        clus
vv       6P GAIN MUTATED 6P GAIN WILD-TYPE
  CLUS_1              11                55
  CLUS_2              15                17
  CLUS_3               9                22
  CLUS_4               6                30
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  6P GAIN MUTATED       14      5      7
  6P GAIN WILD-TYPE     14     34     22
D11V4, multiclass
        clus
vv       6P GAIN MUTATED 6P GAIN WILD-TYPE
  CLUS_1              14                14
  CLUS_2               5                34
  CLUS_3               7                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
  6P GAIN MUTATED       12      4      8      5      0
  6P GAIN WILD-TYPE     30     23     17     25      3
D11V5, multiclass
        clus
vv       6P GAIN MUTATED 6P GAIN WILD-TYPE
  CLUS_1              12                30
  CLUS_2               4                23
  CLUS_3               8                17
  CLUS_4               5                25
  CLUS_5               0                 3
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  6P GAIN MUTATED        5      5      4      6      3      6
  6P GAIN WILD-TYPE     15     15     20     12     26     10
D11V6, multiclass
        clus
vv       6P GAIN MUTATED 6P GAIN WILD-TYPE
  CLUS_1               5                15
  CLUS_2               5                15
  CLUS_3               4                20
  CLUS_4               6                12
  CLUS_5               3                26
  CLUS_6               6                10
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  6P GAIN MUTATED       10      3      8      6     14
  6P GAIN WILD-TYPE     19     11     25     22     46
D11V7, multiclass
        clus
vv       6P GAIN MUTATED 6P GAIN WILD-TYPE
  CLUS_1              10                19
  CLUS_2               3                11
  CLUS_3               8                25
  CLUS_4               6                22
  CLUS_5              14                46
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  6P GAIN MUTATED        8     11      4      4      8      1      5
  6P GAIN WILD-TYPE     19     25      8     15     24     17     15
D11V8, multiclass
        clus
vv       6P GAIN MUTATED 6P GAIN WILD-TYPE
  CLUS_1               8                19
  CLUS_2              11                25
  CLUS_3               4                 8
  CLUS_4               4                15
  CLUS_5               8                24
  CLUS_6               1                17
  CLUS_7               5                15
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  6P GAIN MUTATED        7     13      4      4     11
  6P GAIN WILD-TYPE     11     29     13      4     45
D11V9, multiclass
        clus
vv       6P GAIN MUTATED 6P GAIN WILD-TYPE
  CLUS_1               7                11
  CLUS_2              13                29
  CLUS_3               4                13
  CLUS_4               4                 4
  CLUS_5              11                45
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  6P GAIN MUTATED        9     17     13
  6P GAIN WILD-TYPE     13     46     43
D11V10, multiclass
        clus
vv       6P GAIN MUTATED 6P GAIN WILD-TYPE
  CLUS_1               9                13
  CLUS_2              17                46
  CLUS_3              13                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 CLUS_4
  6P GAIN MUTATED        4      8      4      3
  6P GAIN WILD-TYPE      5      6     10     10
D11V11, multiclass
        clus
vv       6P GAIN MUTATED 6P GAIN WILD-TYPE
  CLUS_1               4                 5
  CLUS_2               8                 6
  CLUS_3               4                10
  CLUS_4               3                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
  6P GAIN MUTATED        5      4      6      2      2
  6P GAIN WILD-TYPE      4      9     12      3      3
D11V12, multiclass
        clus
vv       6P GAIN MUTATED 6P GAIN WILD-TYPE
  CLUS_1               5                 4
  CLUS_2               4                 9
  CLUS_3               6                12
  CLUS_4               2                 3
  CLUS_5               2                 3
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(12) Variable = 6Q GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  6Q GAIN MUTATED        3      4      5
  6Q GAIN WILD-TYPE     22     18     17
D12V1, multiclass
        clus
vv       6Q GAIN MUTATED 6Q GAIN WILD-TYPE
  CLUS_1               3                22
  CLUS_2               4                18
  CLUS_3               5                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 CLUS_8
  6Q GAIN MUTATED        0      1      3      2      3      0      3      0
  6Q GAIN WILD-TYPE      6     12     10      7      5      9      5      3
D12V2, multiclass
        clus
vv       6Q GAIN MUTATED 6Q GAIN WILD-TYPE
  CLUS_1               0                 6
  CLUS_2               1                12
  CLUS_3               3                10
  CLUS_4               2                 7
  CLUS_5               3                 5
  CLUS_6               0                 9
  CLUS_7               3                 5
  CLUS_8               0                 3
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  6Q GAIN MUTATED        9     12     10      5
  6Q GAIN WILD-TYPE     57     20     21     31
D12V3, multiclass
        clus
vv       6Q GAIN MUTATED 6Q GAIN WILD-TYPE
  CLUS_1               9                57
  CLUS_2              12                20
  CLUS_3              10                21
  CLUS_4               5                31
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  6Q GAIN MUTATED       13      5      6
  6Q GAIN WILD-TYPE     15     34     23
D12V4, multiclass
        clus
vv       6Q GAIN MUTATED 6Q GAIN WILD-TYPE
  CLUS_1              13                15
  CLUS_2               5                34
  CLUS_3               6                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 CLUS_4 CLUS_5
  6Q GAIN MUTATED       10      3      6      5      0
  6Q GAIN WILD-TYPE     32     24     19     25      3
D12V5, multiclass
        clus
vv       6Q GAIN MUTATED 6Q GAIN WILD-TYPE
  CLUS_1              10                32
  CLUS_2               3                24
  CLUS_3               6                19
  CLUS_4               5                25
  CLUS_5               0                 3
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  6Q GAIN MUTATED        4      4      3      5      3      5
  6Q GAIN WILD-TYPE     16     16     21     13     26     11
D12V6, multiclass
        clus
vv       6Q GAIN MUTATED 6Q GAIN WILD-TYPE
  CLUS_1               4                16
  CLUS_2               4                16
  CLUS_3               3                21
  CLUS_4               5                13
  CLUS_5               3                26
  CLUS_6               5                11
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  6Q GAIN MUTATED        9      3      6      7     11
  6Q GAIN WILD-TYPE     20     11     27     21     49
D12V7, multiclass
        clus
vv       6Q GAIN MUTATED 6Q GAIN WILD-TYPE
  CLUS_1               9                20
  CLUS_2               3                11
  CLUS_3               6                27
  CLUS_4               7                21
  CLUS_5              11                49
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  6Q GAIN MUTATED        7      9      4      5      7      1      3
  6Q GAIN WILD-TYPE     20     27      8     14     25     17     17
D12V8, multiclass
        clus
vv       6Q GAIN MUTATED 6Q GAIN WILD-TYPE
  CLUS_1               7                20
  CLUS_2               9                27
  CLUS_3               4                 8
  CLUS_4               5                14
  CLUS_5               7                25
  CLUS_6               1                17
  CLUS_7               3                17
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  6Q GAIN MUTATED        6     12      4      3      9
  6Q GAIN WILD-TYPE     12     30     13      5     47
D12V9, multiclass
        clus
vv       6Q GAIN MUTATED 6Q GAIN WILD-TYPE
  CLUS_1               6                12
  CLUS_2              12                30
  CLUS_3               4                13
  CLUS_4               3                 5
  CLUS_5               9                47
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  6Q GAIN MUTATED        6     17     11
  6Q GAIN WILD-TYPE     16     46     45
D12V10, multiclass
        clus
vv       6Q GAIN MUTATED 6Q GAIN WILD-TYPE
  CLUS_1               6                16
  CLUS_2              17                46
  CLUS_3              11                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 CLUS_4
  6Q GAIN MUTATED        4      7      2      4
  6Q GAIN WILD-TYPE      5      7     12      9
D12V11, multiclass
        clus
vv       6Q GAIN MUTATED 6Q GAIN WILD-TYPE
  CLUS_1               4                 5
  CLUS_2               7                 7
  CLUS_3               2                12
  CLUS_4               4                 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
  6Q GAIN MUTATED        5      3      5      2      2
  6Q GAIN WILD-TYPE      4     10     13      3      3
D12V12, multiclass
        clus
vv       6Q GAIN MUTATED 6Q GAIN WILD-TYPE
  CLUS_1               5                 4
  CLUS_2               3                10
  CLUS_3               5                13
  CLUS_4               2                 3
  CLUS_5               2                 3
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(13) Variable = 7P GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  7P GAIN MUTATED        8     11     18
  7P GAIN WILD-TYPE     17     11      4
D13V1, multiclass
        clus
vv       7P GAIN MUTATED 7P GAIN WILD-TYPE
  CLUS_1               8                17
  CLUS_2              11                11
  CLUS_3              18                 4
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  7P GAIN MUTATED        1      3      7      7      7      5      7      0
  7P GAIN WILD-TYPE      5     10      6      2      1      4      1      3
D13V2, multiclass
        clus
vv       7P GAIN MUTATED 7P GAIN WILD-TYPE
  CLUS_1               1                 5
  CLUS_2               3                10
  CLUS_3               7                 6
  CLUS_4               7                 2
  CLUS_5               7                 1
  CLUS_6               5                 4
  CLUS_7               7                 1
  CLUS_8               0                 3
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  7P GAIN MUTATED       24     26     28     24
  7P GAIN WILD-TYPE     42      6      3     12
D13V3, multiclass
        clus
vv       7P GAIN MUTATED 7P GAIN WILD-TYPE
  CLUS_1              24                42
  CLUS_2              26                 6
  CLUS_3              28                 3
  CLUS_4              24                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
  7P GAIN MUTATED       24     19     22
  7P GAIN WILD-TYPE      4     20      7
D13V4, multiclass
        clus
vv       7P GAIN MUTATED 7P GAIN WILD-TYPE
  CLUS_1              24                 4
  CLUS_2              19                20
  CLUS_3              22                 7
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  7P GAIN MUTATED       28     19     15     17      2
  7P GAIN WILD-TYPE     14      8     10     13      1
D13V5, multiclass
        clus
vv       7P GAIN MUTATED 7P GAIN WILD-TYPE
  CLUS_1              28                14
  CLUS_2              19                 8
  CLUS_3              15                10
  CLUS_4              17                13
  CLUS_5               2                 1
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  7P GAIN MUTATED       14     13     17      9     13     15
  7P GAIN WILD-TYPE      6      7      7      9     16      1
D13V6, multiclass
        clus
vv       7P GAIN MUTATED 7P GAIN WILD-TYPE
  CLUS_1              14                 6
  CLUS_2              13                 7
  CLUS_3              17                 7
  CLUS_4               9                 9
  CLUS_5              13                16
  CLUS_6              15                 1
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  7P GAIN MUTATED       24      7     13     24     33
  7P GAIN WILD-TYPE      5      7     20      4     27
D13V7, multiclass
        clus
vv       7P GAIN MUTATED 7P GAIN WILD-TYPE
  CLUS_1              24                 5
  CLUS_2               7                 7
  CLUS_3              13                20
  CLUS_4              24                 4
  CLUS_5              33                27
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  7P GAIN MUTATED       25     17      9     13     20      3     14
  7P GAIN WILD-TYPE      2     19      3      6     12     15      6
D13V8, multiclass
        clus
vv       7P GAIN MUTATED 7P GAIN WILD-TYPE
  CLUS_1              25                 2
  CLUS_2              17                19
  CLUS_3               9                 3
  CLUS_4              13                 6
  CLUS_5              20                12
  CLUS_6               3                15
  CLUS_7              14                 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 CLUS_5
  7P GAIN MUTATED       16     28     10      5     28
  7P GAIN WILD-TYPE      2     14      7      3     28
D13V9, multiclass
        clus
vv       7P GAIN MUTATED 7P GAIN WILD-TYPE
  CLUS_1              16                 2
  CLUS_2              28                14
  CLUS_3              10                 7
  CLUS_4               5                 3
  CLUS_5              28                28
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  7P GAIN MUTATED       17     41     29
  7P GAIN WILD-TYPE      5     22     27
D13V10, multiclass
        clus
vv       7P GAIN MUTATED 7P GAIN WILD-TYPE
  CLUS_1              17                 5
  CLUS_2              41                22
  CLUS_3              29                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
  7P GAIN MUTATED        6     11     10      7
  7P GAIN WILD-TYPE      3      3      4      6
D13V11, multiclass
        clus
vv       7P GAIN MUTATED 7P GAIN WILD-TYPE
  CLUS_1               6                 3
  CLUS_2              11                 3
  CLUS_3              10                 4
  CLUS_4               7                 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
  7P GAIN MUTATED        5     10     12      4      3
  7P GAIN WILD-TYPE      4      3      6      1      2
D13V12, multiclass
        clus
vv       7P GAIN MUTATED 7P GAIN WILD-TYPE
  CLUS_1               5                 4
  CLUS_2              10                 3
  CLUS_3              12                 6
  CLUS_4               4                 1
  CLUS_5               3                 2
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(14) Variable = 7Q GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  7Q GAIN MUTATED        8     10     15
  7Q GAIN WILD-TYPE     17     12      7
D14V1, multiclass
        clus
vv       7Q GAIN MUTATED 7Q GAIN WILD-TYPE
  CLUS_1               8                17
  CLUS_2              10                12
  CLUS_3              15                 7
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  7Q GAIN MUTATED        1      3      7      4      7      4      7      0
  7Q GAIN WILD-TYPE      5     10      6      5      1      5      1      3
D14V2, multiclass
        clus
vv       7Q GAIN MUTATED 7Q GAIN WILD-TYPE
  CLUS_1               1                 5
  CLUS_2               3                10
  CLUS_3               7                 6
  CLUS_4               4                 5
  CLUS_5               7                 1
  CLUS_6               4                 5
  CLUS_7               7                 1
  CLUS_8               0                 3
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  7Q GAIN MUTATED       18     23     22     22
  7Q GAIN WILD-TYPE     48      9      9     14
D14V3, multiclass
        clus
vv       7Q GAIN MUTATED 7Q GAIN WILD-TYPE
  CLUS_1              18                48
  CLUS_2              23                 9
  CLUS_3              22                 9
  CLUS_4              22                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
  7Q GAIN MUTATED       18     16     17
  7Q GAIN WILD-TYPE     10     23     12
D14V4, multiclass
        clus
vv       7Q GAIN MUTATED 7Q GAIN WILD-TYPE
  CLUS_1              18                10
  CLUS_2              16                23
  CLUS_3              17                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
  7Q GAIN MUTATED       22     16     12     14      2
  7Q GAIN WILD-TYPE     20     11     13     16      1
D14V5, multiclass
        clus
vv       7Q GAIN MUTATED 7Q GAIN WILD-TYPE
  CLUS_1              22                20
  CLUS_2              16                11
  CLUS_3              12                13
  CLUS_4              14                16
  CLUS_5               2                 1
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  7Q GAIN MUTATED       11     11     15      9      8     12
  7Q GAIN WILD-TYPE      9      9      9      9     21      4
D14V6, multiclass
        clus
vv       7Q GAIN MUTATED 7Q GAIN WILD-TYPE
  CLUS_1              11                 9
  CLUS_2              11                 9
  CLUS_3              15                 9
  CLUS_4               9                 9
  CLUS_5               8                21
  CLUS_6              12                 4
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  7Q GAIN MUTATED       17      5     11     22     29
  7Q GAIN WILD-TYPE     12      9     22      6     31
D14V7, multiclass
        clus
vv       7Q GAIN MUTATED 7Q GAIN WILD-TYPE
  CLUS_1              17                12
  CLUS_2               5                 9
  CLUS_3              11                22
  CLUS_4              22                 6
  CLUS_5              29                31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  7Q GAIN MUTATED       19     12      8     12     18      3     12
  7Q GAIN WILD-TYPE      8     24      4      7     14     15      8
D14V8, multiclass
        clus
vv       7Q GAIN MUTATED 7Q GAIN WILD-TYPE
  CLUS_1              19                 8
  CLUS_2              12                24
  CLUS_3               8                 4
  CLUS_4              12                 7
  CLUS_5              18                14
  CLUS_6               3                15
  CLUS_7              12                 8
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  7Q GAIN MUTATED       12     24      8      4     25
  7Q GAIN WILD-TYPE      6     18      9      4     31
D14V9, multiclass
        clus
vv       7Q GAIN MUTATED 7Q GAIN WILD-TYPE
  CLUS_1              12                 6
  CLUS_2              24                18
  CLUS_3               8                 9
  CLUS_4               4                 4
  CLUS_5              25                31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  7Q GAIN MUTATED       12     34     27
  7Q GAIN WILD-TYPE     10     29     29
D14V10, multiclass
        clus
vv       7Q GAIN MUTATED 7Q GAIN WILD-TYPE
  CLUS_1              12                10
  CLUS_2              34                29
  CLUS_3              27                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
  7Q GAIN MUTATED        6      8      8      6
  7Q GAIN WILD-TYPE      3      6      6      7
D14V11, multiclass
        clus
vv       7Q GAIN MUTATED 7Q GAIN WILD-TYPE
  CLUS_1               6                 3
  CLUS_2               8                 6
  CLUS_3               8                 6
  CLUS_4               6                 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
  7Q GAIN MUTATED        4      7     10      4      3
  7Q GAIN WILD-TYPE      5      6      8      1      2
D14V12, multiclass
        clus
vv       7Q GAIN MUTATED 7Q GAIN WILD-TYPE
  CLUS_1               4                 5
  CLUS_2               7                 6
  CLUS_3              10                 8
  CLUS_4               4                 1
  CLUS_5               3                 2
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(15) Variable = 8P GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  8P GAIN MUTATED        3      6      5
  8P GAIN WILD-TYPE     22     16     17
D15V1, multiclass
        clus
vv       8P GAIN MUTATED 8P GAIN WILD-TYPE
  CLUS_1               3                22
  CLUS_2               6                16
  CLUS_3               5                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 CLUS_8
  8P GAIN MUTATED        1      5      1      1      4      1      1      0
  8P GAIN WILD-TYPE      5      8     12      8      4      8      7      3
D15V2, multiclass
        clus
vv       8P GAIN MUTATED 8P GAIN WILD-TYPE
  CLUS_1               1                 5
  CLUS_2               5                 8
  CLUS_3               1                12
  CLUS_4               1                 8
  CLUS_5               4                 4
  CLUS_6               1                 8
  CLUS_7               1                 7
  CLUS_8               0                 3
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  8P GAIN MUTATED       10      8      6     18
  8P GAIN WILD-TYPE     56     24     25     18
D15V3, multiclass
        clus
vv       8P GAIN MUTATED 8P GAIN WILD-TYPE
  CLUS_1              10                56
  CLUS_2               8                24
  CLUS_3               6                25
  CLUS_4              18                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
  8P GAIN MUTATED       10      9      9
  8P GAIN WILD-TYPE     18     30     20
D15V4, multiclass
        clus
vv       8P GAIN MUTATED 8P GAIN WILD-TYPE
  CLUS_1              10                18
  CLUS_2               9                30
  CLUS_3               9                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
  8P GAIN MUTATED        7      9      7     12      0
  8P GAIN WILD-TYPE     35     18     18     18      3
D15V5, multiclass
        clus
vv       8P GAIN MUTATED 8P GAIN WILD-TYPE
  CLUS_1               7                35
  CLUS_2               9                18
  CLUS_3               7                18
  CLUS_4              12                18
  CLUS_5               0                 3
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  8P GAIN MUTATED        3      4     10      9      4      5
  8P GAIN WILD-TYPE     17     16     14      9     25     11
D15V6, multiclass
        clus
vv       8P GAIN MUTATED 8P GAIN WILD-TYPE
  CLUS_1               3                17
  CLUS_2               4                16
  CLUS_3              10                14
  CLUS_4               9                 9
  CLUS_5               4                25
  CLUS_6               5                11
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  8P GAIN MUTATED        9      2      8     10     13
  8P GAIN WILD-TYPE     20     12     25     18     47
D15V7, multiclass
        clus
vv       8P GAIN MUTATED 8P GAIN WILD-TYPE
  CLUS_1               9                20
  CLUS_2               2                12
  CLUS_3               8                25
  CLUS_4              10                18
  CLUS_5              13                47
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  8P GAIN MUTATED       12      8      3      5      6      5      3
  8P GAIN WILD-TYPE     15     28      9     14     26     13     17
D15V8, multiclass
        clus
vv       8P GAIN MUTATED 8P GAIN WILD-TYPE
  CLUS_1              12                15
  CLUS_2               8                28
  CLUS_3               3                 9
  CLUS_4               5                14
  CLUS_5               6                26
  CLUS_6               5                13
  CLUS_7               3                17
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  8P GAIN MUTATED        4     13      5      3     13
  8P GAIN WILD-TYPE     14     29     12      5     43
D15V9, multiclass
        clus
vv       8P GAIN MUTATED 8P GAIN WILD-TYPE
  CLUS_1               4                14
  CLUS_2              13                29
  CLUS_3               5                12
  CLUS_4               3                 5
  CLUS_5              13                43
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  8P GAIN MUTATED        9     16     13
  8P GAIN WILD-TYPE     13     47     43
D15V10, multiclass
        clus
vv       8P GAIN MUTATED 8P GAIN WILD-TYPE
  CLUS_1               9                13
  CLUS_2              16                47
  CLUS_3              13                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 CLUS_4
  8P GAIN MUTATED        3      6      6      4
  8P GAIN WILD-TYPE      6      8      8      9
D15V11, multiclass
        clus
vv       8P GAIN MUTATED 8P GAIN WILD-TYPE
  CLUS_1               3                 6
  CLUS_2               6                 8
  CLUS_3               6                 8
  CLUS_4               4                 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
  8P GAIN MUTATED        5      3      5      2      4
  8P GAIN WILD-TYPE      4     10     13      3      1
D15V12, multiclass
        clus
vv       8P GAIN MUTATED 8P GAIN WILD-TYPE
  CLUS_1               5                 4
  CLUS_2               3                10
  CLUS_3               5                13
  CLUS_4               2                 3
  CLUS_5               4                 1
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(16) Variable = 8Q GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  8Q GAIN MUTATED        9     10     16
  8Q GAIN WILD-TYPE     16     12      6
D16V1, multiclass
        clus
vv       8Q GAIN MUTATED 8Q GAIN WILD-TYPE
  CLUS_1               9                16
  CLUS_2              10                12
  CLUS_3              16                 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 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  8Q GAIN MUTATED        3      6      5      8      5      3      3      2
  8Q GAIN WILD-TYPE      3      7      8      1      3      6      5      1
D16V2, multiclass
        clus
vv       8Q GAIN MUTATED 8Q GAIN WILD-TYPE
  CLUS_1               3                 3
  CLUS_2               6                 7
  CLUS_3               5                 8
  CLUS_4               8                 1
  CLUS_5               5                 3
  CLUS_6               3                 6
  CLUS_7               3                 5
  CLUS_8               2                 1
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  8Q GAIN MUTATED       29     13     15     32
  8Q GAIN WILD-TYPE     37     19     16      4
D16V3, multiclass
        clus
vv       8Q GAIN MUTATED 8Q GAIN WILD-TYPE
  CLUS_1              29                37
  CLUS_2              13                19
  CLUS_3              15                16
  CLUS_4              32                 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
  8Q GAIN MUTATED       20     20     15
  8Q GAIN WILD-TYPE      8     19     14
D16V4, multiclass
        clus
vv       8Q GAIN MUTATED 8Q GAIN WILD-TYPE
  CLUS_1              20                 8
  CLUS_2              20                19
  CLUS_3              15                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 CLUS_5
  8Q GAIN MUTATED       20     19     14     18      2
  8Q GAIN WILD-TYPE     22      8     11     12      1
D16V5, multiclass
        clus
vv       8Q GAIN MUTATED 8Q GAIN WILD-TYPE
  CLUS_1              20                22
  CLUS_2              19                 8
  CLUS_3              14                11
  CLUS_4              18                12
  CLUS_5               2                 1
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  8Q GAIN MUTATED        9     13     17     13     15      6
  8Q GAIN WILD-TYPE     11      7      7      5     14     10
D16V6, multiclass
        clus
vv       8Q GAIN MUTATED 8Q GAIN WILD-TYPE
  CLUS_1               9                11
  CLUS_2              13                 7
  CLUS_3              17                 7
  CLUS_4              13                 5
  CLUS_5              15                14
  CLUS_6               6                10
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  8Q GAIN MUTATED       18      7     14     16     33
  8Q GAIN WILD-TYPE     11      7     19     12     27
D16V7, multiclass
        clus
vv       8Q GAIN MUTATED 8Q GAIN WILD-TYPE
  CLUS_1              18                11
  CLUS_2               7                 7
  CLUS_3              14                19
  CLUS_4              16                12
  CLUS_5              33                27
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  8Q GAIN MUTATED       18     17      8     11     18      5     11
  8Q GAIN WILD-TYPE      9     19      4      8     14     13      9
D16V8, multiclass
        clus
vv       8Q GAIN MUTATED 8Q GAIN WILD-TYPE
  CLUS_1              18                 9
  CLUS_2              17                19
  CLUS_3               8                 4
  CLUS_4              11                 8
  CLUS_5              18                14
  CLUS_6               5                13
  CLUS_7              11                 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 CLUS_5
  8Q GAIN MUTATED       10     29      7      4     28
  8Q GAIN WILD-TYPE      8     13     10      4     28
D16V9, multiclass
        clus
vv       8Q GAIN MUTATED 8Q GAIN WILD-TYPE
  CLUS_1              10                 8
  CLUS_2              29                13
  CLUS_3               7                10
  CLUS_4               4                 4
  CLUS_5              28                28
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  8Q GAIN MUTATED       17     34     27
  8Q GAIN WILD-TYPE      5     29     29
D16V10, multiclass
        clus
vv       8Q GAIN MUTATED 8Q GAIN WILD-TYPE
  CLUS_1              17                 5
  CLUS_2              34                29
  CLUS_3              27                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
  8Q GAIN MUTATED        6      9     14      7
  8Q GAIN WILD-TYPE      3      5      0      6
D16V11, multiclass
        clus
vv       8Q GAIN MUTATED 8Q GAIN WILD-TYPE
  CLUS_1               6                 3
  CLUS_2               9                 5
  CLUS_3              14                 0
  CLUS_4               7                 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
  8Q GAIN MUTATED        8      8     12      3      5
  8Q GAIN WILD-TYPE      1      5      6      2      0
D16V12, multiclass
        clus
vv       8Q GAIN MUTATED 8Q GAIN WILD-TYPE
  CLUS_1               8                 1
  CLUS_2               8                 5
  CLUS_3              12                 6
  CLUS_4               3                 2
  CLUS_5               5                 0
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(17) Variable = 9P GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  9P GAIN MUTATED        2     10      6
  9P GAIN WILD-TYPE     23     12     16
D17V1, multiclass
        clus
vv       9P GAIN MUTATED 9P GAIN WILD-TYPE
  CLUS_1               2                23
  CLUS_2              10                12
  CLUS_3               6                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 CLUS_8
  9P GAIN MUTATED        2      6      0      2      2      3      2      1
  9P GAIN WILD-TYPE      4      7     13      7      6      6      6      2
D17V2, multiclass
        clus
vv       9P GAIN MUTATED 9P GAIN WILD-TYPE
  CLUS_1               2                 4
  CLUS_2               6                 7
  CLUS_3               0                13
  CLUS_4               2                 7
  CLUS_5               2                 6
  CLUS_6               3                 6
  CLUS_7               2                 6
  CLUS_8               1                 2
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  9P GAIN MUTATED       15      7      7     13
  9P GAIN WILD-TYPE     51     25     24     23
D17V3, multiclass
        clus
vv       9P GAIN MUTATED 9P GAIN WILD-TYPE
  CLUS_1              15                51
  CLUS_2               7                25
  CLUS_3               7                24
  CLUS_4              13                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
  9P GAIN MUTATED        6      7     11
  9P GAIN WILD-TYPE     22     32     18
D17V4, multiclass
        clus
vv       9P GAIN MUTATED 9P GAIN WILD-TYPE
  CLUS_1               6                22
  CLUS_2               7                32
  CLUS_3              11                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
  9P GAIN MUTATED       15      7      7      6      0
  9P GAIN WILD-TYPE     27     20     18     24      3
D17V5, multiclass
        clus
vv       9P GAIN MUTATED 9P GAIN WILD-TYPE
  CLUS_1              15                27
  CLUS_2               7                20
  CLUS_3               7                18
  CLUS_4               6                24
  CLUS_5               0                 3
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  9P GAIN MUTATED        7      6      3      5      6      8
  9P GAIN WILD-TYPE     13     14     21     13     23      8
D17V6, multiclass
        clus
vv       9P GAIN MUTATED 9P GAIN WILD-TYPE
  CLUS_1               7                13
  CLUS_2               6                14
  CLUS_3               3                21
  CLUS_4               5                13
  CLUS_5               6                23
  CLUS_6               8                 8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  9P GAIN MUTATED       12      2      6      3     18
  9P GAIN WILD-TYPE     17     12     27     25     42
D17V7, multiclass
        clus
vv       9P GAIN MUTATED 9P GAIN WILD-TYPE
  CLUS_1              12                17
  CLUS_2               2                12
  CLUS_3               6                27
  CLUS_4               3                25
  CLUS_5              18                42
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  9P GAIN MUTATED        8      9      5      1      7      6      5
  9P GAIN WILD-TYPE     19     27      7     18     25     12     15
D17V8, multiclass
        clus
vv       9P GAIN MUTATED 9P GAIN WILD-TYPE
  CLUS_1               8                19
  CLUS_2               9                27
  CLUS_3               5                 7
  CLUS_4               1                18
  CLUS_5               7                25
  CLUS_6               6                12
  CLUS_7               5                15
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  9P GAIN MUTATED        7      8      2      3     15
  9P GAIN WILD-TYPE     11     34     15      5     41
D17V9, multiclass
        clus
vv       9P GAIN MUTATED 9P GAIN WILD-TYPE
  CLUS_1               7                11
  CLUS_2               8                34
  CLUS_3               2                15
  CLUS_4               3                 5
  CLUS_5              15                41
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  9P GAIN MUTATED        7     12     16
  9P GAIN WILD-TYPE     15     51     40
D17V10, multiclass
        clus
vv       9P GAIN MUTATED 9P GAIN WILD-TYPE
  CLUS_1               7                15
  CLUS_2              12                51
  CLUS_3              16                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
  9P GAIN MUTATED        1      4      3      2
  9P GAIN WILD-TYPE      8     10     11     11
D17V11, multiclass
        clus
vv       9P GAIN MUTATED 9P GAIN WILD-TYPE
  CLUS_1               1                 8
  CLUS_2               4                10
  CLUS_3               3                11
  CLUS_4               2                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
  9P GAIN MUTATED        2      2      5      1      0
  9P GAIN WILD-TYPE      7     11     13      4      5
D17V12, multiclass
        clus
vv       9P GAIN MUTATED 9P GAIN WILD-TYPE
  CLUS_1               2                 7
  CLUS_2               2                11
  CLUS_3               5                13
  CLUS_4               1                 4
  CLUS_5               0                 5
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(18) Variable = 9Q GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  9Q GAIN MUTATED        1      8      5
  9Q GAIN WILD-TYPE     24     14     17
D18V1, multiclass
        clus
vv       9Q GAIN MUTATED 9Q GAIN WILD-TYPE
  CLUS_1               1                24
  CLUS_2               8                14
  CLUS_3               5                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 CLUS_8
  9Q GAIN MUTATED        1      5      0      1      2      3      1      1
  9Q GAIN WILD-TYPE      5      8     13      8      6      6      7      2
D18V2, multiclass
        clus
vv       9Q GAIN MUTATED 9Q GAIN WILD-TYPE
  CLUS_1               1                 5
  CLUS_2               5                 8
  CLUS_3               0                13
  CLUS_4               1                 8
  CLUS_5               2                 6
  CLUS_6               3                 6
  CLUS_7               1                 7
  CLUS_8               1                 2
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  9Q GAIN MUTATED       10      7      5     11
  9Q GAIN WILD-TYPE     56     25     26     25
D18V3, multiclass
        clus
vv       9Q GAIN MUTATED 9Q GAIN WILD-TYPE
  CLUS_1              10                56
  CLUS_2               7                25
  CLUS_3               5                26
  CLUS_4              11                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
  9Q GAIN MUTATED        5      6      8
  9Q GAIN WILD-TYPE     23     33     21
D18V4, multiclass
        clus
vv       9Q GAIN MUTATED 9Q GAIN WILD-TYPE
  CLUS_1               5                23
  CLUS_2               6                33
  CLUS_3               8                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
  9Q GAIN MUTATED       14      5      5      4      0
  9Q GAIN WILD-TYPE     28     22     20     26      3
D18V5, multiclass
        clus
vv       9Q GAIN MUTATED 9Q GAIN WILD-TYPE
  CLUS_1              14                28
  CLUS_2               5                22
  CLUS_3               5                20
  CLUS_4               4                26
  CLUS_5               0                 3
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  9Q GAIN MUTATED        5      4      2      4      5      8
  9Q GAIN WILD-TYPE     15     16     22     14     24      8
D18V6, multiclass
        clus
vv       9Q GAIN MUTATED 9Q GAIN WILD-TYPE
  CLUS_1               5                15
  CLUS_2               4                16
  CLUS_3               2                22
  CLUS_4               4                14
  CLUS_5               5                24
  CLUS_6               8                 8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  9Q GAIN MUTATED        9      2      5      3     13
  9Q GAIN WILD-TYPE     20     12     28     25     47
D18V7, multiclass
        clus
vv       9Q GAIN MUTATED 9Q GAIN WILD-TYPE
  CLUS_1               9                20
  CLUS_2               2                12
  CLUS_3               5                28
  CLUS_4               3                25
  CLUS_5              13                47
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  9Q GAIN MUTATED        7      8      3      1      2      6      5
  9Q GAIN WILD-TYPE     20     28      9     18     30     12     15
D18V8, multiclass
        clus
vv       9Q GAIN MUTATED 9Q GAIN WILD-TYPE
  CLUS_1               7                20
  CLUS_2               8                28
  CLUS_3               3                 9
  CLUS_4               1                18
  CLUS_5               2                30
  CLUS_6               6                12
  CLUS_7               5                15
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  9Q GAIN MUTATED        5      7      2      1     12
  9Q GAIN WILD-TYPE     13     35     15      7     44
D18V9, multiclass
        clus
vv       9Q GAIN MUTATED 9Q GAIN WILD-TYPE
  CLUS_1               5                13
  CLUS_2               7                35
  CLUS_3               2                15
  CLUS_4               1                 7
  CLUS_5              12                44
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  9Q GAIN MUTATED        3     11     13
  9Q GAIN WILD-TYPE     19     52     43
D18V10, multiclass
        clus
vv       9Q GAIN MUTATED 9Q GAIN WILD-TYPE
  CLUS_1               3                19
  CLUS_2              11                52
  CLUS_3              13                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 CLUS_4
  9Q GAIN MUTATED        1      3      3      1
  9Q GAIN WILD-TYPE      8     11     11     12
D18V11, multiclass
        clus
vv       9Q GAIN MUTATED 9Q GAIN WILD-TYPE
  CLUS_1               1                 8
  CLUS_2               3                11
  CLUS_3               3                11
  CLUS_4               1                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
  9Q GAIN MUTATED        1      2      4      1      0
  9Q GAIN WILD-TYPE      8     11     14      4      5
D18V12, multiclass
        clus
vv       9Q GAIN MUTATED 9Q GAIN WILD-TYPE
  CLUS_1               1                 8
  CLUS_2               2                11
  CLUS_3               4                14
  CLUS_4               1                 4
  CLUS_5               0                 5
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(19) Variable = 10P GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  10P GAIN MUTATED        2      2      2
  10P GAIN WILD-TYPE     23     20     20
D19V1, multiclass
        clus
vv       10P GAIN MUTATED 10P GAIN WILD-TYPE
  CLUS_1                2                 23
  CLUS_2                2                 20
  CLUS_3                2                 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 CLUS_8
  10P GAIN MUTATED        1      1      2      1      1      0      0      0
  10P GAIN WILD-TYPE      5     12     11      8      7      9      8      3
D19V2, multiclass
        clus
vv       10P GAIN MUTATED 10P GAIN WILD-TYPE
  CLUS_1                1                  5
  CLUS_2                1                 12
  CLUS_3                2                 11
  CLUS_4                1                  8
  CLUS_5                1                  7
  CLUS_6                0                  9
  CLUS_7                0                  8
  CLUS_8                0                  3
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  10P GAIN MUTATED        3      4      4      2
  10P GAIN WILD-TYPE     63     28     27     34
D19V3, multiclass
        clus
vv       10P GAIN MUTATED 10P GAIN WILD-TYPE
  CLUS_1                3                 63
  CLUS_2                4                 28
  CLUS_3                4                 27
  CLUS_4                2                 34
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  10P GAIN MUTATED        1      4      2
  10P GAIN WILD-TYPE     27     35     27
D19V4, multiclass
        clus
vv       10P GAIN MUTATED 10P GAIN WILD-TYPE
  CLUS_1                1                 27
  CLUS_2                4                 35
  CLUS_3                2                 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
  10P GAIN MUTATED        4      4      0      3      0
  10P GAIN WILD-TYPE     38     23     25     27      3
D19V5, multiclass
        clus
vv       10P GAIN MUTATED 10P GAIN WILD-TYPE
  CLUS_1                4                 38
  CLUS_2                4                 23
  CLUS_3                0                 25
  CLUS_4                3                 27
  CLUS_5                0                  3
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  10P GAIN MUTATED        1      2      1      2      3      2
  10P GAIN WILD-TYPE     19     18     23     16     26     14
D19V6, multiclass
        clus
vv       10P GAIN MUTATED 10P GAIN WILD-TYPE
  CLUS_1                1                 19
  CLUS_2                2                 18
  CLUS_3                1                 23
  CLUS_4                2                 16
  CLUS_5                3                 26
  CLUS_6                2                 14
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  10P GAIN MUTATED        4      1      1      1      5
  10P GAIN WILD-TYPE     25     13     32     27     55
D19V7, multiclass
        clus
vv       10P GAIN MUTATED 10P GAIN WILD-TYPE
  CLUS_1                4                 25
  CLUS_2                1                 13
  CLUS_3                1                 32
  CLUS_4                1                 27
  CLUS_5                5                 55
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  10P GAIN MUTATED        4      2      1      0      5      0      0
  10P GAIN WILD-TYPE     23     34     11     19     27     18     20
D19V8, multiclass
        clus
vv       10P GAIN MUTATED 10P GAIN WILD-TYPE
  CLUS_1                4                 23
  CLUS_2                2                 34
  CLUS_3                1                 11
  CLUS_4                0                 19
  CLUS_5                5                 27
  CLUS_6                0                 18
  CLUS_7                0                 20
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  10P GAIN MUTATED        2      3      0      0      6
  10P GAIN WILD-TYPE     16     39     17      8     50
D19V9, multiclass
        clus
vv       10P GAIN MUTATED 10P GAIN WILD-TYPE
  CLUS_1                2                 16
  CLUS_2                3                 39
  CLUS_3                0                 17
  CLUS_4                0                  8
  CLUS_5                6                 50
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  10P GAIN MUTATED        1      5      5
  10P GAIN WILD-TYPE     21     58     51
D19V10, multiclass
        clus
vv       10P GAIN MUTATED 10P GAIN WILD-TYPE
  CLUS_1                1                 21
  CLUS_2                5                 58
  CLUS_3                5                 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 CLUS_4
  10P GAIN MUTATED        0      2      1      0
  10P GAIN WILD-TYPE      9     12     13     13
D19V11, multiclass
        clus
vv       10P GAIN MUTATED 10P GAIN WILD-TYPE
  CLUS_1                0                  9
  CLUS_2                2                 12
  CLUS_3                1                 13
  CLUS_4                0                 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
  10P GAIN MUTATED        0      2      1      0      0
  10P GAIN WILD-TYPE      9     11     17      5      5
D19V12, multiclass
        clus
vv       10P GAIN MUTATED 10P GAIN WILD-TYPE
  CLUS_1                0                  9
  CLUS_2                2                 11
  CLUS_3                1                 17
  CLUS_4                0                  5
  CLUS_5                0                  5
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(20) Variable = 10Q GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  10Q GAIN MUTATED        1      0      2
  10Q GAIN WILD-TYPE     24     22     20
D20V1, multiclass
        clus
vv       10Q GAIN MUTATED 10Q GAIN WILD-TYPE
  CLUS_1                1                 24
  CLUS_2                0                 22
  CLUS_3                2                 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 CLUS_8
  10Q GAIN MUTATED        1      0      0      2      0      0      0      0
  10Q GAIN WILD-TYPE      5     13     13      7      8      9      8      3
D20V2, multiclass
        clus
vv       10Q GAIN MUTATED 10Q GAIN WILD-TYPE
  CLUS_1                1                  5
  CLUS_2                0                 13
  CLUS_3                0                 13
  CLUS_4                2                  7
  CLUS_5                0                  8
  CLUS_6                0                  9
  CLUS_7                0                  8
  CLUS_8                0                  3
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  10Q GAIN MUTATED        3      1      3      0
  10Q GAIN WILD-TYPE     63     31     28     36
D20V3, multiclass
        clus
vv       10Q GAIN MUTATED 10Q GAIN WILD-TYPE
  CLUS_1                3                 63
  CLUS_2                1                 31
  CLUS_3                3                 28
  CLUS_4                0                 36
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        1      2      1
  10Q GAIN WILD-TYPE     27     37     28
D20V4, multiclass
        clus
vv       10Q GAIN MUTATED 10Q GAIN WILD-TYPE
  CLUS_1                1                 27
  CLUS_2                2                 37
  CLUS_3                1                 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
  10Q GAIN MUTATED        3      0      0      2      0
  10Q GAIN WILD-TYPE     39     27     25     28      3
D20V5, multiclass
        clus
vv       10Q GAIN MUTATED 10Q GAIN WILD-TYPE
  CLUS_1                3                 39
  CLUS_2                0                 27
  CLUS_3                0                 25
  CLUS_4                2                 28
  CLUS_5                0                  3
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  10Q GAIN MUTATED        1      0      0      1      2      1
  10Q GAIN WILD-TYPE     19     20     24     17     27     15
D20V6, multiclass
        clus
vv       10Q GAIN MUTATED 10Q GAIN WILD-TYPE
  CLUS_1                1                 19
  CLUS_2                0                 20
  CLUS_3                0                 24
  CLUS_4                1                 17
  CLUS_5                2                 27
  CLUS_6                1                 15
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  10Q GAIN MUTATED        1      0      1      1      3
  10Q GAIN WILD-TYPE     28     14     32     27     57
D20V7, multiclass
        clus
vv       10Q GAIN MUTATED 10Q GAIN WILD-TYPE
  CLUS_1                1                 28
  CLUS_2                0                 14
  CLUS_3                1                 32
  CLUS_4                1                 27
  CLUS_5                3                 57
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  10Q GAIN MUTATED        1      1      1      0      3      0      0
  10Q GAIN WILD-TYPE     26     35     11     19     29     18     20
D20V8, multiclass
        clus
vv       10Q GAIN MUTATED 10Q GAIN WILD-TYPE
  CLUS_1                1                 26
  CLUS_2                1                 35
  CLUS_3                1                 11
  CLUS_4                0                 19
  CLUS_5                3                 29
  CLUS_6                0                 18
  CLUS_7                0                 20
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  10Q GAIN MUTATED        0      2      0      0      4
  10Q GAIN WILD-TYPE     18     40     17      8     52
D20V9, multiclass
        clus
vv       10Q GAIN MUTATED 10Q GAIN WILD-TYPE
  CLUS_1                0                 18
  CLUS_2                2                 40
  CLUS_3                0                 17
  CLUS_4                0                  8
  CLUS_5                4                 52
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  10Q GAIN MUTATED        1      2      3
  10Q GAIN WILD-TYPE     21     61     53
D20V10, multiclass
        clus
vv       10Q GAIN MUTATED 10Q GAIN WILD-TYPE
  CLUS_1                1                 21
  CLUS_2                2                 61
  CLUS_3                3                 53
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  10Q GAIN MUTATED        0      0      1      0
  10Q GAIN WILD-TYPE      9     14     13     13
D20V11, multiclass
[1] "Remove cluster labels:" "10Q GAIN MUTATED"      
clus
  10Q GAIN MUTATED 10Q GAIN WILD-TYPE 
                 1                 49 
        TCGA-AF-2687         TCGA-AF-3911         TCGA-AF-4110 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-AF-6655         TCGA-AF-6672         TCGA-AG-3725 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-AG-3731         TCGA-AG-3732         TCGA-AG-4021 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-AG-4022         TCGA-AH-6544         TCGA-AH-6547 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-AH-6643         TCGA-CI-6619         TCGA-CI-6620 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-CI-6621         TCGA-CI-6624         TCGA-CL-5918 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-DC-4749         TCGA-DC-5337         TCGA-DC-5869 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-DC-6156         TCGA-DC-6157         TCGA-DC-6158 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-DC-6681         TCGA-DC-6682         TCGA-DC-6683 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-DY-A1DC         TCGA-DY-A1DD         TCGA-DY-A1DE 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-DY-A1DG         TCGA-DY-A1H8         TCGA-EI-6506 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-EI-6507         TCGA-EI-6509         TCGA-EI-6511 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-EI-6513         TCGA-EI-6514         TCGA-F5-6464 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-F5-6465         TCGA-F5-6571         TCGA-F5-6702 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-F5-6810         TCGA-F5-6811         TCGA-F5-6812 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-G5-6233         TCGA-G5-6235         TCGA-G5-6572 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-G5-6641 
"10Q GAIN WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  10Q GAIN MUTATED        0      0      1      0      0
  10Q GAIN WILD-TYPE      9     13     17      5      5
D20V12, multiclass
[1] "Remove cluster labels:" "10Q GAIN MUTATED"      
clus
  10Q GAIN MUTATED 10Q GAIN WILD-TYPE 
                 1                 49 
        TCGA-AF-2687         TCGA-AF-3911         TCGA-AF-4110 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-AF-6655         TCGA-AF-6672         TCGA-AG-3725 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-AG-3731         TCGA-AG-3732         TCGA-AG-4021 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-AG-4022         TCGA-AH-6544         TCGA-AH-6547 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-AH-6643         TCGA-CI-6619         TCGA-CI-6620 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-CI-6621         TCGA-CI-6624         TCGA-CL-5918 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-DC-4749         TCGA-DC-5337         TCGA-DC-5869 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-DC-6156         TCGA-DC-6157         TCGA-DC-6158 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-DC-6681         TCGA-DC-6682         TCGA-DC-6683 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-DY-A1DC         TCGA-DY-A1DD         TCGA-DY-A1DE 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-DY-A1DG         TCGA-DY-A1H8         TCGA-EI-6506 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-EI-6507         TCGA-EI-6509         TCGA-EI-6511 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-EI-6513         TCGA-EI-6514         TCGA-F5-6464 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-F5-6465         TCGA-F5-6571         TCGA-F5-6702 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-F5-6810         TCGA-F5-6811         TCGA-F5-6812 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-G5-6233         TCGA-G5-6235         TCGA-G5-6572 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-G5-6641 
"10Q GAIN WILD-TYPE" 

Clustering(21) Variable = 11P GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  11P GAIN MUTATED        1      4      5
  11P GAIN WILD-TYPE     24     18     17
D21V1, multiclass
        clus
vv       11P GAIN MUTATED 11P GAIN WILD-TYPE
  CLUS_1                1                 24
  CLUS_2                4                 18
  CLUS_3                5                 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 CLUS_8
  11P GAIN MUTATED        0      3      1      2      1      0      3      0
  11P GAIN WILD-TYPE      6     10     12      7      7      9      5      3
D21V2, multiclass
        clus
vv       11P GAIN MUTATED 11P GAIN WILD-TYPE
  CLUS_1                0                  6
  CLUS_2                3                 10
  CLUS_3                1                 12
  CLUS_4                2                  7
  CLUS_5                1                  7
  CLUS_6                0                  9
  CLUS_7                3                  5
  CLUS_8                0                  3
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  11P GAIN MUTATED        8      6     13      5
  11P GAIN WILD-TYPE     58     26     18     31
D21V3, multiclass
        clus
vv       11P GAIN MUTATED 11P GAIN WILD-TYPE
  CLUS_1                8                 58
  CLUS_2                6                 26
  CLUS_3               13                 18
  CLUS_4                5                 31
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  11P GAIN MUTATED        9      7      6
  11P GAIN WILD-TYPE     19     32     23
D21V4, multiclass
        clus
vv       11P GAIN MUTATED 11P GAIN WILD-TYPE
  CLUS_1                9                 19
  CLUS_2                7                 32
  CLUS_3                6                 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 CLUS_4 CLUS_5
  11P GAIN MUTATED        9      5      5      6      0
  11P GAIN WILD-TYPE     33     22     20     24      3
D21V5, multiclass
        clus
vv       11P GAIN MUTATED 11P GAIN WILD-TYPE
  CLUS_1                9                 33
  CLUS_2                5                 22
  CLUS_3                5                 20
  CLUS_4                6                 24
  CLUS_5                0                  3
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  11P GAIN MUTATED        4      4      6      3      4      4
  11P GAIN WILD-TYPE     16     16     18     15     25     12
D21V6, multiclass
        clus
vv       11P GAIN MUTATED 11P GAIN WILD-TYPE
  CLUS_1                4                 16
  CLUS_2                4                 16
  CLUS_3                6                 18
  CLUS_4                3                 15
  CLUS_5                4                 25
  CLUS_6                4                 12
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  11P GAIN MUTATED        7      1      5     10      9
  11P GAIN WILD-TYPE     22     13     28     18     51
D21V7, multiclass
        clus
vv       11P GAIN MUTATED 11P GAIN WILD-TYPE
  CLUS_1                7                 22
  CLUS_2                1                 13
  CLUS_3                5                 28
  CLUS_4               10                 18
  CLUS_5                9                 51
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  11P GAIN MUTATED        8      5      2      7      7      2      1
  11P GAIN WILD-TYPE     19     31     10     12     25     16     19
D21V8, multiclass
        clus
vv       11P GAIN MUTATED 11P GAIN WILD-TYPE
  CLUS_1                8                 19
  CLUS_2                5                 31
  CLUS_3                2                 10
  CLUS_4                7                 12
  CLUS_5                7                 25
  CLUS_6                2                 16
  CLUS_7                1                 19
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  11P GAIN MUTATED        3     12      3      4      5
  11P GAIN WILD-TYPE     15     30     14      4     51
D21V9, multiclass
        clus
vv       11P GAIN MUTATED 11P GAIN WILD-TYPE
  CLUS_1                3                 15
  CLUS_2               12                 30
  CLUS_3                3                 14
  CLUS_4                4                  4
  CLUS_5                5                 51
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  11P GAIN MUTATED        4     16      7
  11P GAIN WILD-TYPE     18     47     49
D21V10, multiclass
        clus
vv       11P GAIN MUTATED 11P GAIN WILD-TYPE
  CLUS_1                4                 18
  CLUS_2               16                 47
  CLUS_3                7                 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 CLUS_4
  11P GAIN MUTATED        3      2      4      2
  11P GAIN WILD-TYPE      6     12     10     11
D21V11, multiclass
        clus
vv       11P GAIN MUTATED 11P GAIN WILD-TYPE
  CLUS_1                3                  6
  CLUS_2                2                 12
  CLUS_3                4                 10
  CLUS_4                2                 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
  11P GAIN MUTATED        2      1      5      2      1
  11P GAIN WILD-TYPE      7     12     13      3      4
D21V12, multiclass
        clus
vv       11P GAIN MUTATED 11P GAIN WILD-TYPE
  CLUS_1                2                  7
  CLUS_2                1                 12
  CLUS_3                5                 13
  CLUS_4                2                  3
  CLUS_5                1                  4
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(22) Variable = 11Q GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  11Q GAIN MUTATED        1      4      4
  11Q GAIN WILD-TYPE     24     18     18
D22V1, multiclass
        clus
vv       11Q GAIN MUTATED 11Q GAIN WILD-TYPE
  CLUS_1                1                 24
  CLUS_2                4                 18
  CLUS_3                4                 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 CLUS_8
  11Q GAIN MUTATED        0      2      1      2      1      0      3      0
  11Q GAIN WILD-TYPE      6     11     12      7      7      9      5      3
D22V2, multiclass
        clus
vv       11Q GAIN MUTATED 11Q GAIN WILD-TYPE
  CLUS_1                0                  6
  CLUS_2                2                 11
  CLUS_3                1                 12
  CLUS_4                2                  7
  CLUS_5                1                  7
  CLUS_6                0                  9
  CLUS_7                3                  5
  CLUS_8                0                  3
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  11Q GAIN MUTATED        7      5     12      2
  11Q GAIN WILD-TYPE     59     27     19     34
D22V3, multiclass
        clus
vv       11Q GAIN MUTATED 11Q GAIN WILD-TYPE
  CLUS_1                7                 59
  CLUS_2                5                 27
  CLUS_3               12                 19
  CLUS_4                2                 34
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  11Q GAIN MUTATED       10      4      3
  11Q GAIN WILD-TYPE     18     35     26
D22V4, multiclass
        clus
vv       11Q GAIN MUTATED 11Q GAIN WILD-TYPE
  CLUS_1               10                 18
  CLUS_2                4                 35
  CLUS_3                3                 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
  11Q GAIN MUTATED        6      5      4      4      0
  11Q GAIN WILD-TYPE     36     22     21     26      3
D22V5, multiclass
        clus
vv       11Q GAIN MUTATED 11Q GAIN WILD-TYPE
  CLUS_1                6                 36
  CLUS_2                5                 22
  CLUS_3                4                 21
  CLUS_4                4                 26
  CLUS_5                0                  3
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  11Q GAIN MUTATED        3      2      7      1      2      4
  11Q GAIN WILD-TYPE     17     18     17     17     27     12
D22V6, multiclass
        clus
vv       11Q GAIN MUTATED 11Q GAIN WILD-TYPE
  CLUS_1                3                 17
  CLUS_2                2                 18
  CLUS_3                7                 17
  CLUS_4                1                 17
  CLUS_5                2                 27
  CLUS_6                4                 12
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  11Q GAIN MUTATED        7      1      0      9      9
  11Q GAIN WILD-TYPE     22     13     33     19     51
D22V7, multiclass
        clus
vv       11Q GAIN MUTATED 11Q GAIN WILD-TYPE
  CLUS_1                7                 22
  CLUS_2                1                 13
  CLUS_3                0                 33
  CLUS_4                9                 19
  CLUS_5                9                 51
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  11Q GAIN MUTATED        9      1      0      7      7      1      1
  11Q GAIN WILD-TYPE     18     35     12     12     25     17     19
D22V8, multiclass
        clus
vv       11Q GAIN MUTATED 11Q GAIN WILD-TYPE
  CLUS_1                9                 18
  CLUS_2                1                 35
  CLUS_3                0                 12
  CLUS_4                7                 12
  CLUS_5                7                 25
  CLUS_6                1                 17
  CLUS_7                1                 19
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  11Q GAIN MUTATED        4      6      3      4      4
  11Q GAIN WILD-TYPE     14     36     14      4     52
D22V9, multiclass
        clus
vv       11Q GAIN MUTATED 11Q GAIN WILD-TYPE
  CLUS_1                4                 14
  CLUS_2                6                 36
  CLUS_3                3                 14
  CLUS_4                4                  4
  CLUS_5                4                 52
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  11Q GAIN MUTATED        4     11      6
  11Q GAIN WILD-TYPE     18     52     50
D22V10, multiclass
        clus
vv       11Q GAIN MUTATED 11Q GAIN WILD-TYPE
  CLUS_1                4                 18
  CLUS_2               11                 52
  CLUS_3                6                 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 CLUS_4
  11Q GAIN MUTATED        4      3      1      1
  11Q GAIN WILD-TYPE      5     11     13     12
D22V11, multiclass
        clus
vv       11Q GAIN MUTATED 11Q GAIN WILD-TYPE
  CLUS_1                4                  5
  CLUS_2                3                 11
  CLUS_3                1                 13
  CLUS_4                1                 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
  11Q GAIN MUTATED        2      2      1      2      2
  11Q GAIN WILD-TYPE      7     11     17      3      3
D22V12, multiclass
        clus
vv       11Q GAIN MUTATED 11Q GAIN WILD-TYPE
  CLUS_1                2                  7
  CLUS_2                2                 11
  CLUS_3                1                 17
  CLUS_4                2                  3
  CLUS_5                2                  3
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(23) Variable = 12P GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  12P GAIN MUTATED        5      7      5
  12P GAIN WILD-TYPE     20     15     17
D23V1, multiclass
        clus
vv       12P GAIN MUTATED 12P GAIN WILD-TYPE
  CLUS_1                5                 20
  CLUS_2                7                 15
  CLUS_3                5                 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 CLUS_8
  12P GAIN MUTATED        2      6      2      2      1      1      3      0
  12P GAIN WILD-TYPE      4      7     11      7      7      8      5      3
D23V2, multiclass
        clus
vv       12P GAIN MUTATED 12P GAIN WILD-TYPE
  CLUS_1                2                  4
  CLUS_2                6                  7
  CLUS_3                2                 11
  CLUS_4                2                  7
  CLUS_5                1                  7
  CLUS_6                1                  8
  CLUS_7                3                  5
  CLUS_8                0                  3
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  12P GAIN MUTATED       12      8      3     10
  12P GAIN WILD-TYPE     54     24     28     26
D23V3, multiclass
        clus
vv       12P GAIN MUTATED 12P GAIN WILD-TYPE
  CLUS_1               12                 54
  CLUS_2                8                 24
  CLUS_3                3                 28
  CLUS_4               10                 26
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  12P GAIN MUTATED        4      5      6
  12P GAIN WILD-TYPE     24     34     23
D23V4, multiclass
        clus
vv       12P GAIN MUTATED 12P GAIN WILD-TYPE
  CLUS_1                4                 24
  CLUS_2                5                 34
  CLUS_3                6                 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 CLUS_4 CLUS_5
  12P GAIN MUTATED       10      3      9      4      0
  12P GAIN WILD-TYPE     32     24     16     26      3
D23V5, multiclass
        clus
vv       12P GAIN MUTATED 12P GAIN WILD-TYPE
  CLUS_1               10                 32
  CLUS_2                3                 24
  CLUS_3                9                 16
  CLUS_4                4                 26
  CLUS_5                0                  3
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  12P GAIN MUTATED        6      3      4      3      8      2
  12P GAIN WILD-TYPE     14     17     20     15     21     14
D23V6, multiclass
        clus
vv       12P GAIN MUTATED 12P GAIN WILD-TYPE
  CLUS_1                6                 14
  CLUS_2                3                 17
  CLUS_3                4                 20
  CLUS_4                3                 15
  CLUS_5                8                 21
  CLUS_6                2                 14
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  12P GAIN MUTATED        3      0     10      6     14
  12P GAIN WILD-TYPE     26     14     23     22     46
D23V7, multiclass
        clus
vv       12P GAIN MUTATED 12P GAIN WILD-TYPE
  CLUS_1                3                 26
  CLUS_2                0                 14
  CLUS_3               10                 23
  CLUS_4                6                 22
  CLUS_5               14                 46
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  12P GAIN MUTATED        5      4      3      3      9      7      2
  12P GAIN WILD-TYPE     22     32      9     16     23     11     18
D23V8, multiclass
        clus
vv       12P GAIN MUTATED 12P GAIN WILD-TYPE
  CLUS_1                5                 22
  CLUS_2                4                 32
  CLUS_3                3                  9
  CLUS_4                3                 16
  CLUS_5                9                 23
  CLUS_6                7                 11
  CLUS_7                2                 18
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  12P GAIN MUTATED        2      8      2      3     15
  12P GAIN WILD-TYPE     16     34     15      5     41
D23V9, multiclass
        clus
vv       12P GAIN MUTATED 12P GAIN WILD-TYPE
  CLUS_1                2                 16
  CLUS_2                8                 34
  CLUS_3                2                 15
  CLUS_4                3                  5
  CLUS_5               15                 41
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  12P GAIN MUTATED        3     13     14
  12P GAIN WILD-TYPE     19     50     42
D23V10, multiclass
        clus
vv       12P GAIN MUTATED 12P GAIN WILD-TYPE
  CLUS_1                3                 19
  CLUS_2               13                 50
  CLUS_3               14                 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 CLUS_4
  12P GAIN MUTATED        0      1      4      2
  12P GAIN WILD-TYPE      9     13     10     11
D23V11, multiclass
        clus
vv       12P GAIN MUTATED 12P GAIN WILD-TYPE
  CLUS_1                0                  9
  CLUS_2                1                 13
  CLUS_3                4                 10
  CLUS_4                2                 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
  12P GAIN MUTATED        1      2      4      0      0
  12P GAIN WILD-TYPE      8     11     14      5      5
D23V12, multiclass
        clus
vv       12P GAIN MUTATED 12P GAIN WILD-TYPE
  CLUS_1                1                  8
  CLUS_2                2                 11
  CLUS_3                4                 14
  CLUS_4                0                  5
  CLUS_5                0                  5
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(24) Variable = 12Q GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  12Q GAIN MUTATED        3      4      4
  12Q GAIN WILD-TYPE     22     18     18
D24V1, multiclass
        clus
vv       12Q GAIN MUTATED 12Q GAIN WILD-TYPE
  CLUS_1                3                 22
  CLUS_2                4                 18
  CLUS_3                4                 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 CLUS_8
  12Q GAIN MUTATED        1      3      1      2      1      0      3      0
  12Q GAIN WILD-TYPE      5     10     12      7      7      9      5      3
D24V2, multiclass
        clus
vv       12Q GAIN MUTATED 12Q GAIN WILD-TYPE
  CLUS_1                1                  5
  CLUS_2                3                 10
  CLUS_3                1                 12
  CLUS_4                2                  7
  CLUS_5                1                  7
  CLUS_6                0                  9
  CLUS_7                3                  5
  CLUS_8                0                  3
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  12Q GAIN MUTATED        9      6      3      6
  12Q GAIN WILD-TYPE     57     26     28     30
D24V3, multiclass
        clus
vv       12Q GAIN MUTATED 12Q GAIN WILD-TYPE
  CLUS_1                9                 57
  CLUS_2                6                 26
  CLUS_3                3                 28
  CLUS_4                6                 30
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  12Q GAIN MUTATED        3      3      6
  12Q GAIN WILD-TYPE     25     36     23
D24V4, multiclass
        clus
vv       12Q GAIN MUTATED 12Q GAIN WILD-TYPE
  CLUS_1                3                 25
  CLUS_2                3                 36
  CLUS_3                6                 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 CLUS_4 CLUS_5
  12Q GAIN MUTATED        9      2      7      4      0
  12Q GAIN WILD-TYPE     33     25     18     26      3
D24V5, multiclass
        clus
vv       12Q GAIN MUTATED 12Q GAIN WILD-TYPE
  CLUS_1                9                 33
  CLUS_2                2                 25
  CLUS_3                7                 18
  CLUS_4                4                 26
  CLUS_5                0                  3
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  12Q GAIN MUTATED        5      2      3      2      8      2
  12Q GAIN WILD-TYPE     15     18     21     16     21     14
D24V6, multiclass
        clus
vv       12Q GAIN MUTATED 12Q GAIN WILD-TYPE
  CLUS_1                5                 15
  CLUS_2                2                 18
  CLUS_3                3                 21
  CLUS_4                2                 16
  CLUS_5                8                 21
  CLUS_6                2                 14
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  12Q GAIN MUTATED        1      0      9      5      9
  12Q GAIN WILD-TYPE     28     14     24     23     51
D24V7, multiclass
        clus
vv       12Q GAIN MUTATED 12Q GAIN WILD-TYPE
  CLUS_1                1                 28
  CLUS_2                0                 14
  CLUS_3                9                 24
  CLUS_4                5                 23
  CLUS_5                9                 51
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  12Q GAIN MUTATED        5      4      1      2      6      5      1
  12Q GAIN WILD-TYPE     22     32     11     17     26     13     19
D24V8, multiclass
        clus
vv       12Q GAIN MUTATED 12Q GAIN WILD-TYPE
  CLUS_1                5                 22
  CLUS_2                4                 32
  CLUS_3                1                 11
  CLUS_4                2                 17
  CLUS_5                6                 26
  CLUS_6                5                 13
  CLUS_7                1                 19
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  12Q GAIN MUTATED        0      7      2      2     11
  12Q GAIN WILD-TYPE     18     35     15      6     45
D24V9, multiclass
        clus
vv       12Q GAIN MUTATED 12Q GAIN WILD-TYPE
  CLUS_1                0                 18
  CLUS_2                7                 35
  CLUS_3                2                 15
  CLUS_4                2                  6
  CLUS_5               11                 45
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  12Q GAIN MUTATED        2     10     10
  12Q GAIN WILD-TYPE     20     53     46
D24V10, multiclass
        clus
vv       12Q GAIN MUTATED 12Q GAIN WILD-TYPE
  CLUS_1                2                 20
  CLUS_2               10                 53
  CLUS_3               10                 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 CLUS_4
  12Q GAIN MUTATED        0      0      4      1
  12Q GAIN WILD-TYPE      9     14     10     12
D24V11, multiclass
        clus
vv       12Q GAIN MUTATED 12Q GAIN WILD-TYPE
  CLUS_1                0                  9
  CLUS_2                0                 14
  CLUS_3                4                 10
  CLUS_4                1                 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
  12Q GAIN MUTATED        1      1      3      0      0
  12Q GAIN WILD-TYPE      8     12     15      5      5
D24V12, multiclass
        clus
vv       12Q GAIN MUTATED 12Q GAIN WILD-TYPE
  CLUS_1                1                  8
  CLUS_2                1                 12
  CLUS_3                3                 15
  CLUS_4                0                  5
  CLUS_5                0                  5
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(25) Variable = 13Q GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  13Q GAIN MUTATED       16     11     16
  13Q GAIN WILD-TYPE      9     11      6
D25V1, multiclass
        clus
vv       13Q GAIN MUTATED 13Q GAIN WILD-TYPE
  CLUS_1               16                  9
  CLUS_2               11                 11
  CLUS_3               16                  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 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  13Q GAIN MUTATED        3      6      8      7      5      4      7      3
  13Q GAIN WILD-TYPE      3      7      5      2      3      5      1      0
D25V2, multiclass
        clus
vv       13Q GAIN MUTATED 13Q GAIN WILD-TYPE
  CLUS_1                3                  3
  CLUS_2                6                  7
  CLUS_3                8                  5
  CLUS_4                7                  2
  CLUS_5                5                  3
  CLUS_6                4                  5
  CLUS_7                7                  1
  CLUS_8                3                  0
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  13Q GAIN MUTATED       32     30     26     25
  13Q GAIN WILD-TYPE     34      2      5     11
D25V3, multiclass
        clus
vv       13Q GAIN MUTATED 13Q GAIN WILD-TYPE
  CLUS_1               32                 34
  CLUS_2               30                  2
  CLUS_3               26                  5
  CLUS_4               25                 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
  13Q GAIN MUTATED       24     30     17
  13Q GAIN WILD-TYPE      4      9     12
D25V4, multiclass
        clus
vv       13Q GAIN MUTATED 13Q GAIN WILD-TYPE
  CLUS_1               24                  4
  CLUS_2               30                  9
  CLUS_3               17                 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
  13Q GAIN MUTATED       29     19     15     21      1
  13Q GAIN WILD-TYPE     13      8     10      9      2
D25V5, multiclass
        clus
vv       13Q GAIN MUTATED 13Q GAIN WILD-TYPE
  CLUS_1               29                 13
  CLUS_2               19                  8
  CLUS_3               15                 10
  CLUS_4               21                  9
  CLUS_5                1                  2
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  13Q GAIN MUTATED       13     14     15     13     15     15
  13Q GAIN WILD-TYPE      7      6      9      5     14      1
D25V6, multiclass
        clus
vv       13Q GAIN MUTATED 13Q GAIN WILD-TYPE
  CLUS_1               13                  7
  CLUS_2               14                  6
  CLUS_3               15                  9
  CLUS_4               13                  5
  CLUS_5               15                 14
  CLUS_6               15                  1
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  13Q GAIN MUTATED       19     11     16     27     39
  13Q GAIN WILD-TYPE     10      3     17      1     21
D25V7, multiclass
        clus
vv       13Q GAIN MUTATED 13Q GAIN WILD-TYPE
  CLUS_1               19                 10
  CLUS_2               11                  3
  CLUS_3               16                 17
  CLUS_4               27                  1
  CLUS_5               39                 21
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  13Q GAIN MUTATED       21     25      7     17     25      4     13
  13Q GAIN WILD-TYPE      6     11      5      2      7     14      7
D25V8, multiclass
        clus
vv       13Q GAIN MUTATED 13Q GAIN WILD-TYPE
  CLUS_1               21                  6
  CLUS_2               25                 11
  CLUS_3                7                  5
  CLUS_4               17                  2
  CLUS_5               25                  7
  CLUS_6                4                 14
  CLUS_7               13                  7
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  13Q GAIN MUTATED       15     37      9      6     32
  13Q GAIN WILD-TYPE      3      5      8      2     24
D25V9, multiclass
        clus
vv       13Q GAIN MUTATED 13Q GAIN WILD-TYPE
  CLUS_1               15                  3
  CLUS_2               37                  5
  CLUS_3                9                  8
  CLUS_4                6                  2
  CLUS_5               32                 24
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  13Q GAIN MUTATED       17     49     33
  13Q GAIN WILD-TYPE      5     14     23
D25V10, multiclass
        clus
vv       13Q GAIN MUTATED 13Q GAIN WILD-TYPE
  CLUS_1               17                  5
  CLUS_2               49                 14
  CLUS_3               33                 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 CLUS_4
  13Q GAIN MUTATED        6     12     12     11
  13Q GAIN WILD-TYPE      3      2      2      2
D25V11, multiclass
        clus
vv       13Q GAIN MUTATED 13Q GAIN WILD-TYPE
  CLUS_1                6                  3
  CLUS_2               12                  2
  CLUS_3               12                  2
  CLUS_4               11                  2
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  13Q GAIN MUTATED        6     10     16      5      4
  13Q GAIN WILD-TYPE      3      3      2      0      1
D25V12, multiclass
        clus
vv       13Q GAIN MUTATED 13Q GAIN WILD-TYPE
  CLUS_1                6                  3
  CLUS_2               10                  3
  CLUS_3               16                  2
  CLUS_4                5                  0
  CLUS_5                4                  1
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(26) Variable = 14Q GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  14Q GAIN MUTATED        1      1      2
  14Q GAIN WILD-TYPE     24     21     20
D26V1, multiclass
        clus
vv       14Q GAIN MUTATED 14Q GAIN WILD-TYPE
  CLUS_1                1                 24
  CLUS_2                1                 21
  CLUS_3                2                 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 CLUS_8
  14Q GAIN MUTATED        0      1      2      1      0      0      0      0
  14Q GAIN WILD-TYPE      6     12     11      8      8      9      8      3
D26V2, multiclass
        clus
vv       14Q GAIN MUTATED 14Q GAIN WILD-TYPE
  CLUS_1                0                  6
  CLUS_2                1                 12
  CLUS_3                2                 11
  CLUS_4                1                  8
  CLUS_5                0                  8
  CLUS_6                0                  9
  CLUS_7                0                  8
  CLUS_8                0                  3
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  14Q GAIN MUTATED        2      4      0      2
  14Q GAIN WILD-TYPE     64     28     31     34
D26V3, multiclass
        clus
vv       14Q GAIN MUTATED 14Q GAIN WILD-TYPE
  CLUS_1                2                 64
  CLUS_2                4                 28
  CLUS_3                0                 31
  CLUS_4                2                 34
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  14Q GAIN MUTATED        2      0      2
  14Q GAIN WILD-TYPE     26     39     27
D26V4, multiclass
        clus
vv       14Q GAIN MUTATED 14Q GAIN WILD-TYPE
  CLUS_1                2                 26
  CLUS_2                0                 39
  CLUS_3                2                 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
  14Q GAIN MUTATED        3      1      0      1      0
  14Q GAIN WILD-TYPE     39     26     25     29      3
D26V5, multiclass
        clus
vv       14Q GAIN MUTATED 14Q GAIN WILD-TYPE
  CLUS_1                3                 39
  CLUS_2                1                 26
  CLUS_3                0                 25
  CLUS_4                1                 29
  CLUS_5                0                  3
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  14Q GAIN MUTATED        0      1      1      0      2      1
  14Q GAIN WILD-TYPE     20     19     23     18     27     15
D26V6, multiclass
        clus
vv       14Q GAIN MUTATED 14Q GAIN WILD-TYPE
  CLUS_1                0                 20
  CLUS_2                1                 19
  CLUS_3                1                 23
  CLUS_4                0                 18
  CLUS_5                2                 27
  CLUS_6                1                 15
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  14Q GAIN MUTATED        1      1      1      0      5
  14Q GAIN WILD-TYPE     28     13     32     28     55
D26V7, multiclass
        clus
vv       14Q GAIN MUTATED 14Q GAIN WILD-TYPE
  CLUS_1                1                 28
  CLUS_2                1                 13
  CLUS_3                1                 32
  CLUS_4                0                 28
  CLUS_5                5                 55
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  14Q GAIN MUTATED        1      2      0      0      3      1      1
  14Q GAIN WILD-TYPE     26     34     12     19     29     17     19
D26V8, multiclass
        clus
vv       14Q GAIN MUTATED 14Q GAIN WILD-TYPE
  CLUS_1                1                 26
  CLUS_2                2                 34
  CLUS_3                0                 12
  CLUS_4                0                 19
  CLUS_5                3                 29
  CLUS_6                1                 17
  CLUS_7                1                 19
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  14Q GAIN MUTATED        0      2      0      2      2
  14Q GAIN WILD-TYPE     18     40     17      6     54
D26V9, multiclass
        clus
vv       14Q GAIN MUTATED 14Q GAIN WILD-TYPE
  CLUS_1                0                 18
  CLUS_2                2                 40
  CLUS_3                0                 17
  CLUS_4                2                  6
  CLUS_5                2                 54
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  14Q GAIN MUTATED        1      2      3
  14Q GAIN WILD-TYPE     21     61     53
D26V10, multiclass
        clus
vv       14Q GAIN MUTATED 14Q GAIN WILD-TYPE
  CLUS_1                1                 21
  CLUS_2                2                 61
  CLUS_3                3                 53
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  14Q GAIN MUTATED        0      0      0      0
  14Q GAIN WILD-TYPE      9     14     14     13
D26V11, multiclass
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  14Q GAIN MUTATED        0      0      0      0      0
  14Q GAIN WILD-TYPE      9     13     18      5      5
D26V12, multiclass

Clustering(27) Variable = 15Q GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  15Q GAIN MUTATED        0      0      0
  15Q GAIN WILD-TYPE     25     22     22
D27V1, multiclass
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  15Q GAIN MUTATED        0      0      0      0      0      0      0      0
  15Q GAIN WILD-TYPE      6     13     13      9      8      9      8      3
D27V2, multiclass
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  15Q GAIN MUTATED        3      0      0      0
  15Q GAIN WILD-TYPE     63     32     31     36
D27V3, multiclass
        clus
vv       15Q GAIN MUTATED 15Q GAIN WILD-TYPE
  CLUS_1                3                 63
  CLUS_2                0                 32
  CLUS_3                0                 31
  CLUS_4                0                 36
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        0      1      2
  15Q GAIN WILD-TYPE     28     38     27
D27V4, multiclass
        clus
vv       15Q GAIN MUTATED 15Q GAIN WILD-TYPE
  CLUS_1                0                 28
  CLUS_2                1                 38
  CLUS_3                2                 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
  15Q GAIN MUTATED        0      1      0      1      0
  15Q GAIN WILD-TYPE     42     26     25     29      3
D27V5, multiclass
[1] "Remove cluster labels:" "15Q GAIN MUTATED"      
clus
  15Q GAIN MUTATED 15Q GAIN WILD-TYPE 
                 2                125 
        TCGA-AF-2689         TCGA-AF-2690         TCGA-AF-3400 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AF-3913         TCGA-AF-5654         TCGA-AF-6136 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AF-6655         TCGA-AF-6672         TCGA-AF-A56N 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AG-3574         TCGA-AG-3578         TCGA-AG-3580 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AG-3581         TCGA-AG-3582         TCGA-AG-3583 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AG-3584         TCGA-AG-3586         TCGA-AG-3587 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AG-3591         TCGA-AG-3593         TCGA-AG-3594 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AG-3598         TCGA-AG-3599         TCGA-AG-3600 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AG-3601         TCGA-AG-3602         TCGA-AG-3605 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AG-3609         TCGA-AG-3612         TCGA-AG-3725 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AG-3727         TCGA-AG-3731         TCGA-AG-3742 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AG-3878         TCGA-AG-3881         TCGA-AG-3882 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AG-3885         TCGA-AG-3893         TCGA-AG-3896 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AG-3898         TCGA-AG-3901         TCGA-AG-3902 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AG-4001         TCGA-AG-4005         TCGA-AG-4007 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AG-4008         TCGA-AG-4015         TCGA-AG-4021 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AG-4022         TCGA-AG-A002         TCGA-AG-A008 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AG-A00C         TCGA-AG-A00H         TCGA-AG-A00Y 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AG-A011         TCGA-AG-A014         TCGA-AG-A015 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AG-A016         TCGA-AG-A01J         TCGA-AG-A01N 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AG-A01Y         TCGA-AG-A020         TCGA-AG-A023 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AG-A026         TCGA-AG-A02G         TCGA-AG-A02N 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AG-A02X         TCGA-AH-6544         TCGA-AH-6547 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AH-6643         TCGA-AH-6644         TCGA-AH-6897 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-BM-6198         TCGA-CI-6621         TCGA-CL-5918 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-DC-4745         TCGA-DC-4749         TCGA-DC-5337 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-DC-5869         TCGA-DC-6155         TCGA-DC-6156 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-DC-6157         TCGA-DC-6158         TCGA-DC-6160 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-DC-6681         TCGA-DC-6682         TCGA-DC-6683 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-DT-5265         TCGA-DY-A0XA         TCGA-DY-A1DC 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-DY-A1DD         TCGA-DY-A1DE         TCGA-DY-A1DF 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-DY-A1DG         TCGA-DY-A1H8         TCGA-EF-5830 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-EF-5831         TCGA-EI-6506         TCGA-EI-6507 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-EI-6508         TCGA-EI-6509         TCGA-EI-6510 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-EI-6511         TCGA-EI-6512         TCGA-EI-6513 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-EI-6514         TCGA-EI-6881         TCGA-EI-6882 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-EI-6884         TCGA-EI-6885         TCGA-EI-6917 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-F5-6465         TCGA-F5-6571         TCGA-F5-6702 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-F5-6810         TCGA-F5-6811         TCGA-F5-6812 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-F5-6813         TCGA-F5-6861         TCGA-F5-6863 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-F5-6864         TCGA-G5-6233         TCGA-G5-6235 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-G5-6572         TCGA-G5-6641 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  15Q GAIN MUTATED        0      1      0      0      1      0
  15Q GAIN WILD-TYPE     20     19     24     18     28     16
D27V6, multiclass
[1] "Remove cluster labels:" "15Q GAIN MUTATED"      
clus
  15Q GAIN MUTATED 15Q GAIN WILD-TYPE 
                 2                125 
        TCGA-AF-2689         TCGA-AF-2690         TCGA-AF-3400 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AF-3913         TCGA-AF-5654         TCGA-AF-6136 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AF-6655         TCGA-AF-6672         TCGA-AF-A56N 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AG-3574         TCGA-AG-3578         TCGA-AG-3580 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AG-3581         TCGA-AG-3582         TCGA-AG-3583 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AG-3584         TCGA-AG-3586         TCGA-AG-3587 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AG-3591         TCGA-AG-3593         TCGA-AG-3594 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AG-3598         TCGA-AG-3599         TCGA-AG-3600 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AG-3601         TCGA-AG-3602         TCGA-AG-3605 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AG-3609         TCGA-AG-3612         TCGA-AG-3725 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AG-3727         TCGA-AG-3731         TCGA-AG-3742 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AG-3878         TCGA-AG-3881         TCGA-AG-3882 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AG-3885         TCGA-AG-3893         TCGA-AG-3896 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AG-3898         TCGA-AG-3901         TCGA-AG-3902 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AG-4001         TCGA-AG-4005         TCGA-AG-4007 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AG-4008         TCGA-AG-4015         TCGA-AG-4021 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AG-4022         TCGA-AG-A002         TCGA-AG-A008 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AG-A00C         TCGA-AG-A00H         TCGA-AG-A00Y 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AG-A011         TCGA-AG-A014         TCGA-AG-A015 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AG-A016         TCGA-AG-A01J         TCGA-AG-A01N 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AG-A01Y         TCGA-AG-A020         TCGA-AG-A023 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AG-A026         TCGA-AG-A02G         TCGA-AG-A02N 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AG-A02X         TCGA-AH-6544         TCGA-AH-6547 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AH-6643         TCGA-AH-6644         TCGA-AH-6897 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-BM-6198         TCGA-CI-6621         TCGA-CL-5918 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-DC-4745         TCGA-DC-4749         TCGA-DC-5337 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-DC-5869         TCGA-DC-6155         TCGA-DC-6156 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-DC-6157         TCGA-DC-6158         TCGA-DC-6160 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-DC-6681         TCGA-DC-6682         TCGA-DC-6683 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-DT-5265         TCGA-DY-A0XA         TCGA-DY-A1DC 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-DY-A1DD         TCGA-DY-A1DE         TCGA-DY-A1DF 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-DY-A1DG         TCGA-DY-A1H8         TCGA-EF-5830 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-EF-5831         TCGA-EI-6506         TCGA-EI-6507 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-EI-6508         TCGA-EI-6509         TCGA-EI-6510 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-EI-6511         TCGA-EI-6512         TCGA-EI-6513 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-EI-6514         TCGA-EI-6881         TCGA-EI-6882 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-EI-6884         TCGA-EI-6885         TCGA-EI-6917 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-F5-6465         TCGA-F5-6571         TCGA-F5-6702 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-F5-6810         TCGA-F5-6811         TCGA-F5-6812 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-F5-6813         TCGA-F5-6861         TCGA-F5-6863 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-F5-6864         TCGA-G5-6233         TCGA-G5-6235 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-G5-6572         TCGA-G5-6641 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  15Q GAIN MUTATED        2      0      0      0      1
  15Q GAIN WILD-TYPE     27     14     33     28     59
D27V7, multiclass
        clus
vv       15Q GAIN MUTATED 15Q GAIN WILD-TYPE
  CLUS_1                2                 27
  CLUS_2                0                 14
  CLUS_3                0                 33
  CLUS_4                0                 28
  CLUS_5                1                 59
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  15Q GAIN MUTATED        0      1      1      0      1      0      0
  15Q GAIN WILD-TYPE     27     35     11     19     31     18     20
D27V8, multiclass
        clus
vv       15Q GAIN MUTATED 15Q GAIN WILD-TYPE
  CLUS_1                0                 27
  CLUS_2                1                 35
  CLUS_3                1                 11
  CLUS_4                0                 19
  CLUS_5                1                 31
  CLUS_6                0                 18
  CLUS_7                0                 20
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  15Q GAIN MUTATED        1      0      0      0      1
  15Q GAIN WILD-TYPE     17     42     17      8     55
D27V9, multiclass
[1] "Remove cluster labels:" "15Q GAIN MUTATED"      
clus
  15Q GAIN MUTATED 15Q GAIN WILD-TYPE 
                 2                139 
        TCGA-AF-2687         TCGA-AF-2689         TCGA-AF-2690 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AF-2691         TCGA-AF-2692         TCGA-AF-2693 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AF-3400         TCGA-AF-3911         TCGA-AF-3913 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AF-4110         TCGA-AF-5654         TCGA-AF-6136 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AF-6655         TCGA-AF-6672         TCGA-AG-3574 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AG-3575         TCGA-AG-3578         TCGA-AG-3580 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AG-3581         TCGA-AG-3582         TCGA-AG-3583 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AG-3584         TCGA-AG-3586         TCGA-AG-3587 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AG-3591         TCGA-AG-3592         TCGA-AG-3593 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AG-3594         TCGA-AG-3598         TCGA-AG-3599 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AG-3600         TCGA-AG-3601         TCGA-AG-3602 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AG-3605         TCGA-AG-3608         TCGA-AG-3609 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AG-3611         TCGA-AG-3612         TCGA-AG-3725 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AG-3726         TCGA-AG-3727         TCGA-AG-3728 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AG-3731         TCGA-AG-3732         TCGA-AG-3742 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AG-3878         TCGA-AG-3881         TCGA-AG-3882 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AG-3883         TCGA-AG-3885         TCGA-AG-3887 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AG-3890         TCGA-AG-3892         TCGA-AG-3893 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AG-3894         TCGA-AG-3896         TCGA-AG-3898 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AG-3901         TCGA-AG-3902         TCGA-AG-3909 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AG-3999         TCGA-AG-4001         TCGA-AG-4005 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AG-4007         TCGA-AG-4008         TCGA-AG-4015 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AG-4021         TCGA-AG-4022         TCGA-AG-A002 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AG-A008         TCGA-AG-A00C         TCGA-AG-A011 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AG-A015         TCGA-AG-A016         TCGA-AG-A01L 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AG-A01N         TCGA-AG-A01Y         TCGA-AG-A020 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AG-A025         TCGA-AG-A026         TCGA-AG-A02G 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AG-A02N         TCGA-AG-A02X         TCGA-AH-6544 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AH-6547         TCGA-AH-6643         TCGA-AH-6644 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-BM-6198         TCGA-CI-6619         TCGA-CI-6620 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-CI-6621         TCGA-CI-6622         TCGA-CI-6623 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-CI-6624         TCGA-CL-4957         TCGA-CL-5917 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-CL-5918         TCGA-DC-4745         TCGA-DC-4749 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-DC-5337         TCGA-DC-5869         TCGA-DC-6155 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-DC-6156         TCGA-DC-6157         TCGA-DC-6158 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-DC-6160         TCGA-DC-6681         TCGA-DC-6682 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-DC-6683         TCGA-DT-5265         TCGA-DY-A0XA 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-DY-A1DC         TCGA-DY-A1DD         TCGA-DY-A1DE 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-DY-A1DF         TCGA-DY-A1DG         TCGA-DY-A1H8 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-EF-5830         TCGA-EF-5831         TCGA-EI-6506 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-EI-6507         TCGA-EI-6508         TCGA-EI-6509 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-EI-6510         TCGA-EI-6511         TCGA-EI-6512 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-EI-6513         TCGA-EI-6514         TCGA-F5-6465 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-F5-6571         TCGA-F5-6702         TCGA-F5-6810 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-F5-6811         TCGA-F5-6812         TCGA-F5-6813 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-G5-6233         TCGA-G5-6235         TCGA-G5-6572 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-G5-6641 
"15Q GAIN WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  15Q GAIN MUTATED        0      1      1
  15Q GAIN WILD-TYPE     22     62     55
D27V10, multiclass
[1] "Remove cluster labels:" "15Q GAIN MUTATED"      
clus
  15Q GAIN MUTATED 15Q GAIN WILD-TYPE 
                 2                139 
        TCGA-AF-2687         TCGA-AF-2689         TCGA-AF-2690 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AF-2691         TCGA-AF-2692         TCGA-AF-2693 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AF-3400         TCGA-AF-3911         TCGA-AF-3913 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AF-4110         TCGA-AF-5654         TCGA-AF-6136 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AF-6655         TCGA-AF-6672         TCGA-AG-3574 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AG-3575         TCGA-AG-3578         TCGA-AG-3580 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AG-3581         TCGA-AG-3582         TCGA-AG-3583 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AG-3584         TCGA-AG-3586         TCGA-AG-3587 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AG-3591         TCGA-AG-3592         TCGA-AG-3593 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AG-3594         TCGA-AG-3598         TCGA-AG-3599 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AG-3600         TCGA-AG-3601         TCGA-AG-3602 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AG-3605         TCGA-AG-3608         TCGA-AG-3609 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AG-3611         TCGA-AG-3612         TCGA-AG-3725 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AG-3726         TCGA-AG-3727         TCGA-AG-3728 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AG-3731         TCGA-AG-3732         TCGA-AG-3742 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AG-3878         TCGA-AG-3881         TCGA-AG-3882 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AG-3883         TCGA-AG-3885         TCGA-AG-3887 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AG-3890         TCGA-AG-3892         TCGA-AG-3893 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AG-3894         TCGA-AG-3896         TCGA-AG-3898 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AG-3901         TCGA-AG-3902         TCGA-AG-3909 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AG-3999         TCGA-AG-4001         TCGA-AG-4005 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AG-4007         TCGA-AG-4008         TCGA-AG-4015 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AG-4021         TCGA-AG-4022         TCGA-AG-A002 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AG-A008         TCGA-AG-A00C         TCGA-AG-A011 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AG-A015         TCGA-AG-A016         TCGA-AG-A01L 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AG-A01N         TCGA-AG-A01Y         TCGA-AG-A020 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AG-A025         TCGA-AG-A026         TCGA-AG-A02G 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AG-A02N         TCGA-AG-A02X         TCGA-AH-6544 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AH-6547         TCGA-AH-6643         TCGA-AH-6644 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-BM-6198         TCGA-CI-6619         TCGA-CI-6620 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-CI-6621         TCGA-CI-6622         TCGA-CI-6623 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-CI-6624         TCGA-CL-4957         TCGA-CL-5917 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-CL-5918         TCGA-DC-4745         TCGA-DC-4749 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-DC-5337         TCGA-DC-5869         TCGA-DC-6155 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-DC-6156         TCGA-DC-6157         TCGA-DC-6158 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-DC-6160         TCGA-DC-6681         TCGA-DC-6682 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-DC-6683         TCGA-DT-5265         TCGA-DY-A0XA 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-DY-A1DC         TCGA-DY-A1DD         TCGA-DY-A1DE 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-DY-A1DF         TCGA-DY-A1DG         TCGA-DY-A1H8 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-EF-5830         TCGA-EF-5831         TCGA-EI-6506 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-EI-6507         TCGA-EI-6508         TCGA-EI-6509 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-EI-6510         TCGA-EI-6511         TCGA-EI-6512 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-EI-6513         TCGA-EI-6514         TCGA-F5-6465 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-F5-6571         TCGA-F5-6702         TCGA-F5-6810 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-F5-6811         TCGA-F5-6812         TCGA-F5-6813 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-G5-6233         TCGA-G5-6235         TCGA-G5-6572 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-G5-6641 
"15Q GAIN WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  15Q GAIN MUTATED        0      1      0      0
  15Q GAIN WILD-TYPE      9     13     14     13
D27V11, multiclass
[1] "Remove cluster labels:" "15Q GAIN MUTATED"      
clus
  15Q GAIN MUTATED 15Q GAIN WILD-TYPE 
                 1                 49 
        TCGA-AF-2687         TCGA-AF-3911         TCGA-AF-4110 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AF-6655         TCGA-AF-6672         TCGA-AG-3725 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AG-3731         TCGA-AG-3732         TCGA-AG-4021 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AG-4022         TCGA-AH-6544         TCGA-AH-6547 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AH-6643         TCGA-BM-6198         TCGA-CI-6619 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-CI-6620         TCGA-CI-6621         TCGA-CI-6624 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-CL-5918         TCGA-DC-4749         TCGA-DC-5337 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-DC-5869         TCGA-DC-6156         TCGA-DC-6157 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-DC-6158         TCGA-DC-6681         TCGA-DC-6682 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-DC-6683         TCGA-DY-A1DC         TCGA-DY-A1DD 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-DY-A1DE         TCGA-DY-A1DG         TCGA-DY-A1H8 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-EI-6506         TCGA-EI-6507         TCGA-EI-6509 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-EI-6511         TCGA-EI-6513         TCGA-EI-6514 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-F5-6465         TCGA-F5-6571         TCGA-F5-6702 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-F5-6810         TCGA-F5-6811         TCGA-F5-6812 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-G5-6233         TCGA-G5-6235         TCGA-G5-6572 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-G5-6641 
"15Q GAIN WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  15Q GAIN MUTATED        0      1      0      0      0
  15Q GAIN WILD-TYPE      9     12     18      5      5
D27V12, multiclass
[1] "Remove cluster labels:" "15Q GAIN MUTATED"      
clus
  15Q GAIN MUTATED 15Q GAIN WILD-TYPE 
                 1                 49 
        TCGA-AF-2687         TCGA-AF-3911         TCGA-AF-4110 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AF-6655         TCGA-AF-6672         TCGA-AG-3725 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AG-3731         TCGA-AG-3732         TCGA-AG-4021 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AG-4022         TCGA-AH-6544         TCGA-AH-6547 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AH-6643         TCGA-BM-6198         TCGA-CI-6619 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-CI-6620         TCGA-CI-6621         TCGA-CI-6624 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-CL-5918         TCGA-DC-4749         TCGA-DC-5337 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-DC-5869         TCGA-DC-6156         TCGA-DC-6157 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-DC-6158         TCGA-DC-6681         TCGA-DC-6682 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-DC-6683         TCGA-DY-A1DC         TCGA-DY-A1DD 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-DY-A1DE         TCGA-DY-A1DG         TCGA-DY-A1H8 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-EI-6506         TCGA-EI-6507         TCGA-EI-6509 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-EI-6511         TCGA-EI-6513         TCGA-EI-6514 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-F5-6465         TCGA-F5-6571         TCGA-F5-6702 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-F5-6810         TCGA-F5-6811         TCGA-F5-6812 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-G5-6233         TCGA-G5-6235         TCGA-G5-6572 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-G5-6641 
"15Q GAIN WILD-TYPE" 

Clustering(28) Variable = 16P GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  16P GAIN MUTATED        7      2      7
  16P GAIN WILD-TYPE     18     20     15
D28V1, multiclass
        clus
vv       16P GAIN MUTATED 16P GAIN WILD-TYPE
  CLUS_1                7                 18
  CLUS_2                2                 20
  CLUS_3                7                 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 CLUS_8
  16P GAIN MUTATED        2      2      4      2      3      1      2      0
  16P GAIN WILD-TYPE      4     11      9      7      5      8      6      3
D28V2, multiclass
        clus
vv       16P GAIN MUTATED 16P GAIN WILD-TYPE
  CLUS_1                2                  4
  CLUS_2                2                 11
  CLUS_3                4                  9
  CLUS_4                2                  7
  CLUS_5                3                  5
  CLUS_6                1                  8
  CLUS_7                2                  6
  CLUS_8                0                  3
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  16P GAIN MUTATED        7     14     11      9
  16P GAIN WILD-TYPE     59     18     20     27
D28V3, multiclass
        clus
vv       16P GAIN MUTATED 16P GAIN WILD-TYPE
  CLUS_1                7                 59
  CLUS_2               14                 18
  CLUS_3               11                 20
  CLUS_4                9                 27
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  16P GAIN MUTATED       10      7      8
  16P GAIN WILD-TYPE     18     32     21
D28V4, multiclass
        clus
vv       16P GAIN MUTATED 16P GAIN WILD-TYPE
  CLUS_1               10                 18
  CLUS_2                7                 32
  CLUS_3                8                 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
  16P GAIN MUTATED       10      7      5      5      0
  16P GAIN WILD-TYPE     32     20     20     25      3
D28V5, multiclass
        clus
vv       16P GAIN MUTATED 16P GAIN WILD-TYPE
  CLUS_1               10                 32
  CLUS_2                7                 20
  CLUS_3                5                 20
  CLUS_4                5                 25
  CLUS_5                0                  3
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  16P GAIN MUTATED        5      7      3      3      4      5
  16P GAIN WILD-TYPE     15     13     21     15     25     11
D28V6, multiclass
        clus
vv       16P GAIN MUTATED 16P GAIN WILD-TYPE
  CLUS_1                5                 15
  CLUS_2                7                 13
  CLUS_3                3                 21
  CLUS_4                3                 15
  CLUS_5                4                 25
  CLUS_6                5                 11
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  16P GAIN MUTATED        9      2      4     11     14
  16P GAIN WILD-TYPE     20     12     29     17     46
D28V7, multiclass
        clus
vv       16P GAIN MUTATED 16P GAIN WILD-TYPE
  CLUS_1                9                 20
  CLUS_2                2                 12
  CLUS_3                4                 29
  CLUS_4               11                 17
  CLUS_5               14                 46
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  16P GAIN MUTATED        7      6      5      7      8      2      5
  16P GAIN WILD-TYPE     20     30      7     12     24     16     15
D28V8, multiclass
        clus
vv       16P GAIN MUTATED 16P GAIN WILD-TYPE
  CLUS_1                7                 20
  CLUS_2                6                 30
  CLUS_3                5                  7
  CLUS_4                7                 12
  CLUS_5                8                 24
  CLUS_6                2                 16
  CLUS_7                5                 15
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  16P GAIN MUTATED        4     14      2      4     11
  16P GAIN WILD-TYPE     14     28     15      4     45
D28V9, multiclass
        clus
vv       16P GAIN MUTATED 16P GAIN WILD-TYPE
  CLUS_1                4                 14
  CLUS_2               14                 28
  CLUS_3                2                 15
  CLUS_4                4                  4
  CLUS_5               11                 45
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  16P GAIN MUTATED        5     18     12
  16P GAIN WILD-TYPE     17     45     44
D28V10, multiclass
        clus
vv       16P GAIN MUTATED 16P GAIN WILD-TYPE
  CLUS_1                5                 17
  CLUS_2               18                 45
  CLUS_3               12                 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 CLUS_4
  16P GAIN MUTATED        1      6      3      2
  16P GAIN WILD-TYPE      8      8     11     11
D28V11, multiclass
        clus
vv       16P GAIN MUTATED 16P GAIN WILD-TYPE
  CLUS_1                1                  8
  CLUS_2                6                  8
  CLUS_3                3                 11
  CLUS_4                2                 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
  16P GAIN MUTATED        2      4      4      1      1
  16P GAIN WILD-TYPE      7      9     14      4      4
D28V12, multiclass
        clus
vv       16P GAIN MUTATED 16P GAIN WILD-TYPE
  CLUS_1                2                  7
  CLUS_2                4                  9
  CLUS_3                4                 14
  CLUS_4                1                  4
  CLUS_5                1                  4
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(29) Variable = 16Q GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  16Q GAIN MUTATED        6      1      7
  16Q GAIN WILD-TYPE     19     21     15
D29V1, multiclass
        clus
vv       16Q GAIN MUTATED 16Q GAIN WILD-TYPE
  CLUS_1                6                 19
  CLUS_2                1                 21
  CLUS_3                7                 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 CLUS_8
  16Q GAIN MUTATED        1      2      4      2      3      0      2      0
  16Q GAIN WILD-TYPE      5     11      9      7      5      9      6      3
D29V2, multiclass
        clus
vv       16Q GAIN MUTATED 16Q GAIN WILD-TYPE
  CLUS_1                1                  5
  CLUS_2                2                 11
  CLUS_3                4                  9
  CLUS_4                2                  7
  CLUS_5                3                  5
  CLUS_6                0                  9
  CLUS_7                2                  6
  CLUS_8                0                  3
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  16Q GAIN MUTATED        5     15     13      8
  16Q GAIN WILD-TYPE     61     17     18     28
D29V3, multiclass
        clus
vv       16Q GAIN MUTATED 16Q GAIN WILD-TYPE
  CLUS_1                5                 61
  CLUS_2               15                 17
  CLUS_3               13                 18
  CLUS_4                8                 28
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  16Q GAIN MUTATED       11      8      8
  16Q GAIN WILD-TYPE     17     31     21
D29V4, multiclass
        clus
vv       16Q GAIN MUTATED 16Q GAIN WILD-TYPE
  CLUS_1               11                 17
  CLUS_2                8                 31
  CLUS_3                8                 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
  16Q GAIN MUTATED       11      8      4      6      0
  16Q GAIN WILD-TYPE     31     19     21     24      3
D29V5, multiclass
        clus
vv       16Q GAIN MUTATED 16Q GAIN WILD-TYPE
  CLUS_1               11                 31
  CLUS_2                8                 19
  CLUS_3                4                 21
  CLUS_4                6                 24
  CLUS_5                0                  3
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  16Q GAIN MUTATED        3      7      3      4      4      8
  16Q GAIN WILD-TYPE     17     13     21     14     25      8
D29V6, multiclass
        clus
vv       16Q GAIN MUTATED 16Q GAIN WILD-TYPE
  CLUS_1                3                 17
  CLUS_2                7                 13
  CLUS_3                3                 21
  CLUS_4                4                 14
  CLUS_5                4                 25
  CLUS_6                8                  8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  16Q GAIN MUTATED       11      1      4     12     12
  16Q GAIN WILD-TYPE     18     13     29     16     48
D29V7, multiclass
        clus
vv       16Q GAIN MUTATED 16Q GAIN WILD-TYPE
  CLUS_1               11                 18
  CLUS_2                1                 13
  CLUS_3                4                 29
  CLUS_4               12                 16
  CLUS_5               12                 48
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  16Q GAIN MUTATED        9      5      5      8      7      2      4
  16Q GAIN WILD-TYPE     18     31      7     11     25     16     16
D29V8, multiclass
        clus
vv       16Q GAIN MUTATED 16Q GAIN WILD-TYPE
  CLUS_1                9                 18
  CLUS_2                5                 31
  CLUS_3                5                  7
  CLUS_4                8                 11
  CLUS_5                7                 25
  CLUS_6                2                 16
  CLUS_7                4                 16
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  16Q GAIN MUTATED        7     14      2      4      8
  16Q GAIN WILD-TYPE     11     28     15      4     48
D29V9, multiclass
        clus
vv       16Q GAIN MUTATED 16Q GAIN WILD-TYPE
  CLUS_1                7                 11
  CLUS_2               14                 28
  CLUS_3                2                 15
  CLUS_4                4                  4
  CLUS_5                8                 48
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  16Q GAIN MUTATED        4     20     11
  16Q GAIN WILD-TYPE     18     43     45
D29V10, multiclass
        clus
vv       16Q GAIN MUTATED 16Q GAIN WILD-TYPE
  CLUS_1                4                 18
  CLUS_2               20                 43
  CLUS_3               11                 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 CLUS_4
  16Q GAIN MUTATED        1      7      3      3
  16Q GAIN WILD-TYPE      8      7     11     10
D29V11, multiclass
        clus
vv       16Q GAIN MUTATED 16Q GAIN WILD-TYPE
  CLUS_1                1                  8
  CLUS_2                7                  7
  CLUS_3                3                 11
  CLUS_4                3                 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
  16Q GAIN MUTATED        2      5      5      1      1
  16Q GAIN WILD-TYPE      7      8     13      4      4
D29V12, multiclass
        clus
vv       16Q GAIN MUTATED 16Q GAIN WILD-TYPE
  CLUS_1                2                  7
  CLUS_2                5                  8
  CLUS_3                5                 13
  CLUS_4                1                  4
  CLUS_5                1                  4
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(30) Variable = 17P GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  17P GAIN MUTATED        0      3      1
  17P GAIN WILD-TYPE     25     19     21
D30V1, multiclass
        clus
vv       17P GAIN MUTATED 17P GAIN WILD-TYPE
  CLUS_1                0                 25
  CLUS_2                3                 19
  CLUS_3                1                 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 CLUS_8
  17P GAIN MUTATED        0      1      0      0      0      1      2      0
  17P GAIN WILD-TYPE      6     12     13      9      8      8      6      3
D30V2, multiclass
        clus
vv       17P GAIN MUTATED 17P GAIN WILD-TYPE
  CLUS_1                0                  6
  CLUS_2                1                 12
  CLUS_3                0                 13
  CLUS_4                0                  9
  CLUS_5                0                  8
  CLUS_6                1                  8
  CLUS_7                2                  6
  CLUS_8                0                  3
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  17P GAIN MUTATED        1      2      3      2
  17P GAIN WILD-TYPE     65     30     28     34
D30V3, multiclass
        clus
vv       17P GAIN MUTATED 17P GAIN WILD-TYPE
  CLUS_1                1                 65
  CLUS_2                2                 30
  CLUS_3                3                 28
  CLUS_4                2                 34
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  17P GAIN MUTATED        2      2      0
  17P GAIN WILD-TYPE     26     37     29
D30V4, multiclass
        clus
vv       17P GAIN MUTATED 17P GAIN WILD-TYPE
  CLUS_1                2                 26
  CLUS_2                2                 37
  CLUS_3                0                 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
  17P GAIN MUTATED        2      0      1      2      0
  17P GAIN WILD-TYPE     40     27     24     28      3
D30V5, multiclass
        clus
vv       17P GAIN MUTATED 17P GAIN WILD-TYPE
  CLUS_1                2                 40
  CLUS_2                0                 27
  CLUS_3                1                 24
  CLUS_4                2                 28
  CLUS_5                0                  3
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  17P GAIN MUTATED        1      0      1      2      0      1
  17P GAIN WILD-TYPE     19     20     23     16     29     15
D30V6, multiclass
        clus
vv       17P GAIN MUTATED 17P GAIN WILD-TYPE
  CLUS_1                1                 19
  CLUS_2                0                 20
  CLUS_3                1                 23
  CLUS_4                2                 16
  CLUS_5                0                 29
  CLUS_6                1                 15
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  17P GAIN MUTATED        0      0      2      3      3
  17P GAIN WILD-TYPE     29     14     31     25     57
D30V7, multiclass
        clus
vv       17P GAIN MUTATED 17P GAIN WILD-TYPE
  CLUS_1                0                 29
  CLUS_2                0                 14
  CLUS_3                2                 31
  CLUS_4                3                 25
  CLUS_5                3                 57
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  17P GAIN MUTATED        1      1      0      2      3      0      1
  17P GAIN WILD-TYPE     26     35     12     17     29     18     19
D30V8, multiclass
        clus
vv       17P GAIN MUTATED 17P GAIN WILD-TYPE
  CLUS_1                1                 26
  CLUS_2                1                 35
  CLUS_3                0                 12
  CLUS_4                2                 17
  CLUS_5                3                 29
  CLUS_6                0                 18
  CLUS_7                1                 19
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  17P GAIN MUTATED        0      3      0      1      3
  17P GAIN WILD-TYPE     18     39     17      7     53
D30V9, multiclass
        clus
vv       17P GAIN MUTATED 17P GAIN WILD-TYPE
  CLUS_1                0                 18
  CLUS_2                3                 39
  CLUS_3                0                 17
  CLUS_4                1                  7
  CLUS_5                3                 53
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  17P GAIN MUTATED        2      2      3
  17P GAIN WILD-TYPE     20     61     53
D30V10, multiclass
        clus
vv       17P GAIN MUTATED 17P GAIN WILD-TYPE
  CLUS_1                2                 20
  CLUS_2                2                 61
  CLUS_3                3                 53
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  17P GAIN MUTATED        0      0      2      0
  17P GAIN WILD-TYPE      9     14     12     13
D30V11, multiclass
[1] "Remove cluster labels:" "17P GAIN MUTATED"      
clus
  17P GAIN MUTATED 17P GAIN WILD-TYPE 
                 2                 48 
        TCGA-AF-2687         TCGA-AF-3911         TCGA-AF-4110 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-AF-6655         TCGA-AF-6672         TCGA-AG-3725 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-AG-3731         TCGA-AG-3732         TCGA-AG-4021 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-AG-4022         TCGA-AH-6544         TCGA-AH-6547 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-AH-6643         TCGA-BM-6198         TCGA-CI-6619 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-CI-6620         TCGA-CI-6621         TCGA-CI-6624 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-CL-5918         TCGA-DC-4749         TCGA-DC-5337 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-DC-5869         TCGA-DC-6156         TCGA-DC-6157 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-DC-6158         TCGA-DC-6681         TCGA-DC-6683 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-DY-A1DC         TCGA-DY-A1DD         TCGA-DY-A1DE 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-DY-A1DG         TCGA-DY-A1H8         TCGA-EI-6506 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-EI-6507         TCGA-EI-6509         TCGA-EI-6511 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-EI-6513         TCGA-EI-6514         TCGA-F5-6464 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-F5-6465         TCGA-F5-6571         TCGA-F5-6702 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-F5-6810         TCGA-F5-6811         TCGA-F5-6812 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-G5-6233         TCGA-G5-6235         TCGA-G5-6572 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  17P GAIN MUTATED        1      0      1      0      0
  17P GAIN WILD-TYPE      8     13     17      5      5
D30V12, multiclass
[1] "Remove cluster labels:" "17P GAIN MUTATED"      
clus
  17P GAIN MUTATED 17P GAIN WILD-TYPE 
                 2                 48 
        TCGA-AF-2687         TCGA-AF-3911         TCGA-AF-4110 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-AF-6655         TCGA-AF-6672         TCGA-AG-3725 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-AG-3731         TCGA-AG-3732         TCGA-AG-4021 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-AG-4022         TCGA-AH-6544         TCGA-AH-6547 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-AH-6643         TCGA-BM-6198         TCGA-CI-6619 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-CI-6620         TCGA-CI-6621         TCGA-CI-6624 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-CL-5918         TCGA-DC-4749         TCGA-DC-5337 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-DC-5869         TCGA-DC-6156         TCGA-DC-6157 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-DC-6158         TCGA-DC-6681         TCGA-DC-6683 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-DY-A1DC         TCGA-DY-A1DD         TCGA-DY-A1DE 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-DY-A1DG         TCGA-DY-A1H8         TCGA-EI-6506 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-EI-6507         TCGA-EI-6509         TCGA-EI-6511 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-EI-6513         TCGA-EI-6514         TCGA-F5-6464 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-F5-6465         TCGA-F5-6571         TCGA-F5-6702 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-F5-6810         TCGA-F5-6811         TCGA-F5-6812 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 
        TCGA-G5-6233         TCGA-G5-6235         TCGA-G5-6572 
"17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" "17P GAIN WILD-TYPE" 

Clustering(31) Variable = 17Q GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  17Q GAIN MUTATED        2      5      6
  17Q GAIN WILD-TYPE     23     17     16
D31V1, multiclass
        clus
vv       17Q GAIN MUTATED 17Q GAIN WILD-TYPE
  CLUS_1                2                 23
  CLUS_2                5                 17
  CLUS_3                6                 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 CLUS_8
  17Q GAIN MUTATED        1      3      2      3      1      1      2      0
  17Q GAIN WILD-TYPE      5     10     11      6      7      8      6      3
D31V2, multiclass
        clus
vv       17Q GAIN MUTATED 17Q GAIN WILD-TYPE
  CLUS_1                1                  5
  CLUS_2                3                 10
  CLUS_3                2                 11
  CLUS_4                3                  6
  CLUS_5                1                  7
  CLUS_6                1                  8
  CLUS_7                2                  6
  CLUS_8                0                  3
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  17Q GAIN MUTATED        9      3     13      7
  17Q GAIN WILD-TYPE     57     29     18     29
D31V3, multiclass
        clus
vv       17Q GAIN MUTATED 17Q GAIN WILD-TYPE
  CLUS_1                9                 57
  CLUS_2                3                 29
  CLUS_3               13                 18
  CLUS_4                7                 29
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  17Q GAIN MUTATED        8      6      5
  17Q GAIN WILD-TYPE     20     33     24
D31V4, multiclass
        clus
vv       17Q GAIN MUTATED 17Q GAIN WILD-TYPE
  CLUS_1                8                 20
  CLUS_2                6                 33
  CLUS_3                5                 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
  17Q GAIN MUTATED        7      8      5      5      0
  17Q GAIN WILD-TYPE     35     19     20     25      3
D31V5, multiclass
        clus
vv       17Q GAIN MUTATED 17Q GAIN WILD-TYPE
  CLUS_1                7                 35
  CLUS_2                8                 19
  CLUS_3                5                 20
  CLUS_4                5                 25
  CLUS_5                0                  3
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  17Q GAIN MUTATED        5      4      5      5      2      4
  17Q GAIN WILD-TYPE     15     16     19     13     27     12
D31V6, multiclass
        clus
vv       17Q GAIN MUTATED 17Q GAIN WILD-TYPE
  CLUS_1                5                 15
  CLUS_2                4                 16
  CLUS_3                5                 19
  CLUS_4                5                 13
  CLUS_5                2                 27
  CLUS_6                4                 12
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  17Q GAIN MUTATED        3      2      6      9     12
  17Q GAIN WILD-TYPE     26     12     27     19     48
D31V7, multiclass
        clus
vv       17Q GAIN MUTATED 17Q GAIN WILD-TYPE
  CLUS_1                3                 26
  CLUS_2                2                 12
  CLUS_3                6                 27
  CLUS_4                9                 19
  CLUS_5               12                 48
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  17Q GAIN MUTATED        7      5      1      6      8      2      3
  17Q GAIN WILD-TYPE     20     31     11     13     24     16     17
D31V8, multiclass
        clus
vv       17Q GAIN MUTATED 17Q GAIN WILD-TYPE
  CLUS_1                7                 20
  CLUS_2                5                 31
  CLUS_3                1                 11
  CLUS_4                6                 13
  CLUS_5                8                 24
  CLUS_6                2                 16
  CLUS_7                3                 17
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  17Q GAIN MUTATED        2     11      0      3      9
  17Q GAIN WILD-TYPE     16     31     17      5     47
D31V9, multiclass
        clus
vv       17Q GAIN MUTATED 17Q GAIN WILD-TYPE
  CLUS_1                2                 16
  CLUS_2               11                 31
  CLUS_3                0                 17
  CLUS_4                3                  5
  CLUS_5                9                 47
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  17Q GAIN MUTATED        6     10      9
  17Q GAIN WILD-TYPE     16     53     47
D31V10, multiclass
        clus
vv       17Q GAIN MUTATED 17Q GAIN WILD-TYPE
  CLUS_1                6                 16
  CLUS_2               10                 53
  CLUS_3                9                 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 CLUS_4
  17Q GAIN MUTATED        1      1      6      3
  17Q GAIN WILD-TYPE      8     13      8     10
D31V11, multiclass
        clus
vv       17Q GAIN MUTATED 17Q GAIN WILD-TYPE
  CLUS_1                1                  8
  CLUS_2                1                 13
  CLUS_3                6                  8
  CLUS_4                3                 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
  17Q GAIN MUTATED        2      2      5      0      2
  17Q GAIN WILD-TYPE      7     11     13      5      3
D31V12, multiclass
        clus
vv       17Q GAIN MUTATED 17Q GAIN WILD-TYPE
  CLUS_1                2                  7
  CLUS_2                2                 11
  CLUS_3                5                 13
  CLUS_4                0                  5
  CLUS_5                2                  3
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(32) Variable = 18P GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  18P GAIN MUTATED        1      2      0
  18P GAIN WILD-TYPE     24     20     22
D32V1, multiclass
        clus
vv       18P GAIN MUTATED 18P GAIN WILD-TYPE
  CLUS_1                1                 24
  CLUS_2                2                 20
  CLUS_3                0                 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 CLUS_8
  18P GAIN MUTATED        0      0      0      0      1      1      1      0
  18P GAIN WILD-TYPE      6     13     13      9      7      8      7      3
D32V2, multiclass
        clus
vv       18P GAIN MUTATED 18P GAIN WILD-TYPE
  CLUS_1                0                  6
  CLUS_2                0                 13
  CLUS_3                0                 13
  CLUS_4                0                  9
  CLUS_5                1                  7
  CLUS_6                1                  8
  CLUS_7                1                  7
  CLUS_8                0                  3
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  18P GAIN MUTATED        3      1      0      4
  18P GAIN WILD-TYPE     63     31     31     32
D32V3, multiclass
        clus
vv       18P GAIN MUTATED 18P GAIN WILD-TYPE
  CLUS_1                3                 63
  CLUS_2                1                 31
  CLUS_3                0                 31
  CLUS_4                4                 32
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  18P GAIN MUTATED        1      3      1
  18P GAIN WILD-TYPE     27     36     28
D32V4, multiclass
        clus
vv       18P GAIN MUTATED 18P GAIN WILD-TYPE
  CLUS_1                1                 27
  CLUS_2                3                 36
  CLUS_3                1                 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
  18P GAIN MUTATED        2      2      2      2      0
  18P GAIN WILD-TYPE     40     25     23     28      3
D32V5, multiclass
        clus
vv       18P GAIN MUTATED 18P GAIN WILD-TYPE
  CLUS_1                2                 40
  CLUS_2                2                 25
  CLUS_3                2                 23
  CLUS_4                2                 28
  CLUS_5                0                  3
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  18P GAIN MUTATED        1      1      2      2      2      0
  18P GAIN WILD-TYPE     19     19     22     16     27     16
D32V6, multiclass
        clus
vv       18P GAIN MUTATED 18P GAIN WILD-TYPE
  CLUS_1                1                 19
  CLUS_2                1                 19
  CLUS_3                2                 22
  CLUS_4                2                 16
  CLUS_5                2                 27
  CLUS_6                0                 16
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  18P GAIN MUTATED        2      1      2      0      3
  18P GAIN WILD-TYPE     27     13     31     28     57
D32V7, multiclass
        clus
vv       18P GAIN MUTATED 18P GAIN WILD-TYPE
  CLUS_1                2                 27
  CLUS_2                1                 13
  CLUS_3                2                 31
  CLUS_4                0                 28
  CLUS_5                3                 57
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  18P GAIN MUTATED        0      2      2      0      2      1      1
  18P GAIN WILD-TYPE     27     34     10     19     30     17     19
D32V8, multiclass
        clus
vv       18P GAIN MUTATED 18P GAIN WILD-TYPE
  CLUS_1                0                 27
  CLUS_2                2                 34
  CLUS_3                2                 10
  CLUS_4                0                 19
  CLUS_5                2                 30
  CLUS_6                1                 17
  CLUS_7                1                 19
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  18P GAIN MUTATED        2      2      0      1      3
  18P GAIN WILD-TYPE     16     40     17      7     53
D32V9, multiclass
        clus
vv       18P GAIN MUTATED 18P GAIN WILD-TYPE
  CLUS_1                2                 16
  CLUS_2                2                 40
  CLUS_3                0                 17
  CLUS_4                1                  7
  CLUS_5                3                 53
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  18P GAIN MUTATED        2      4      2
  18P GAIN WILD-TYPE     20     59     54
D32V10, multiclass
        clus
vv       18P GAIN MUTATED 18P GAIN WILD-TYPE
  CLUS_1                2                 20
  CLUS_2                4                 59
  CLUS_3                2                 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 CLUS_4
  18P GAIN MUTATED        0      1      1      1
  18P GAIN WILD-TYPE      9     13     13     12
D32V11, multiclass
        clus
vv       18P GAIN MUTATED 18P GAIN WILD-TYPE
  CLUS_1                0                  9
  CLUS_2                1                 13
  CLUS_3                1                 13
  CLUS_4                1                 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
  18P GAIN MUTATED        0      1      2      0      0
  18P GAIN WILD-TYPE      9     12     16      5      5
D32V12, multiclass
        clus
vv       18P GAIN MUTATED 18P GAIN WILD-TYPE
  CLUS_1                0                  9
  CLUS_2                1                 12
  CLUS_3                2                 16
  CLUS_4                0                  5
  CLUS_5                0                  5
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(33) Variable = 18Q GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  18Q GAIN MUTATED        1      1      0
  18Q GAIN WILD-TYPE     24     21     22
D33V1, multiclass
[1] "Remove cluster labels:" "18Q GAIN MUTATED"      
clus
  18Q GAIN MUTATED 18Q GAIN WILD-TYPE 
                 2                 67 
        TCGA-AF-2689         TCGA-AF-2691         TCGA-AF-2692 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-AF-3400         TCGA-AF-3913         TCGA-AG-3574 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-AG-3575         TCGA-AG-3578         TCGA-AG-3580 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-AG-3581         TCGA-AG-3582         TCGA-AG-3583 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-AG-3584         TCGA-AG-3586         TCGA-AG-3587 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-AG-3593         TCGA-AG-3594         TCGA-AG-3598 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-AG-3599         TCGA-AG-3601         TCGA-AG-3602 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-AG-3605         TCGA-AG-3608         TCGA-AG-3609 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-AG-3611         TCGA-AG-3612         TCGA-AG-3726 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-AG-3727         TCGA-AG-3728         TCGA-AG-3878 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-AG-3881         TCGA-AG-3882         TCGA-AG-3883 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-AG-3885         TCGA-AG-3887         TCGA-AG-3890 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-AG-3892         TCGA-AG-3893         TCGA-AG-3894 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-AG-3896         TCGA-AG-3898         TCGA-AG-3901 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-AG-3902         TCGA-AG-3909         TCGA-AG-3999 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-AG-4001         TCGA-AG-4005         TCGA-AG-4007 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-AG-4008         TCGA-AG-4015         TCGA-AG-A002 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-AG-A008         TCGA-AG-A00C         TCGA-AG-A00H 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-AG-A00Y         TCGA-AG-A011         TCGA-AG-A014 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-AG-A015         TCGA-AG-A016         TCGA-AG-A01J 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-AG-A01L         TCGA-AG-A01N         TCGA-AG-A023 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-AG-A025         TCGA-AG-A026         TCGA-AG-A02X 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-AG-A032 
"18Q GAIN WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  18Q GAIN MUTATED        0      0      0      0      0      1      1      0
  18Q GAIN WILD-TYPE      6     13     13      9      8      8      7      3
D33V2, multiclass
[1] "Remove cluster labels:" "18Q GAIN MUTATED"      
clus
  18Q GAIN MUTATED 18Q GAIN WILD-TYPE 
                 2                 67 
        TCGA-AF-2689         TCGA-AF-2691         TCGA-AF-2692 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-AF-3400         TCGA-AF-3913         TCGA-AG-3574 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-AG-3575         TCGA-AG-3578         TCGA-AG-3580 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-AG-3581         TCGA-AG-3582         TCGA-AG-3583 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-AG-3584         TCGA-AG-3586         TCGA-AG-3587 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-AG-3593         TCGA-AG-3594         TCGA-AG-3598 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-AG-3599         TCGA-AG-3601         TCGA-AG-3602 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-AG-3605         TCGA-AG-3608         TCGA-AG-3609 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-AG-3611         TCGA-AG-3612         TCGA-AG-3726 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-AG-3727         TCGA-AG-3728         TCGA-AG-3878 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-AG-3881         TCGA-AG-3882         TCGA-AG-3883 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-AG-3885         TCGA-AG-3887         TCGA-AG-3890 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-AG-3892         TCGA-AG-3893         TCGA-AG-3894 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-AG-3896         TCGA-AG-3898         TCGA-AG-3901 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-AG-3902         TCGA-AG-3909         TCGA-AG-3999 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-AG-4001         TCGA-AG-4005         TCGA-AG-4007 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-AG-4008         TCGA-AG-4015         TCGA-AG-A002 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-AG-A008         TCGA-AG-A00C         TCGA-AG-A00H 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-AG-A00Y         TCGA-AG-A011         TCGA-AG-A014 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-AG-A015         TCGA-AG-A016         TCGA-AG-A01J 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-AG-A01L         TCGA-AG-A01N         TCGA-AG-A023 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-AG-A025         TCGA-AG-A026         TCGA-AG-A02X 
"18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" "18Q GAIN WILD-TYPE" 
        TCGA-AG-A032 
"18Q GAIN WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  18Q GAIN MUTATED        3      1      0      2
  18Q GAIN WILD-TYPE     63     31     31     34
D33V3, multiclass
        clus
vv       18Q GAIN MUTATED 18Q GAIN WILD-TYPE
  CLUS_1                3                 63
  CLUS_2                1                 31
  CLUS_3                0                 31
  CLUS_4                2                 34
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  18Q GAIN MUTATED        0      3      1
  18Q GAIN WILD-TYPE     28     36     28
D33V4, multiclass
        clus
vv       18Q GAIN MUTATED 18Q GAIN WILD-TYPE
  CLUS_1                0                 28
  CLUS_2                3                 36
  CLUS_3                1                 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
  18Q GAIN MUTATED        2      1      2      1      0
  18Q GAIN WILD-TYPE     40     26     23     29      3
D33V5, multiclass
        clus
vv       18Q GAIN MUTATED 18Q GAIN WILD-TYPE
  CLUS_1                2                 40
  CLUS_2                1                 26
  CLUS_3                2                 23
  CLUS_4                1                 29
  CLUS_5                0                  3
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  18Q GAIN MUTATED        1      1      0      2      2      0
  18Q GAIN WILD-TYPE     19     19     24     16     27     16
D33V6, multiclass
        clus
vv       18Q GAIN MUTATED 18Q GAIN WILD-TYPE
  CLUS_1                1                 19
  CLUS_2                1                 19
  CLUS_3                0                 24
  CLUS_4                2                 16
  CLUS_5                2                 27
  CLUS_6                0                 16
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  18Q GAIN MUTATED        2      1      1      0      2
  18Q GAIN WILD-TYPE     27     13     32     28     58
D33V7, multiclass
        clus
vv       18Q GAIN MUTATED 18Q GAIN WILD-TYPE
  CLUS_1                2                 27
  CLUS_2                1                 13
  CLUS_3                1                 32
  CLUS_4                0                 28
  CLUS_5                2                 58
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  18Q GAIN MUTATED        0      2      2      0      1      0      1
  18Q GAIN WILD-TYPE     27     34     10     19     31     18     19
D33V8, multiclass
        clus
vv       18Q GAIN MUTATED 18Q GAIN WILD-TYPE
  CLUS_1                0                 27
  CLUS_2                2                 34
  CLUS_3                2                 10
  CLUS_4                0                 19
  CLUS_5                1                 31
  CLUS_6                0                 18
  CLUS_7                1                 19
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  18Q GAIN MUTATED        2      2      0      0      2
  18Q GAIN WILD-TYPE     16     40     17      8     54
D33V9, multiclass
        clus
vv       18Q GAIN MUTATED 18Q GAIN WILD-TYPE
  CLUS_1                2                 16
  CLUS_2                2                 40
  CLUS_3                0                 17
  CLUS_4                0                  8
  CLUS_5                2                 54
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  18Q GAIN MUTATED        0      4      2
  18Q GAIN WILD-TYPE     22     59     54
D33V10, multiclass
        clus
vv       18Q GAIN MUTATED 18Q GAIN WILD-TYPE
  CLUS_1                0                 22
  CLUS_2                4                 59
  CLUS_3                2                 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 CLUS_4
  18Q GAIN MUTATED        0      1      1      1
  18Q GAIN WILD-TYPE      9     13     13     12
D33V11, multiclass
        clus
vv       18Q GAIN MUTATED 18Q GAIN WILD-TYPE
  CLUS_1                0                  9
  CLUS_2                1                 13
  CLUS_3                1                 13
  CLUS_4                1                 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
  18Q GAIN MUTATED        0      1      2      0      0
  18Q GAIN WILD-TYPE      9     12     16      5      5
D33V12, multiclass
        clus
vv       18Q GAIN MUTATED 18Q GAIN WILD-TYPE
  CLUS_1                0                  9
  CLUS_2                1                 12
  CLUS_3                2                 16
  CLUS_4                0                  5
  CLUS_5                0                  5
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(34) Variable = 19P GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  19P GAIN MUTATED        2      5      8
  19P GAIN WILD-TYPE     23     17     14
D34V1, multiclass
        clus
vv       19P GAIN MUTATED 19P GAIN WILD-TYPE
  CLUS_1                2                 23
  CLUS_2                5                 17
  CLUS_3                8                 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 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  19P GAIN MUTATED        1      1      2      2      3      2      4      0
  19P GAIN WILD-TYPE      5     12     11      7      5      7      4      3
D34V2, multiclass
        clus
vv       19P GAIN MUTATED 19P GAIN WILD-TYPE
  CLUS_1                1                  5
  CLUS_2                1                 12
  CLUS_3                2                 11
  CLUS_4                2                  7
  CLUS_5                3                  5
  CLUS_6                2                  7
  CLUS_7                4                  4
  CLUS_8                0                  3
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  19P GAIN MUTATED        9      6     11      7
  19P GAIN WILD-TYPE     57     26     20     29
D34V3, multiclass
        clus
vv       19P GAIN MUTATED 19P GAIN WILD-TYPE
  CLUS_1                9                 57
  CLUS_2                6                 26
  CLUS_3               11                 20
  CLUS_4                7                 29
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  19P GAIN MUTATED        7      7      5
  19P GAIN WILD-TYPE     21     32     24
D34V4, multiclass
        clus
vv       19P GAIN MUTATED 19P GAIN WILD-TYPE
  CLUS_1                7                 21
  CLUS_2                7                 32
  CLUS_3                5                 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
  19P GAIN MUTATED        9      5      6      6      0
  19P GAIN WILD-TYPE     33     22     19     24      3
D34V5, multiclass
        clus
vv       19P GAIN MUTATED 19P GAIN WILD-TYPE
  CLUS_1                9                 33
  CLUS_2                5                 22
  CLUS_3                6                 19
  CLUS_4                6                 24
  CLUS_5                0                  3
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  19P GAIN MUTATED        6      4      3      4      4      5
  19P GAIN WILD-TYPE     14     16     21     14     25     11
D34V6, multiclass
        clus
vv       19P GAIN MUTATED 19P GAIN WILD-TYPE
  CLUS_1                6                 14
  CLUS_2                4                 16
  CLUS_3                3                 21
  CLUS_4                4                 14
  CLUS_5                4                 25
  CLUS_6                5                 11
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  19P GAIN MUTATED        5      2      4      8     13
  19P GAIN WILD-TYPE     24     12     29     20     47
D34V7, multiclass
        clus
vv       19P GAIN MUTATED 19P GAIN WILD-TYPE
  CLUS_1                5                 24
  CLUS_2                2                 12
  CLUS_3                4                 29
  CLUS_4                8                 20
  CLUS_5               13                 47
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  19P GAIN MUTATED        9      6      0      3      8      0      6
  19P GAIN WILD-TYPE     18     30     12     16     24     18     14
D34V8, multiclass
        clus
vv       19P GAIN MUTATED 19P GAIN WILD-TYPE
  CLUS_1                9                 18
  CLUS_2                6                 30
  CLUS_3                0                 12
  CLUS_4                3                 16
  CLUS_5                8                 24
  CLUS_6                0                 18
  CLUS_7                6                 14
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  19P GAIN MUTATED        3      9      1      4      9
  19P GAIN WILD-TYPE     15     33     16      4     47
D34V9, multiclass
        clus
vv       19P GAIN MUTATED 19P GAIN WILD-TYPE
  CLUS_1                3                 15
  CLUS_2                9                 33
  CLUS_3                1                 16
  CLUS_4                4                  4
  CLUS_5                9                 47
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  19P GAIN MUTATED        4     11     11
  19P GAIN WILD-TYPE     18     52     45
D34V10, multiclass
        clus
vv       19P GAIN MUTATED 19P GAIN WILD-TYPE
  CLUS_1                4                 18
  CLUS_2               11                 52
  CLUS_3               11                 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 CLUS_4
  19P GAIN MUTATED        1      2      3      2
  19P GAIN WILD-TYPE      8     12     11     11
D34V11, multiclass
        clus
vv       19P GAIN MUTATED 19P GAIN WILD-TYPE
  CLUS_1                1                  8
  CLUS_2                2                 12
  CLUS_3                3                 11
  CLUS_4                2                 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
  19P GAIN MUTATED        2      2      3      1      0
  19P GAIN WILD-TYPE      7     11     15      4      5
D34V12, multiclass
        clus
vv       19P GAIN MUTATED 19P GAIN WILD-TYPE
  CLUS_1                2                  7
  CLUS_2                2                 11
  CLUS_3                3                 15
  CLUS_4                1                  4
  CLUS_5                0                  5
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(35) Variable = 19Q GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  19Q GAIN MUTATED        4      3      9
  19Q GAIN WILD-TYPE     21     19     13
D35V1, multiclass
        clus
vv       19Q GAIN MUTATED 19Q GAIN WILD-TYPE
  CLUS_1                4                 21
  CLUS_2                3                 19
  CLUS_3                9                 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 CLUS_8
  19Q GAIN MUTATED        1      1      4      3      3      1      3      0
  19Q GAIN WILD-TYPE      5     12      9      6      5      8      5      3
D35V2, multiclass
        clus
vv       19Q GAIN MUTATED 19Q GAIN WILD-TYPE
  CLUS_1                1                  5
  CLUS_2                1                 12
  CLUS_3                4                  9
  CLUS_4                3                  6
  CLUS_5                3                  5
  CLUS_6                1                  8
  CLUS_7                3                  5
  CLUS_8                0                  3
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  19Q GAIN MUTATED        9      7     11      5
  19Q GAIN WILD-TYPE     57     25     20     31
D35V3, multiclass
        clus
vv       19Q GAIN MUTATED 19Q GAIN WILD-TYPE
  CLUS_1                9                 57
  CLUS_2                7                 25
  CLUS_3               11                 20
  CLUS_4                5                 31
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  19Q GAIN MUTATED        7      6      4
  19Q GAIN WILD-TYPE     21     33     25
D35V4, multiclass
        clus
vv       19Q GAIN MUTATED 19Q GAIN WILD-TYPE
  CLUS_1                7                 21
  CLUS_2                6                 33
  CLUS_3                4                 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
  19Q GAIN MUTATED       10      4      4      6      0
  19Q GAIN WILD-TYPE     32     23     21     24      3
D35V5, multiclass
        clus
vv       19Q GAIN MUTATED 19Q GAIN WILD-TYPE
  CLUS_1               10                 32
  CLUS_2                4                 23
  CLUS_3                4                 21
  CLUS_4                6                 24
  CLUS_5                0                  3
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  19Q GAIN MUTATED        5      3      3      3      6      4
  19Q GAIN WILD-TYPE     15     17     21     15     23     12
D35V6, multiclass
        clus
vv       19Q GAIN MUTATED 19Q GAIN WILD-TYPE
  CLUS_1                5                 15
  CLUS_2                3                 17
  CLUS_3                3                 21
  CLUS_4                3                 15
  CLUS_5                6                 23
  CLUS_6                4                 12
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  19Q GAIN MUTATED        3      2      4      9     13
  19Q GAIN WILD-TYPE     26     12     29     19     47
D35V7, multiclass
        clus
vv       19Q GAIN MUTATED 19Q GAIN WILD-TYPE
  CLUS_1                3                 26
  CLUS_2                2                 12
  CLUS_3                4                 29
  CLUS_4                9                 19
  CLUS_5               13                 47
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  19Q GAIN MUTATED        8      5      0      3      9      1      5
  19Q GAIN WILD-TYPE     19     31     12     16     23     17     15
D35V8, multiclass
        clus
vv       19Q GAIN MUTATED 19Q GAIN WILD-TYPE
  CLUS_1                8                 19
  CLUS_2                5                 31
  CLUS_3                0                 12
  CLUS_4                3                 16
  CLUS_5                9                 23
  CLUS_6                1                 17
  CLUS_7                5                 15
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  19Q GAIN MUTATED        2      8      1      3     11
  19Q GAIN WILD-TYPE     16     34     16      5     45
D35V9, multiclass
        clus
vv       19Q GAIN MUTATED 19Q GAIN WILD-TYPE
  CLUS_1                2                 16
  CLUS_2                8                 34
  CLUS_3                1                 16
  CLUS_4                3                  5
  CLUS_5               11                 45
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  19Q GAIN MUTATED        5      9     11
  19Q GAIN WILD-TYPE     17     54     45
D35V10, multiclass
        clus
vv       19Q GAIN MUTATED 19Q GAIN WILD-TYPE
  CLUS_1                5                 17
  CLUS_2                9                 54
  CLUS_3               11                 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 CLUS_4
  19Q GAIN MUTATED        1      2      3      2
  19Q GAIN WILD-TYPE      8     12     11     11
D35V11, multiclass
        clus
vv       19Q GAIN MUTATED 19Q GAIN WILD-TYPE
  CLUS_1                1                  8
  CLUS_2                2                 12
  CLUS_3                3                 11
  CLUS_4                2                 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
  19Q GAIN MUTATED        2      2      3      1      0
  19Q GAIN WILD-TYPE      7     11     15      4      5
D35V12, multiclass
        clus
vv       19Q GAIN MUTATED 19Q GAIN WILD-TYPE
  CLUS_1                2                  7
  CLUS_2                2                 11
  CLUS_3                3                 15
  CLUS_4                1                  4
  CLUS_5                0                  5
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(36) Variable = 20P GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  20P GAIN MUTATED       16     10     17
  20P GAIN WILD-TYPE      9     12      5
D36V1, multiclass
        clus
vv       20P GAIN MUTATED 20P GAIN WILD-TYPE
  CLUS_1               16                  9
  CLUS_2               10                 12
  CLUS_3               17                  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 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  20P GAIN MUTATED        4      5      8      7      5      6      6      2
  20P GAIN WILD-TYPE      2      8      5      2      3      3      2      1
D36V2, multiclass
        clus
vv       20P GAIN MUTATED 20P GAIN WILD-TYPE
  CLUS_1                4                  2
  CLUS_2                5                  8
  CLUS_3                8                  5
  CLUS_4                7                  2
  CLUS_5                5                  3
  CLUS_6                6                  3
  CLUS_7                6                  2
  CLUS_8                2                  1
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  20P GAIN MUTATED       45     24     22     18
  20P GAIN WILD-TYPE     21      8      9     18
D36V3, multiclass
        clus
vv       20P GAIN MUTATED 20P GAIN WILD-TYPE
  CLUS_1               45                 21
  CLUS_2               24                  8
  CLUS_3               22                  9
  CLUS_4               18                 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
  20P GAIN MUTATED       18     30     17
  20P GAIN WILD-TYPE     10      9     12
D36V4, multiclass
        clus
vv       20P GAIN MUTATED 20P GAIN WILD-TYPE
  CLUS_1               18                 10
  CLUS_2               30                  9
  CLUS_3               17                 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
  20P GAIN MUTATED       34     22     13     15      1
  20P GAIN WILD-TYPE      8      5     12     15      2
D36V5, multiclass
        clus
vv       20P GAIN MUTATED 20P GAIN WILD-TYPE
  CLUS_1               34                  8
  CLUS_2               22                  5
  CLUS_3               13                 12
  CLUS_4               15                 15
  CLUS_5                1                  2
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  20P GAIN MUTATED       14     16     14     10     21     10
  20P GAIN WILD-TYPE      6      4     10      8      8      6
D36V6, multiclass
        clus
vv       20P GAIN MUTATED 20P GAIN WILD-TYPE
  CLUS_1               14                  6
  CLUS_2               16                  4
  CLUS_3               14                 10
  CLUS_4               10                  8
  CLUS_5               21                  8
  CLUS_6               10                  6
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  20P GAIN MUTATED       21      9     24     19     35
  20P GAIN WILD-TYPE      8      5      9      9     25
D36V7, multiclass
        clus
vv       20P GAIN MUTATED 20P GAIN WILD-TYPE
  CLUS_1               21                  8
  CLUS_2                9                  5
  CLUS_3               24                  9
  CLUS_4               19                  9
  CLUS_5               35                 25
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  20P GAIN MUTATED       19     26      8     13     22      8     12
  20P GAIN WILD-TYPE      8     10      4      6     10     10      8
D36V8, multiclass
        clus
vv       20P GAIN MUTATED 20P GAIN WILD-TYPE
  CLUS_1               19                  8
  CLUS_2               26                 10
  CLUS_3                8                  4
  CLUS_4               13                  6
  CLUS_5               22                 10
  CLUS_6                8                 10
  CLUS_7               12                  8
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  20P GAIN MUTATED       12     34     10      4     32
  20P GAIN WILD-TYPE      6      8      7      4     24
D36V9, multiclass
        clus
vv       20P GAIN MUTATED 20P GAIN WILD-TYPE
  CLUS_1               12                  6
  CLUS_2               34                  8
  CLUS_3               10                  7
  CLUS_4                4                  4
  CLUS_5               32                 24
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  20P GAIN MUTATED       12     48     32
  20P GAIN WILD-TYPE     10     15     24
D36V10, multiclass
        clus
vv       20P GAIN MUTATED 20P GAIN WILD-TYPE
  CLUS_1               12                 10
  CLUS_2               48                 15
  CLUS_3               32                 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
  20P GAIN MUTATED        8      9     11      7
  20P GAIN WILD-TYPE      1      5      3      6
D36V11, multiclass
        clus
vv       20P GAIN MUTATED 20P GAIN WILD-TYPE
  CLUS_1                8                  1
  CLUS_2                9                  5
  CLUS_3               11                  3
  CLUS_4                7                  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
  20P GAIN MUTATED        4      7     15      4      5
  20P GAIN WILD-TYPE      5      6      3      1      0
D36V12, multiclass
        clus
vv       20P GAIN MUTATED 20P GAIN WILD-TYPE
  CLUS_1                4                  5
  CLUS_2                7                  6
  CLUS_3               15                  3
  CLUS_4                4                  1
  CLUS_5                5                  0
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(37) Variable = 20Q GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  20Q GAIN MUTATED       22     15     22
  20Q GAIN WILD-TYPE      3      7      0
D37V1, multiclass
        clus
vv       20Q GAIN MUTATED 20Q GAIN WILD-TYPE
  CLUS_1               22                  3
  CLUS_2               15                  7
  CLUS_3               22                  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 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  20Q GAIN MUTATED        6      8     11      9      7      8      8      2
  20Q GAIN WILD-TYPE      0      5      2      0      1      1      0      1
D37V2, multiclass
        clus
vv       20Q GAIN MUTATED 20Q GAIN WILD-TYPE
  CLUS_1                6                  0
  CLUS_2                8                  5
  CLUS_3               11                  2
  CLUS_4                9                  0
  CLUS_5                7                  1
  CLUS_6                8                  1
  CLUS_7                8                  0
  CLUS_8                2                  1
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  20Q GAIN MUTATED       53     32     31     29
  20Q GAIN WILD-TYPE     13      0      0      7
D37V3, multiclass
        clus
vv       20Q GAIN MUTATED 20Q GAIN WILD-TYPE
  CLUS_1               53                 13
  CLUS_2               32                  0
  CLUS_3               31                  0
  CLUS_4               29                  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
  20Q GAIN MUTATED       27     35     24
  20Q GAIN WILD-TYPE      1      4      5
D37V4, multiclass
        clus
vv       20Q GAIN MUTATED 20Q GAIN WILD-TYPE
  CLUS_1               27                  1
  CLUS_2               35                  4
  CLUS_3               24                  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 CLUS_5
  20Q GAIN MUTATED       41     26     19     25      3
  20Q GAIN WILD-TYPE      1      1      6      5      0
D37V5, multiclass
        clus
vv       20Q GAIN MUTATED 20Q GAIN WILD-TYPE
  CLUS_1               41                  1
  CLUS_2               26                  1
  CLUS_3               19                  6
  CLUS_4               25                  5
  CLUS_5                3                  0
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  20Q GAIN MUTATED       18     20     19     15     26     16
  20Q GAIN WILD-TYPE      2      0      5      3      3      0
D37V6, multiclass
        clus
vv       20Q GAIN MUTATED 20Q GAIN WILD-TYPE
  CLUS_1               18                  2
  CLUS_2               20                  0
  CLUS_3               19                  5
  CLUS_4               15                  3
  CLUS_5               26                  3
  CLUS_6               16                  0
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  20Q GAIN MUTATED       26     13     27     27     51
  20Q GAIN WILD-TYPE      3      1      6      1      9
D37V7, multiclass
        clus
vv       20Q GAIN MUTATED 20Q GAIN WILD-TYPE
  CLUS_1               26                  3
  CLUS_2               13                  1
  CLUS_3               27                  6
  CLUS_4               27                  1
  CLUS_5               51                  9
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  20Q GAIN MUTATED       26     33      9     18     30     10     18
  20Q GAIN WILD-TYPE      1      3      3      1      2      8      2
D37V8, multiclass
        clus
vv       20Q GAIN MUTATED 20Q GAIN WILD-TYPE
  CLUS_1               26                  1
  CLUS_2               33                  3
  CLUS_3                9                  3
  CLUS_4               18                  1
  CLUS_5               30                  2
  CLUS_6               10                  8
  CLUS_7               18                  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 CLUS_5
  20Q GAIN MUTATED       17     41     14      6     46
  20Q GAIN WILD-TYPE      1      1      3      2     10
D37V9, multiclass
        clus
vv       20Q GAIN MUTATED 20Q GAIN WILD-TYPE
  CLUS_1               17                  1
  CLUS_2               41                  1
  CLUS_3               14                  3
  CLUS_4                6                  2
  CLUS_5               46                 10
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  20Q GAIN MUTATED       19     58     47
  20Q GAIN WILD-TYPE      3      5      9
D37V10, multiclass
        clus
vv       20Q GAIN MUTATED 20Q GAIN WILD-TYPE
  CLUS_1               19                  3
  CLUS_2               58                  5
  CLUS_3               47                  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        9     13     14     11
  20Q GAIN WILD-TYPE      0      1      0      2
D37V11, multiclass
        clus
vv       20Q GAIN MUTATED 20Q GAIN WILD-TYPE
  CLUS_1                9                  0
  CLUS_2               13                  1
  CLUS_3               14                  0
  CLUS_4               11                  2
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  20Q GAIN MUTATED        8     12     17      5      5
  20Q GAIN WILD-TYPE      1      1      1      0      0
D37V12, multiclass
        clus
vv       20Q GAIN MUTATED 20Q GAIN WILD-TYPE
  CLUS_1                8                  1
  CLUS_2               12                  1
  CLUS_3               17                  1
  CLUS_4                5                  0
  CLUS_5                5                  0
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(38) Variable = 21Q GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  21Q GAIN MUTATED        2      2      0
  21Q GAIN WILD-TYPE     23     20     22
D38V1, multiclass
        clus
vv       21Q GAIN MUTATED 21Q GAIN WILD-TYPE
  CLUS_1                2                 23
  CLUS_2                2                 20
  CLUS_3                0                 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 CLUS_8
  21Q GAIN MUTATED        0      2      0      0      0      1      1      0
  21Q GAIN WILD-TYPE      6     11     13      9      8      8      7      3
D38V2, multiclass
        clus
vv       21Q GAIN MUTATED 21Q GAIN WILD-TYPE
  CLUS_1                0                  6
  CLUS_2                2                 11
  CLUS_3                0                 13
  CLUS_4                0                  9
  CLUS_5                0                  8
  CLUS_6                1                  8
  CLUS_7                1                  7
  CLUS_8                0                  3
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  21Q GAIN MUTATED        3      3      1      3
  21Q GAIN WILD-TYPE     63     29     30     33
D38V3, multiclass
        clus
vv       21Q GAIN MUTATED 21Q GAIN WILD-TYPE
  CLUS_1                3                 63
  CLUS_2                3                 29
  CLUS_3                1                 30
  CLUS_4                3                 33
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  21Q GAIN MUTATED        2      2      2
  21Q GAIN WILD-TYPE     26     37     27
D38V4, multiclass
        clus
vv       21Q GAIN MUTATED 21Q GAIN WILD-TYPE
  CLUS_1                2                 26
  CLUS_2                2                 37
  CLUS_3                2                 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
  21Q GAIN MUTATED        2      0      3      1      1
  21Q GAIN WILD-TYPE     40     27     22     29      2
D38V5, multiclass
        clus
vv       21Q GAIN MUTATED 21Q GAIN WILD-TYPE
  CLUS_1                2                 40
  CLUS_2                0                 27
  CLUS_3                3                 22
  CLUS_4                1                 29
  CLUS_5                1                  2
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  21Q GAIN MUTATED        1      0      0      2      2      2
  21Q GAIN WILD-TYPE     19     20     24     16     27     14
D38V6, multiclass
        clus
vv       21Q GAIN MUTATED 21Q GAIN WILD-TYPE
  CLUS_1                1                 19
  CLUS_2                0                 20
  CLUS_3                0                 24
  CLUS_4                2                 16
  CLUS_5                2                 27
  CLUS_6                2                 14
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  21Q GAIN MUTATED        2      1      1      2      4
  21Q GAIN WILD-TYPE     27     13     32     26     56
D38V7, multiclass
        clus
vv       21Q GAIN MUTATED 21Q GAIN WILD-TYPE
  CLUS_1                2                 27
  CLUS_2                1                 13
  CLUS_3                1                 32
  CLUS_4                2                 26
  CLUS_5                4                 56
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  21Q GAIN MUTATED        2      1      1      2      2      1      1
  21Q GAIN WILD-TYPE     25     35     11     17     30     17     19
D38V8, multiclass
        clus
vv       21Q GAIN MUTATED 21Q GAIN WILD-TYPE
  CLUS_1                2                 25
  CLUS_2                1                 35
  CLUS_3                1                 11
  CLUS_4                2                 17
  CLUS_5                2                 30
  CLUS_6                1                 17
  CLUS_7                1                 19
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  21Q GAIN MUTATED        1      1      3      0      4
  21Q GAIN WILD-TYPE     17     41     14      8     52
D38V9, multiclass
        clus
vv       21Q GAIN MUTATED 21Q GAIN WILD-TYPE
  CLUS_1                1                 17
  CLUS_2                1                 41
  CLUS_3                3                 14
  CLUS_4                0                  8
  CLUS_5                4                 52
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  21Q GAIN MUTATED        2      3      4
  21Q GAIN WILD-TYPE     20     60     52
D38V10, multiclass
        clus
vv       21Q GAIN MUTATED 21Q GAIN WILD-TYPE
  CLUS_1                2                 20
  CLUS_2                3                 60
  CLUS_3                4                 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 CLUS_4
  21Q GAIN MUTATED        0      1      0      1
  21Q GAIN WILD-TYPE      9     13     14     12
D38V11, multiclass
[1] "Remove cluster labels:" "21Q GAIN MUTATED"      
clus
  21Q GAIN MUTATED 21Q GAIN WILD-TYPE 
                 2                 48 
        TCGA-AF-2687         TCGA-AF-3911         TCGA-AF-4110 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-AF-6655         TCGA-AF-6672         TCGA-AG-3725 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-AG-3731         TCGA-AG-4022         TCGA-AH-6544 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-AH-6547         TCGA-AH-6643         TCGA-BM-6198 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-CI-6619         TCGA-CI-6620         TCGA-CI-6621 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-CI-6624         TCGA-CL-5918         TCGA-DC-4749 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-DC-5337         TCGA-DC-5869         TCGA-DC-6156 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-DC-6157         TCGA-DC-6158         TCGA-DC-6681 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-DC-6682         TCGA-DC-6683         TCGA-DY-A1DC 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-DY-A1DD         TCGA-DY-A1DE         TCGA-DY-A1DG 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-DY-A1H8         TCGA-EI-6506         TCGA-EI-6507 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-EI-6509         TCGA-EI-6511         TCGA-EI-6513 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-EI-6514         TCGA-F5-6464         TCGA-F5-6465 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-F5-6571         TCGA-F5-6702         TCGA-F5-6810 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-F5-6811         TCGA-F5-6812         TCGA-G5-6233 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-G5-6235         TCGA-G5-6572         TCGA-G5-6641 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  21Q GAIN MUTATED        1      1      0      0      0
  21Q GAIN WILD-TYPE      8     12     18      5      5
D38V12, multiclass
[1] "Remove cluster labels:" "21Q GAIN MUTATED"      
clus
  21Q GAIN MUTATED 21Q GAIN WILD-TYPE 
                 2                 48 
        TCGA-AF-2687         TCGA-AF-3911         TCGA-AF-4110 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-AF-6655         TCGA-AF-6672         TCGA-AG-3725 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-AG-3731         TCGA-AG-4022         TCGA-AH-6544 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-AH-6547         TCGA-AH-6643         TCGA-BM-6198 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-CI-6619         TCGA-CI-6620         TCGA-CI-6621 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-CI-6624         TCGA-CL-5918         TCGA-DC-4749 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-DC-5337         TCGA-DC-5869         TCGA-DC-6156 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-DC-6157         TCGA-DC-6158         TCGA-DC-6681 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-DC-6682         TCGA-DC-6683         TCGA-DY-A1DC 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-DY-A1DD         TCGA-DY-A1DE         TCGA-DY-A1DG 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-DY-A1H8         TCGA-EI-6506         TCGA-EI-6507 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-EI-6509         TCGA-EI-6511         TCGA-EI-6513 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-EI-6514         TCGA-F5-6464         TCGA-F5-6465 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-F5-6571         TCGA-F5-6702         TCGA-F5-6810 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-F5-6811         TCGA-F5-6812         TCGA-G5-6233 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-G5-6235         TCGA-G5-6572         TCGA-G5-6641 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 

Clustering(39) Variable = 22Q GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  22Q GAIN MUTATED        1      2      2
  22Q GAIN WILD-TYPE     24     20     20
D39V1, multiclass
        clus
vv       22Q GAIN MUTATED 22Q GAIN WILD-TYPE
  CLUS_1                1                 24
  CLUS_2                2                 20
  CLUS_3                2                 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 CLUS_8
  22Q GAIN MUTATED        0      0      1      0      1      0      3      0
  22Q GAIN WILD-TYPE      6     13     12      9      7      9      5      3
D39V2, multiclass
        clus
vv       22Q GAIN MUTATED 22Q GAIN WILD-TYPE
  CLUS_1                0                  6
  CLUS_2                0                 13
  CLUS_3                1                 12
  CLUS_4                0                  9
  CLUS_5                1                  7
  CLUS_6                0                  9
  CLUS_7                3                  5
  CLUS_8                0                  3
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  22Q GAIN MUTATED        2      5      1      1
  22Q GAIN WILD-TYPE     64     27     30     35
D39V3, multiclass
        clus
vv       22Q GAIN MUTATED 22Q GAIN WILD-TYPE
  CLUS_1                2                 64
  CLUS_2                5                 27
  CLUS_3                1                 30
  CLUS_4                1                 35
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  22Q GAIN MUTATED        1      2      1
  22Q GAIN WILD-TYPE     27     37     28
D39V4, multiclass
        clus
vv       22Q GAIN MUTATED 22Q GAIN WILD-TYPE
  CLUS_1                1                 27
  CLUS_2                2                 37
  CLUS_3                1                 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
  22Q GAIN MUTATED        2      2      3      0      1
  22Q GAIN WILD-TYPE     40     25     22     30      2
D39V5, multiclass
        clus
vv       22Q GAIN MUTATED 22Q GAIN WILD-TYPE
  CLUS_1                2                 40
  CLUS_2                2                 25
  CLUS_3                3                 22
  CLUS_4                0                 30
  CLUS_5                1                  2
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  22Q GAIN MUTATED        2      1      2      1      2      0
  22Q GAIN WILD-TYPE     18     19     22     17     27     16
D39V6, multiclass
        clus
vv       22Q GAIN MUTATED 22Q GAIN WILD-TYPE
  CLUS_1                2                 18
  CLUS_2                1                 19
  CLUS_3                2                 22
  CLUS_4                1                 17
  CLUS_5                2                 27
  CLUS_6                0                 16
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  22Q GAIN MUTATED        2      0      0      3      4
  22Q GAIN WILD-TYPE     27     14     33     25     56
D39V7, multiclass
        clus
vv       22Q GAIN MUTATED 22Q GAIN WILD-TYPE
  CLUS_1                2                 27
  CLUS_2                0                 14
  CLUS_3                0                 33
  CLUS_4                3                 25
  CLUS_5                4                 56
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  22Q GAIN MUTATED        2      0      0      2      4      0      1
  22Q GAIN WILD-TYPE     25     36     12     17     28     18     19
D39V8, multiclass
        clus
vv       22Q GAIN MUTATED 22Q GAIN WILD-TYPE
  CLUS_1                2                 25
  CLUS_2                0                 36
  CLUS_3                0                 12
  CLUS_4                2                 17
  CLUS_5                4                 28
  CLUS_6                0                 18
  CLUS_7                1                 19
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  22Q GAIN MUTATED        1      2      1      0      3
  22Q GAIN WILD-TYPE     17     40     16      8     53
D39V9, multiclass
        clus
vv       22Q GAIN MUTATED 22Q GAIN WILD-TYPE
  CLUS_1                1                 17
  CLUS_2                2                 40
  CLUS_3                1                 16
  CLUS_4                0                  8
  CLUS_5                3                 53
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  22Q GAIN MUTATED        1      3      3
  22Q GAIN WILD-TYPE     21     60     53
D39V10, multiclass
        clus
vv       22Q GAIN MUTATED 22Q GAIN WILD-TYPE
  CLUS_1                1                 21
  CLUS_2                3                 60
  CLUS_3                3                 53
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  22Q GAIN MUTATED        0      0      0      0
  22Q GAIN WILD-TYPE      9     14     14     13
D39V11, multiclass
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  22Q GAIN MUTATED        0      0      0      0      0
  22Q GAIN WILD-TYPE      9     13     18      5      5
D39V12, multiclass

Clustering(40) Variable = XP GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  XP GAIN MUTATED        4      1      9
  XP GAIN WILD-TYPE     21     21     13
D40V1, multiclass
        clus
vv       XP GAIN MUTATED XP GAIN WILD-TYPE
  CLUS_1               4                21
  CLUS_2               1                21
  CLUS_3               9                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 CLUS_8
  XP GAIN MUTATED        0      1      4      3      3      0      3      0
  XP GAIN WILD-TYPE      6     12      9      6      5      9      5      3
D40V2, multiclass
        clus
vv       XP GAIN MUTATED XP GAIN WILD-TYPE
  CLUS_1               0                 6
  CLUS_2               1                12
  CLUS_3               4                 9
  CLUS_4               3                 6
  CLUS_5               3                 5
  CLUS_6               0                 9
  CLUS_7               3                 5
  CLUS_8               0                 3
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  XP GAIN MUTATED        8     10      8      8
  XP GAIN WILD-TYPE     58     22     23     28
D40V3, multiclass
        clus
vv       XP GAIN MUTATED XP GAIN WILD-TYPE
  CLUS_1               8                58
  CLUS_2              10                22
  CLUS_3               8                23
  CLUS_4               8                28
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  XP GAIN MUTATED        8      7      4
  XP GAIN WILD-TYPE     20     32     25
D40V4, multiclass
        clus
vv       XP GAIN MUTATED XP GAIN WILD-TYPE
  CLUS_1               8                20
  CLUS_2               7                32
  CLUS_3               4                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
  XP GAIN MUTATED       10      6      6      3      1
  XP GAIN WILD-TYPE     32     21     19     27      2
D40V5, multiclass
        clus
vv       XP GAIN MUTATED XP GAIN WILD-TYPE
  CLUS_1              10                32
  CLUS_2               6                21
  CLUS_3               6                19
  CLUS_4               3                27
  CLUS_5               1                 2
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  XP GAIN MUTATED        4      6      3      3      6      4
  XP GAIN WILD-TYPE     16     14     21     15     23     12
D40V6, multiclass
        clus
vv       XP GAIN MUTATED XP GAIN WILD-TYPE
  CLUS_1               4                16
  CLUS_2               6                14
  CLUS_3               3                21
  CLUS_4               3                15
  CLUS_5               6                23
  CLUS_6               4                12
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  XP GAIN MUTATED        8      1      5      9     11
  XP GAIN WILD-TYPE     21     13     28     19     49
D40V7, multiclass
        clus
vv       XP GAIN MUTATED XP GAIN WILD-TYPE
  CLUS_1               8                21
  CLUS_2               1                13
  CLUS_3               5                28
  CLUS_4               9                19
  CLUS_5              11                49
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  XP GAIN MUTATED        6      6      2      6      9      2      3
  XP GAIN WILD-TYPE     21     30     10     13     23     16     17
D40V8, multiclass
        clus
vv       XP GAIN MUTATED XP GAIN WILD-TYPE
  CLUS_1               6                21
  CLUS_2               6                30
  CLUS_3               2                10
  CLUS_4               6                13
  CLUS_5               9                23
  CLUS_6               2                16
  CLUS_7               3                17
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  XP GAIN MUTATED        3     10      4      2      9
  XP GAIN WILD-TYPE     15     32     13      6     47
D40V9, multiclass
        clus
vv       XP GAIN MUTATED XP GAIN WILD-TYPE
  CLUS_1               3                15
  CLUS_2              10                32
  CLUS_3               4                13
  CLUS_4               2                 6
  CLUS_5               9                47
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  XP GAIN MUTATED        4     14     10
  XP GAIN WILD-TYPE     18     49     46
D40V10, multiclass
        clus
vv       XP GAIN MUTATED XP GAIN WILD-TYPE
  CLUS_1               4                18
  CLUS_2              14                49
  CLUS_3              10                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 CLUS_4
  XP GAIN MUTATED        1      3      3      1
  XP GAIN WILD-TYPE      8     11     11     12
D40V11, multiclass
        clus
vv       XP GAIN MUTATED XP GAIN WILD-TYPE
  CLUS_1               1                 8
  CLUS_2               3                11
  CLUS_3               3                11
  CLUS_4               1                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
  XP GAIN MUTATED        1      2      3      0      2
  XP GAIN WILD-TYPE      8     11     15      5      3
D40V12, multiclass
        clus
vv       XP GAIN MUTATED XP GAIN WILD-TYPE
  CLUS_1               1                 8
  CLUS_2               2                11
  CLUS_3               3                15
  CLUS_4               0                 5
  CLUS_5               2                 3
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(41) Variable = XQ GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  XQ GAIN MUTATED        4      3      8
  XQ GAIN WILD-TYPE     21     19     14
D41V1, multiclass
        clus
vv       XQ GAIN MUTATED XQ GAIN WILD-TYPE
  CLUS_1               4                21
  CLUS_2               3                19
  CLUS_3               8                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 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  XQ GAIN MUTATED        0      3      4      3      2      0      3      0
  XQ GAIN WILD-TYPE      6     10      9      6      6      9      5      3
D41V2, multiclass
        clus
vv       XQ GAIN MUTATED XQ GAIN WILD-TYPE
  CLUS_1               0                 6
  CLUS_2               3                10
  CLUS_3               4                 9
  CLUS_4               3                 6
  CLUS_5               2                 6
  CLUS_6               0                 9
  CLUS_7               3                 5
  CLUS_8               0                 3
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  XQ GAIN MUTATED        7     10      7     10
  XQ GAIN WILD-TYPE     59     22     24     26
D41V3, multiclass
        clus
vv       XQ GAIN MUTATED XQ GAIN WILD-TYPE
  CLUS_1               7                59
  CLUS_2              10                22
  CLUS_3               7                24
  CLUS_4              10                26
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  XQ GAIN MUTATED        8      6      4
  XQ GAIN WILD-TYPE     20     33     25
D41V4, multiclass
        clus
vv       XQ GAIN MUTATED XQ GAIN WILD-TYPE
  CLUS_1               8                20
  CLUS_2               6                33
  CLUS_3               4                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
  XQ GAIN MUTATED        9      6      8      2      1
  XQ GAIN WILD-TYPE     33     21     17     28      2
D41V5, multiclass
        clus
vv       XQ GAIN MUTATED XQ GAIN WILD-TYPE
  CLUS_1               9                33
  CLUS_2               6                21
  CLUS_3               8                17
  CLUS_4               2                28
  CLUS_5               1                 2
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  XQ GAIN MUTATED        5      6      2      4      5      4
  XQ GAIN WILD-TYPE     15     14     22     14     24     12
D41V6, multiclass
        clus
vv       XQ GAIN MUTATED XQ GAIN WILD-TYPE
  CLUS_1               5                15
  CLUS_2               6                14
  CLUS_3               2                22
  CLUS_4               4                14
  CLUS_5               5                24
  CLUS_6               4                12
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  XQ GAIN MUTATED        9      0      5      8     12
  XQ GAIN WILD-TYPE     20     14     28     20     48
D41V7, multiclass
        clus
vv       XQ GAIN MUTATED XQ GAIN WILD-TYPE
  CLUS_1               9                20
  CLUS_2               0                14
  CLUS_3               5                28
  CLUS_4               8                20
  CLUS_5              12                48
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  XQ GAIN MUTATED        6      5      3      5      9      4      2
  XQ GAIN WILD-TYPE     21     31      9     14     23     14     18
D41V8, multiclass
        clus
vv       XQ GAIN MUTATED XQ GAIN WILD-TYPE
  CLUS_1               6                21
  CLUS_2               5                31
  CLUS_3               3                 9
  CLUS_4               5                14
  CLUS_5               9                23
  CLUS_6               4                14
  CLUS_7               2                18
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  XQ GAIN MUTATED        4      8      4      1     11
  XQ GAIN WILD-TYPE     14     34     13      7     45
D41V9, multiclass
        clus
vv       XQ GAIN MUTATED XQ GAIN WILD-TYPE
  CLUS_1               4                14
  CLUS_2               8                34
  CLUS_3               4                13
  CLUS_4               1                 7
  CLUS_5              11                45
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  XQ GAIN MUTATED        4     13     11
  XQ GAIN WILD-TYPE     18     50     45
D41V10, multiclass
        clus
vv       XQ GAIN MUTATED XQ GAIN WILD-TYPE
  CLUS_1               4                18
  CLUS_2              13                50
  CLUS_3              11                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 CLUS_4
  XQ GAIN MUTATED        1      4      1      1
  XQ GAIN WILD-TYPE      8     10     13     12
D41V11, multiclass
        clus
vv       XQ GAIN MUTATED XQ GAIN WILD-TYPE
  CLUS_1               1                 8
  CLUS_2               4                10
  CLUS_3               1                13
  CLUS_4               1                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
  XQ GAIN MUTATED        1      3      1      0      2
  XQ GAIN WILD-TYPE      8     10     17      5      3
D41V12, multiclass
        clus
vv       XQ GAIN MUTATED XQ GAIN WILD-TYPE
  CLUS_1               1                 8
  CLUS_2               3                10
  CLUS_3               1                17
  CLUS_4               0                 5
  CLUS_5               2                 3
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(42) Variable = 1P LOSS MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  1P LOSS MUTATED        5      5      7
  1P LOSS WILD-TYPE     20     17     15
D42V1, multiclass
        clus
vv       1P LOSS MUTATED 1P LOSS WILD-TYPE
  CLUS_1               5                20
  CLUS_2               5                17
  CLUS_3               7                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 CLUS_8
  1P LOSS MUTATED        1      1      3      3      5      0      4      0
  1P LOSS WILD-TYPE      5     12     10      6      3      9      4      3
D42V2, multiclass
        clus
vv       1P LOSS MUTATED 1P LOSS WILD-TYPE
  CLUS_1               1                 5
  CLUS_2               1                12
  CLUS_3               3                10
  CLUS_4               3                 6
  CLUS_5               5                 3
  CLUS_6               0                 9
  CLUS_7               4                 4
  CLUS_8               0                 3
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  1P LOSS MUTATED       12     13     12      9
  1P LOSS WILD-TYPE     54     19     19     27
D42V3, multiclass
        clus
vv       1P LOSS MUTATED 1P LOSS WILD-TYPE
  CLUS_1              12                54
  CLUS_2              13                19
  CLUS_3              12                19
  CLUS_4               9                27
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  1P LOSS MUTATED       10     14      5
  1P LOSS WILD-TYPE     18     25     24
D42V4, multiclass
        clus
vv       1P LOSS MUTATED 1P LOSS WILD-TYPE
  CLUS_1              10                18
  CLUS_2              14                25
  CLUS_3               5                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
  1P LOSS MUTATED       11      6      5     12      0
  1P LOSS WILD-TYPE     31     21     20     18      3
D42V5, multiclass
        clus
vv       1P LOSS MUTATED 1P LOSS WILD-TYPE
  CLUS_1              11                31
  CLUS_2               6                21
  CLUS_3               5                20
  CLUS_4              12                18
  CLUS_5               0                 3
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  1P LOSS MUTATED        4      4      6      9      5      6
  1P LOSS WILD-TYPE     16     16     18      9     24     10
D42V6, multiclass
        clus
vv       1P LOSS MUTATED 1P LOSS WILD-TYPE
  CLUS_1               4                16
  CLUS_2               4                16
  CLUS_3               6                18
  CLUS_4               9                 9
  CLUS_5               5                24
  CLUS_6               6                10
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  1P LOSS MUTATED        8      5      5     10     18
  1P LOSS WILD-TYPE     21      9     28     18     42
D42V7, multiclass
        clus
vv       1P LOSS MUTATED 1P LOSS WILD-TYPE
  CLUS_1               8                21
  CLUS_2               5                 9
  CLUS_3               5                28
  CLUS_4              10                18
  CLUS_5              18                42
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  1P LOSS MUTATED       10      8      3      7     12      1      5
  1P LOSS WILD-TYPE     17     28      9     12     20     17     15
D42V8, multiclass
        clus
vv       1P LOSS MUTATED 1P LOSS WILD-TYPE
  CLUS_1              10                17
  CLUS_2               8                28
  CLUS_3               3                 9
  CLUS_4               7                12
  CLUS_5              12                20
  CLUS_6               1                17
  CLUS_7               5                15
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  1P LOSS MUTATED        7     15      3      2     13
  1P LOSS WILD-TYPE     11     27     14      6     43
D42V9, multiclass
        clus
vv       1P LOSS MUTATED 1P LOSS WILD-TYPE
  CLUS_1               7                11
  CLUS_2              15                27
  CLUS_3               3                14
  CLUS_4               2                 6
  CLUS_5              13                43
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  1P LOSS MUTATED        8     18     14
  1P LOSS WILD-TYPE     14     45     42
D42V10, multiclass
        clus
vv       1P LOSS MUTATED 1P LOSS WILD-TYPE
  CLUS_1               8                14
  CLUS_2              18                45
  CLUS_3              14                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 CLUS_4
  1P LOSS MUTATED        5      4      4      4
  1P LOSS WILD-TYPE      4     10     10      9
D42V11, multiclass
        clus
vv       1P LOSS MUTATED 1P LOSS WILD-TYPE
  CLUS_1               5                 4
  CLUS_2               4                10
  CLUS_3               4                10
  CLUS_4               4                 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
  1P LOSS MUTATED        4      2      7      2      2
  1P LOSS WILD-TYPE      5     11     11      3      3
D42V12, multiclass
        clus
vv       1P LOSS MUTATED 1P LOSS WILD-TYPE
  CLUS_1               4                 5
  CLUS_2               2                11
  CLUS_3               7                11
  CLUS_4               2                 3
  CLUS_5               2                 3
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(43) Variable = 1Q LOSS MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  1Q LOSS MUTATED        3      3      4
  1Q LOSS WILD-TYPE     22     19     18
D43V1, multiclass
        clus
vv       1Q LOSS MUTATED 1Q LOSS WILD-TYPE
  CLUS_1               3                22
  CLUS_2               3                19
  CLUS_3               4                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 CLUS_8
  1Q LOSS MUTATED        0      0      3      1      3      0      3      0
  1Q LOSS WILD-TYPE      6     13     10      8      5      9      5      3
D43V2, multiclass
        clus
vv       1Q LOSS MUTATED 1Q LOSS WILD-TYPE
  CLUS_1               0                 6
  CLUS_2               0                13
  CLUS_3               3                10
  CLUS_4               1                 8
  CLUS_5               3                 5
  CLUS_6               0                 9
  CLUS_7               3                 5
  CLUS_8               0                 3
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  1Q LOSS MUTATED        7      6      8      5
  1Q LOSS WILD-TYPE     59     26     23     31
D43V3, multiclass
        clus
vv       1Q LOSS MUTATED 1Q LOSS WILD-TYPE
  CLUS_1               7                59
  CLUS_2               6                26
  CLUS_3               8                23
  CLUS_4               5                31
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  1Q LOSS MUTATED        8      7      1
  1Q LOSS WILD-TYPE     20     32     28
D43V4, multiclass
        clus
vv       1Q LOSS MUTATED 1Q LOSS WILD-TYPE
  CLUS_1               8                20
  CLUS_2               7                32
  CLUS_3               1                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
  1Q LOSS MUTATED        6      3      4      5      0
  1Q LOSS WILD-TYPE     36     24     21     25      3
D43V5, multiclass
        clus
vv       1Q LOSS MUTATED 1Q LOSS WILD-TYPE
  CLUS_1               6                36
  CLUS_2               3                24
  CLUS_3               4                21
  CLUS_4               5                25
  CLUS_5               0                 3
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  1Q LOSS MUTATED        3      3      3      5      1      3
  1Q LOSS WILD-TYPE     17     17     21     13     28     13
D43V6, multiclass
        clus
vv       1Q LOSS MUTATED 1Q LOSS WILD-TYPE
  CLUS_1               3                17
  CLUS_2               3                17
  CLUS_3               3                21
  CLUS_4               5                13
  CLUS_5               1                28
  CLUS_6               3                13
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  1Q LOSS MUTATED        4      4      1      7     10
  1Q LOSS WILD-TYPE     25     10     32     21     50
D43V7, multiclass
        clus
vv       1Q LOSS MUTATED 1Q LOSS WILD-TYPE
  CLUS_1               4                25
  CLUS_2               4                10
  CLUS_3               1                32
  CLUS_4               7                21
  CLUS_5              10                50
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  1Q LOSS MUTATED        6      5      2      3      6      0      4
  1Q LOSS WILD-TYPE     21     31     10     16     26     18     16
D43V8, multiclass
        clus
vv       1Q LOSS MUTATED 1Q LOSS WILD-TYPE
  CLUS_1               6                21
  CLUS_2               5                31
  CLUS_3               2                10
  CLUS_4               3                16
  CLUS_5               6                26
  CLUS_6               0                18
  CLUS_7               4                16
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  1Q LOSS MUTATED        4      7      2      2      6
  1Q LOSS WILD-TYPE     14     35     15      6     50
D43V9, multiclass
        clus
vv       1Q LOSS MUTATED 1Q LOSS WILD-TYPE
  CLUS_1               4                14
  CLUS_2               7                35
  CLUS_3               2                15
  CLUS_4               2                 6
  CLUS_5               6                50
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  1Q LOSS MUTATED        6      8      7
  1Q LOSS WILD-TYPE     16     55     49
D43V10, multiclass
        clus
vv       1Q LOSS MUTATED 1Q LOSS WILD-TYPE
  CLUS_1               6                16
  CLUS_2               8                55
  CLUS_3               7                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 CLUS_4
  1Q LOSS MUTATED        4      3      3      2
  1Q LOSS WILD-TYPE      5     11     11     11
D43V11, multiclass
        clus
vv       1Q LOSS MUTATED 1Q LOSS WILD-TYPE
  CLUS_1               4                 5
  CLUS_2               3                11
  CLUS_3               3                11
  CLUS_4               2                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
  1Q LOSS MUTATED        4      1      4      2      1
  1Q LOSS WILD-TYPE      5     12     14      3      4
D43V12, multiclass
        clus
vv       1Q LOSS MUTATED 1Q LOSS WILD-TYPE
  CLUS_1               4                 5
  CLUS_2               1                12
  CLUS_3               4                14
  CLUS_4               2                 3
  CLUS_5               1                 4
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(44) Variable = 2P LOSS MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  2P LOSS MUTATED        2      4      2
  2P LOSS WILD-TYPE     23     18     20
D44V1, multiclass
        clus
vv       2P LOSS MUTATED 2P LOSS WILD-TYPE
  CLUS_1               2                23
  CLUS_2               4                18
  CLUS_3               2                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 CLUS_8
  2P LOSS MUTATED        0      3      1      2      1      0      1      0
  2P LOSS WILD-TYPE      6     10     12      7      7      9      7      3
D44V2, multiclass
        clus
vv       2P LOSS MUTATED 2P LOSS WILD-TYPE
  CLUS_1               0                 6
  CLUS_2               3                10
  CLUS_3               1                12
  CLUS_4               2                 7
  CLUS_5               1                 7
  CLUS_6               0                 9
  CLUS_7               1                 7
  CLUS_8               0                 3
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  2P LOSS MUTATED        0      5      2      4
  2P LOSS WILD-TYPE     66     27     29     32
D44V3, multiclass
        clus
vv       2P LOSS MUTATED 2P LOSS WILD-TYPE
  CLUS_1               0                66
  CLUS_2               5                27
  CLUS_3               2                29
  CLUS_4               4                32
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  2P LOSS MUTATED        0      1      2
  2P LOSS WILD-TYPE     28     38     27
D44V4, multiclass
        clus
vv       2P LOSS MUTATED 2P LOSS WILD-TYPE
  CLUS_1               0                28
  CLUS_2               1                38
  CLUS_3               2                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
  2P LOSS MUTATED        2      3      3      1      0
  2P LOSS WILD-TYPE     40     24     22     29      3
D44V5, multiclass
        clus
vv       2P LOSS MUTATED 2P LOSS WILD-TYPE
  CLUS_1               2                40
  CLUS_2               3                24
  CLUS_3               3                22
  CLUS_4               1                29
  CLUS_5               0                 3
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  2P LOSS MUTATED        1      2      2      2      0      2
  2P LOSS WILD-TYPE     19     18     22     16     29     14
D44V6, multiclass
        clus
vv       2P LOSS MUTATED 2P LOSS WILD-TYPE
  CLUS_1               1                19
  CLUS_2               2                18
  CLUS_3               2                22
  CLUS_4               2                16
  CLUS_5               0                29
  CLUS_6               2                14
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  2P LOSS MUTATED        2      1      2      0      6
  2P LOSS WILD-TYPE     27     13     31     28     54
D44V7, multiclass
        clus
vv       2P LOSS MUTATED 2P LOSS WILD-TYPE
  CLUS_1               2                27
  CLUS_2               1                13
  CLUS_3               2                31
  CLUS_4               0                28
  CLUS_5               6                54
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  2P LOSS MUTATED        2      1      0      0      4      4      0
  2P LOSS WILD-TYPE     25     35     12     19     28     14     20
D44V8, multiclass
        clus
vv       2P LOSS MUTATED 2P LOSS WILD-TYPE
  CLUS_1               2                25
  CLUS_2               1                35
  CLUS_3               0                12
  CLUS_4               0                19
  CLUS_5               4                28
  CLUS_6               4                14
  CLUS_7               0                20
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  2P LOSS MUTATED        1      1      1      1      6
  2P LOSS WILD-TYPE     17     41     16      7     50
D44V9, multiclass
        clus
vv       2P LOSS MUTATED 2P LOSS WILD-TYPE
  CLUS_1               1                17
  CLUS_2               1                41
  CLUS_3               1                16
  CLUS_4               1                 7
  CLUS_5               6                50
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  2P LOSS MUTATED        2      3      5
  2P LOSS WILD-TYPE     20     60     51
D44V10, multiclass
        clus
vv       2P LOSS MUTATED 2P LOSS WILD-TYPE
  CLUS_1               2                20
  CLUS_2               3                60
  CLUS_3               5                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 CLUS_4
  2P LOSS MUTATED        0      1      0      0
  2P LOSS WILD-TYPE      9     13     14     13
D44V11, multiclass
[1] "Remove cluster labels:" "2P LOSS MUTATED"       
clus
  2P LOSS MUTATED 2P LOSS WILD-TYPE 
                1                49 
       TCGA-AF-2687        TCGA-AF-3911        TCGA-AF-4110        TCGA-AF-6655 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-AF-6672        TCGA-AG-3725        TCGA-AG-3731        TCGA-AG-3732 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-AG-4021        TCGA-AG-4022        TCGA-AH-6544        TCGA-AH-6547 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-AH-6643        TCGA-BM-6198        TCGA-CI-6619        TCGA-CI-6620 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-CI-6621        TCGA-CI-6624        TCGA-CL-5918        TCGA-DC-4749 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-DC-5337        TCGA-DC-5869        TCGA-DC-6156        TCGA-DC-6157 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-DC-6158        TCGA-DC-6681        TCGA-DC-6682        TCGA-DC-6683 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-DY-A1DC        TCGA-DY-A1DD        TCGA-DY-A1DE        TCGA-DY-A1DG 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-DY-A1H8        TCGA-EI-6506        TCGA-EI-6507        TCGA-EI-6509 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-EI-6511        TCGA-EI-6513        TCGA-EI-6514        TCGA-F5-6464 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-F5-6465        TCGA-F5-6702        TCGA-F5-6810        TCGA-F5-6811 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-F5-6812        TCGA-G5-6233        TCGA-G5-6235        TCGA-G5-6572 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-G5-6641 
"2P LOSS WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  2P LOSS MUTATED        0      1      0      0      0
  2P LOSS WILD-TYPE      9     12     18      5      5
D44V12, multiclass
[1] "Remove cluster labels:" "2P LOSS MUTATED"       
clus
  2P LOSS MUTATED 2P LOSS WILD-TYPE 
                1                49 
       TCGA-AF-2687        TCGA-AF-3911        TCGA-AF-4110        TCGA-AF-6655 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-AF-6672        TCGA-AG-3725        TCGA-AG-3731        TCGA-AG-3732 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-AG-4021        TCGA-AG-4022        TCGA-AH-6544        TCGA-AH-6547 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-AH-6643        TCGA-BM-6198        TCGA-CI-6619        TCGA-CI-6620 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-CI-6621        TCGA-CI-6624        TCGA-CL-5918        TCGA-DC-4749 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-DC-5337        TCGA-DC-5869        TCGA-DC-6156        TCGA-DC-6157 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-DC-6158        TCGA-DC-6681        TCGA-DC-6682        TCGA-DC-6683 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-DY-A1DC        TCGA-DY-A1DD        TCGA-DY-A1DE        TCGA-DY-A1DG 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-DY-A1H8        TCGA-EI-6506        TCGA-EI-6507        TCGA-EI-6509 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-EI-6511        TCGA-EI-6513        TCGA-EI-6514        TCGA-F5-6464 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-F5-6465        TCGA-F5-6702        TCGA-F5-6810        TCGA-F5-6811 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-F5-6812        TCGA-G5-6233        TCGA-G5-6235        TCGA-G5-6572 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-G5-6641 
"2P LOSS WILD-TYPE" 

Clustering(45) Variable = 2Q LOSS MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  2Q LOSS MUTATED        2      2      1
  2Q LOSS WILD-TYPE     23     20     21
D45V1, multiclass
        clus
vv       2Q LOSS MUTATED 2Q LOSS WILD-TYPE
  CLUS_1               2                23
  CLUS_2               2                20
  CLUS_3               1                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 CLUS_8
  2Q LOSS MUTATED        0      3      1      1      0      0      0      0
  2Q LOSS WILD-TYPE      6     10     12      8      8      9      8      3
D45V2, multiclass
        clus
vv       2Q LOSS MUTATED 2Q LOSS WILD-TYPE
  CLUS_1               0                 6
  CLUS_2               3                10
  CLUS_3               1                12
  CLUS_4               1                 8
  CLUS_5               0                 8
  CLUS_6               0                 9
  CLUS_7               0                 8
  CLUS_8               0                 3
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  2Q LOSS MUTATED        0      3      1      2
  2Q LOSS WILD-TYPE     66     29     30     34
D45V3, multiclass
        clus
vv       2Q LOSS MUTATED 2Q LOSS WILD-TYPE
  CLUS_1               0                66
  CLUS_2               3                29
  CLUS_3               1                30
  CLUS_4               2                34
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  2Q LOSS MUTATED        0      1      0
  2Q LOSS WILD-TYPE     28     38     29
D45V4, multiclass
[1] "Remove cluster labels:" "2Q LOSS MUTATED"       
clus
  2Q LOSS MUTATED 2Q LOSS WILD-TYPE 
                1                95 
       TCGA-AF-2687        TCGA-AF-2690        TCGA-AF-2693        TCGA-AF-3911 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-AF-4110        TCGA-AF-6136        TCGA-AF-6655        TCGA-AF-6672 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-AF-A56K        TCGA-AF-A56L        TCGA-AF-A56N        TCGA-AG-3591 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-AG-3592        TCGA-AG-3725        TCGA-AG-3731        TCGA-AG-3732 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-AG-3742        TCGA-AG-4021        TCGA-AG-4022        TCGA-AG-A01W 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-AG-A01Y        TCGA-AG-A020        TCGA-AG-A026        TCGA-AG-A02N 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-AH-6544        TCGA-AH-6547        TCGA-AH-6643        TCGA-AH-6644 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-AH-6897        TCGA-AH-6903        TCGA-BM-6198        TCGA-CI-6619 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-CI-6620        TCGA-CI-6621        TCGA-CI-6622        TCGA-CI-6623 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-CI-6624        TCGA-CL-4957        TCGA-CL-5917        TCGA-CL-5918 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-DC-4745        TCGA-DC-4749        TCGA-DC-5337        TCGA-DC-5869 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-DC-6154        TCGA-DC-6155        TCGA-DC-6156        TCGA-DC-6157 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-DC-6158        TCGA-DC-6160        TCGA-DC-6681        TCGA-DC-6682 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-DC-6683        TCGA-DT-5265        TCGA-DY-A0XA        TCGA-DY-A1DC 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-DY-A1DD        TCGA-DY-A1DE        TCGA-DY-A1DF        TCGA-DY-A1DG 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-DY-A1H8        TCGA-EF-5830        TCGA-EF-5831        TCGA-EI-6506 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-EI-6507        TCGA-EI-6508        TCGA-EI-6509        TCGA-EI-6510 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-EI-6511        TCGA-EI-6512        TCGA-EI-6513        TCGA-EI-6514 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-EI-6881        TCGA-EI-6882        TCGA-EI-6883        TCGA-EI-6884 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-EI-6885        TCGA-EI-6917        TCGA-EI-7002        TCGA-EI-7004 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-F5-6464        TCGA-F5-6465        TCGA-F5-6702        TCGA-F5-6810 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-F5-6811        TCGA-F5-6812        TCGA-F5-6813        TCGA-F5-6814 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-F5-6861        TCGA-F5-6863        TCGA-F5-6864        TCGA-G5-6233 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-G5-6235        TCGA-G5-6572        TCGA-G5-6641 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  2Q LOSS MUTATED        0      2      2      1      0
  2Q LOSS WILD-TYPE     42     25     23     29      3
D45V5, multiclass
        clus
vv       2Q LOSS MUTATED 2Q LOSS WILD-TYPE
  CLUS_1               0                42
  CLUS_2               2                25
  CLUS_3               2                23
  CLUS_4               1                29
  CLUS_5               0                 3
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  2Q LOSS MUTATED        1      2      1      1      0      0
  2Q LOSS WILD-TYPE     19     18     23     17     29     16
D45V6, multiclass
        clus
vv       2Q LOSS MUTATED 2Q LOSS WILD-TYPE
  CLUS_1               1                19
  CLUS_2               2                18
  CLUS_3               1                23
  CLUS_4               1                17
  CLUS_5               0                29
  CLUS_6               0                16
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  2Q LOSS MUTATED        1      0      1      0      4
  2Q LOSS WILD-TYPE     28     14     32     28     56
D45V7, multiclass
        clus
vv       2Q LOSS MUTATED 2Q LOSS WILD-TYPE
  CLUS_1               1                28
  CLUS_2               0                14
  CLUS_3               1                32
  CLUS_4               0                28
  CLUS_5               4                56
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  2Q LOSS MUTATED        1      0      0      0      2      3      0
  2Q LOSS WILD-TYPE     26     36     12     19     30     15     20
D45V8, multiclass
        clus
vv       2Q LOSS MUTATED 2Q LOSS WILD-TYPE
  CLUS_1               1                26
  CLUS_2               0                36
  CLUS_3               0                12
  CLUS_4               0                19
  CLUS_5               2                30
  CLUS_6               3                15
  CLUS_7               0                20
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  2Q LOSS MUTATED        1      0      0      1      3
  2Q LOSS WILD-TYPE     17     42     17      7     53
D45V9, multiclass
        clus
vv       2Q LOSS MUTATED 2Q LOSS WILD-TYPE
  CLUS_1               1                17
  CLUS_2               0                42
  CLUS_3               0                17
  CLUS_4               1                 7
  CLUS_5               3                53
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  2Q LOSS MUTATED        1      1      3
  2Q LOSS WILD-TYPE     21     62     53
D45V10, multiclass
        clus
vv       2Q LOSS MUTATED 2Q LOSS WILD-TYPE
  CLUS_1               1                21
  CLUS_2               1                62
  CLUS_3               3                53
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  2Q LOSS MUTATED        0      1      0      0
  2Q LOSS WILD-TYPE      9     13     14     13
D45V11, multiclass
[1] "Remove cluster labels:" "2Q LOSS MUTATED"       
clus
  2Q LOSS MUTATED 2Q LOSS WILD-TYPE 
                1                49 
       TCGA-AF-2687        TCGA-AF-3911        TCGA-AF-4110        TCGA-AF-6655 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-AF-6672        TCGA-AG-3725        TCGA-AG-3731        TCGA-AG-3732 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-AG-4021        TCGA-AG-4022        TCGA-AH-6544        TCGA-AH-6547 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-AH-6643        TCGA-BM-6198        TCGA-CI-6619        TCGA-CI-6620 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-CI-6621        TCGA-CI-6624        TCGA-CL-5918        TCGA-DC-4749 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-DC-5337        TCGA-DC-5869        TCGA-DC-6156        TCGA-DC-6157 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-DC-6158        TCGA-DC-6681        TCGA-DC-6682        TCGA-DC-6683 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-DY-A1DC        TCGA-DY-A1DD        TCGA-DY-A1DE        TCGA-DY-A1DG 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-DY-A1H8        TCGA-EI-6506        TCGA-EI-6507        TCGA-EI-6509 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-EI-6511        TCGA-EI-6513        TCGA-EI-6514        TCGA-F5-6464 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-F5-6465        TCGA-F5-6702        TCGA-F5-6810        TCGA-F5-6811 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-F5-6812        TCGA-G5-6233        TCGA-G5-6235        TCGA-G5-6572 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-G5-6641 
"2Q LOSS WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  2Q LOSS MUTATED        0      1      0      0      0
  2Q LOSS WILD-TYPE      9     12     18      5      5
D45V12, multiclass
[1] "Remove cluster labels:" "2Q LOSS MUTATED"       
clus
  2Q LOSS MUTATED 2Q LOSS WILD-TYPE 
                1                49 
       TCGA-AF-2687        TCGA-AF-3911        TCGA-AF-4110        TCGA-AF-6655 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-AF-6672        TCGA-AG-3725        TCGA-AG-3731        TCGA-AG-3732 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-AG-4021        TCGA-AG-4022        TCGA-AH-6544        TCGA-AH-6547 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-AH-6643        TCGA-BM-6198        TCGA-CI-6619        TCGA-CI-6620 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-CI-6621        TCGA-CI-6624        TCGA-CL-5918        TCGA-DC-4749 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-DC-5337        TCGA-DC-5869        TCGA-DC-6156        TCGA-DC-6157 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-DC-6158        TCGA-DC-6681        TCGA-DC-6682        TCGA-DC-6683 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-DY-A1DC        TCGA-DY-A1DD        TCGA-DY-A1DE        TCGA-DY-A1DG 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-DY-A1H8        TCGA-EI-6506        TCGA-EI-6507        TCGA-EI-6509 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-EI-6511        TCGA-EI-6513        TCGA-EI-6514        TCGA-F5-6464 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-F5-6465        TCGA-F5-6702        TCGA-F5-6810        TCGA-F5-6811 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-F5-6812        TCGA-G5-6233        TCGA-G5-6235        TCGA-G5-6572 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-G5-6641 
"2Q LOSS WILD-TYPE" 

Clustering(46) Variable = 3P LOSS MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  3P LOSS MUTATED        2      2      1
  3P LOSS WILD-TYPE     23     20     21
D46V1, multiclass
        clus
vv       3P LOSS MUTATED 3P LOSS WILD-TYPE
  CLUS_1               2                23
  CLUS_2               2                20
  CLUS_3               1                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 CLUS_8
  3P LOSS MUTATED        0      3      0      0      1      1      0      0
  3P LOSS WILD-TYPE      6     10     13      9      7      8      8      3
D46V2, multiclass
        clus
vv       3P LOSS MUTATED 3P LOSS WILD-TYPE
  CLUS_1               0                 6
  CLUS_2               3                10
  CLUS_3               0                13
  CLUS_4               0                 9
  CLUS_5               1                 7
  CLUS_6               1                 8
  CLUS_7               0                 8
  CLUS_8               0                 3
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  3P LOSS MUTATED        7      4      0      4
  3P LOSS WILD-TYPE     59     28     31     32
D46V3, multiclass
        clus
vv       3P LOSS MUTATED 3P LOSS WILD-TYPE
  CLUS_1               7                59
  CLUS_2               4                28
  CLUS_3               0                31
  CLUS_4               4                32
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  3P LOSS MUTATED        2      4      4
  3P LOSS WILD-TYPE     26     35     25
D46V4, multiclass
        clus
vv       3P LOSS MUTATED 3P LOSS WILD-TYPE
  CLUS_1               2                26
  CLUS_2               4                35
  CLUS_3               4                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
  3P LOSS MUTATED        3      2      6      2      0
  3P LOSS WILD-TYPE     39     25     19     28      3
D46V5, multiclass
        clus
vv       3P LOSS MUTATED 3P LOSS WILD-TYPE
  CLUS_1               3                39
  CLUS_2               2                25
  CLUS_3               6                19
  CLUS_4               2                28
  CLUS_5               0                 3
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  3P LOSS MUTATED        2      1      1      5      2      2
  3P LOSS WILD-TYPE     18     19     23     13     27     14
D46V6, multiclass
        clus
vv       3P LOSS MUTATED 3P LOSS WILD-TYPE
  CLUS_1               2                18
  CLUS_2               1                19
  CLUS_3               1                23
  CLUS_4               5                13
  CLUS_5               2                27
  CLUS_6               2                14
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  3P LOSS MUTATED        3      1      6      0      5
  3P LOSS WILD-TYPE     26     13     27     28     55
D46V7, multiclass
        clus
vv       3P LOSS MUTATED 3P LOSS WILD-TYPE
  CLUS_1               3                26
  CLUS_2               1                13
  CLUS_3               6                27
  CLUS_4               0                28
  CLUS_5               5                55
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  3P LOSS MUTATED        3      5      2      0      2      2      1
  3P LOSS WILD-TYPE     24     31     10     19     30     16     19
D46V8, multiclass
        clus
vv       3P LOSS MUTATED 3P LOSS WILD-TYPE
  CLUS_1               3                24
  CLUS_2               5                31
  CLUS_3               2                10
  CLUS_4               0                19
  CLUS_5               2                30
  CLUS_6               2                16
  CLUS_7               1                19
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  3P LOSS MUTATED        2      6      1      2      4
  3P LOSS WILD-TYPE     16     36     16      6     52
D46V9, multiclass
        clus
vv       3P LOSS MUTATED 3P LOSS WILD-TYPE
  CLUS_1               2                16
  CLUS_2               6                36
  CLUS_3               1                16
  CLUS_4               2                 6
  CLUS_5               4                52
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  3P LOSS MUTATED        5      6      4
  3P LOSS WILD-TYPE     17     57     52
D46V10, multiclass
        clus
vv       3P LOSS MUTATED 3P LOSS WILD-TYPE
  CLUS_1               5                17
  CLUS_2               6                57
  CLUS_3               4                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 CLUS_4
  3P LOSS MUTATED        1      3      5      0
  3P LOSS WILD-TYPE      8     11      9     13
D46V11, multiclass
        clus
vv       3P LOSS MUTATED 3P LOSS WILD-TYPE
  CLUS_1               1                 8
  CLUS_2               3                11
  CLUS_3               5                 9
  CLUS_4               0                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
  3P LOSS MUTATED        5      1      3      0      0
  3P LOSS WILD-TYPE      4     12     15      5      5
D46V12, multiclass
        clus
vv       3P LOSS MUTATED 3P LOSS WILD-TYPE
  CLUS_1               5                 4
  CLUS_2               1                12
  CLUS_3               3                15
  CLUS_4               0                 5
  CLUS_5               0                 5
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(47) Variable = 3Q LOSS MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  3Q LOSS MUTATED        1      2      0
  3Q LOSS WILD-TYPE     24     20     22
D47V1, multiclass
        clus
vv       3Q LOSS MUTATED 3Q LOSS WILD-TYPE
  CLUS_1               1                24
  CLUS_2               2                20
  CLUS_3               0                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 CLUS_8
  3Q LOSS MUTATED        0      1      0      0      1      1      0      0
  3Q LOSS WILD-TYPE      6     12     13      9      7      8      8      3
D47V2, multiclass
        clus
vv       3Q LOSS MUTATED 3Q LOSS WILD-TYPE
  CLUS_1               0                 6
  CLUS_2               1                12
  CLUS_3               0                13
  CLUS_4               0                 9
  CLUS_5               1                 7
  CLUS_6               1                 8
  CLUS_7               0                 8
  CLUS_8               0                 3
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  3Q LOSS MUTATED        7      2      0      1
  3Q LOSS WILD-TYPE     59     30     31     35
D47V3, multiclass
        clus
vv       3Q LOSS MUTATED 3Q LOSS WILD-TYPE
  CLUS_1               7                59
  CLUS_2               2                30
  CLUS_3               0                31
  CLUS_4               1                35
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  3Q LOSS MUTATED        1      2      4
  3Q LOSS WILD-TYPE     27     37     25
D47V4, multiclass
        clus
vv       3Q LOSS MUTATED 3Q LOSS WILD-TYPE
  CLUS_1               1                27
  CLUS_2               2                37
  CLUS_3               4                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
  3Q LOSS MUTATED        1      2      4      1      0
  3Q LOSS WILD-TYPE     41     25     21     29      3
D47V5, multiclass
        clus
vv       3Q LOSS MUTATED 3Q LOSS WILD-TYPE
  CLUS_1               1                41
  CLUS_2               2                25
  CLUS_3               4                21
  CLUS_4               1                29
  CLUS_5               0                 3
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  3Q LOSS MUTATED        1      1      2      3      1      0
  3Q LOSS WILD-TYPE     19     19     22     15     28     16
D47V6, multiclass
        clus
vv       3Q LOSS MUTATED 3Q LOSS WILD-TYPE
  CLUS_1               1                19
  CLUS_2               1                19
  CLUS_3               2                22
  CLUS_4               3                15
  CLUS_5               1                28
  CLUS_6               0                16
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  3Q LOSS MUTATED        2      1      5      0      2
  3Q LOSS WILD-TYPE     27     13     28     28     58
D47V7, multiclass
        clus
vv       3Q LOSS MUTATED 3Q LOSS WILD-TYPE
  CLUS_1               2                27
  CLUS_2               1                13
  CLUS_3               5                28
  CLUS_4               0                28
  CLUS_5               2                58
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  3Q LOSS MUTATED        1      4      2      0      1      2      0
  3Q LOSS WILD-TYPE     26     32     10     19     31     16     20
D47V8, multiclass
        clus
vv       3Q LOSS MUTATED 3Q LOSS WILD-TYPE
  CLUS_1               1                26
  CLUS_2               4                32
  CLUS_3               2                10
  CLUS_4               0                19
  CLUS_5               1                31
  CLUS_6               2                16
  CLUS_7               0                20
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  3Q LOSS MUTATED        2      4      1      1      2
  3Q LOSS WILD-TYPE     16     38     16      7     54
D47V9, multiclass
        clus
vv       3Q LOSS MUTATED 3Q LOSS WILD-TYPE
  CLUS_1               2                16
  CLUS_2               4                38
  CLUS_3               1                16
  CLUS_4               1                 7
  CLUS_5               2                54
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  3Q LOSS MUTATED        5      4      1
  3Q LOSS WILD-TYPE     17     59     55
D47V10, multiclass
        clus
vv       3Q LOSS MUTATED 3Q LOSS WILD-TYPE
  CLUS_1               5                17
  CLUS_2               4                59
  CLUS_3               1                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 CLUS_4
  3Q LOSS MUTATED        1      2      3      0
  3Q LOSS WILD-TYPE      8     12     11     13
D47V11, multiclass
        clus
vv       3Q LOSS MUTATED 3Q LOSS WILD-TYPE
  CLUS_1               1                 8
  CLUS_2               2                12
  CLUS_3               3                11
  CLUS_4               0                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
  3Q LOSS MUTATED        3      1      2      0      0
  3Q LOSS WILD-TYPE      6     12     16      5      5
D47V12, multiclass
        clus
vv       3Q LOSS MUTATED 3Q LOSS WILD-TYPE
  CLUS_1               3                 6
  CLUS_2               1                12
  CLUS_3               2                16
  CLUS_4               0                 5
  CLUS_5               0                 5
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(48) Variable = 4P LOSS MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  4P LOSS MUTATED        7      9      8
  4P LOSS WILD-TYPE     18     13     14
D48V1, multiclass
        clus
vv       4P LOSS MUTATED 4P LOSS WILD-TYPE
  CLUS_1               7                18
  CLUS_2               9                13
  CLUS_3               8                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 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  4P LOSS MUTATED        1      6      4      5      4      1      3      0
  4P LOSS WILD-TYPE      5      7      9      4      4      8      5      3
D48V2, multiclass
        clus
vv       4P LOSS MUTATED 4P LOSS WILD-TYPE
  CLUS_1               1                 5
  CLUS_2               6                 7
  CLUS_3               4                 9
  CLUS_4               5                 4
  CLUS_5               4                 4
  CLUS_6               1                 8
  CLUS_7               3                 5
  CLUS_8               0                 3
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  4P LOSS MUTATED       15     20     12     12
  4P LOSS WILD-TYPE     51     12     19     24
D48V3, multiclass
        clus
vv       4P LOSS MUTATED 4P LOSS WILD-TYPE
  CLUS_1              15                51
  CLUS_2              20                12
  CLUS_3              12                19
  CLUS_4              12                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
  4P LOSS MUTATED       16     10      9
  4P LOSS WILD-TYPE     12     29     20
D48V4, multiclass
        clus
vv       4P LOSS MUTATED 4P LOSS WILD-TYPE
  CLUS_1              16                12
  CLUS_2              10                29
  CLUS_3               9                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
  4P LOSS MUTATED       15      5      9     12      1
  4P LOSS WILD-TYPE     27     22     16     18      2
D48V5, multiclass
        clus
vv       4P LOSS MUTATED 4P LOSS WILD-TYPE
  CLUS_1              15                27
  CLUS_2               5                22
  CLUS_3               9                16
  CLUS_4              12                18
  CLUS_5               1                 2
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  4P LOSS MUTATED        6      5      9      7      6      9
  4P LOSS WILD-TYPE     14     15     15     11     23      7
D48V6, multiclass
        clus
vv       4P LOSS MUTATED 4P LOSS WILD-TYPE
  CLUS_1               6                14
  CLUS_2               5                15
  CLUS_3               9                15
  CLUS_4               7                11
  CLUS_5               6                23
  CLUS_6               9                 7
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  4P LOSS MUTATED       13      4     11      8     23
  4P LOSS WILD-TYPE     16     10     22     20     37
D48V7, multiclass
        clus
vv       4P LOSS MUTATED 4P LOSS WILD-TYPE
  CLUS_1              13                16
  CLUS_2               4                10
  CLUS_3              11                22
  CLUS_4               8                20
  CLUS_5              23                37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  4P LOSS MUTATED       13     13      5      4     13      5      6
  4P LOSS WILD-TYPE     14     23      7     15     19     13     14
D48V8, multiclass
        clus
vv       4P LOSS MUTATED 4P LOSS WILD-TYPE
  CLUS_1              13                14
  CLUS_2              13                23
  CLUS_3               5                 7
  CLUS_4               4                15
  CLUS_5              13                19
  CLUS_6               5                13
  CLUS_7               6                14
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  4P LOSS MUTATED        8     16      7      3     20
  4P LOSS WILD-TYPE     10     26     10      5     36
D48V9, multiclass
        clus
vv       4P LOSS MUTATED 4P LOSS WILD-TYPE
  CLUS_1               8                10
  CLUS_2              16                26
  CLUS_3               7                10
  CLUS_4               3                 5
  CLUS_5              20                36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  4P LOSS MUTATED       13     21     20
  4P LOSS WILD-TYPE      9     42     36
D48V10, multiclass
        clus
vv       4P LOSS MUTATED 4P LOSS WILD-TYPE
  CLUS_1              13                 9
  CLUS_2              21                42
  CLUS_3              20                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
  4P LOSS MUTATED        7      6      5      5
  4P LOSS WILD-TYPE      2      8      9      8
D48V11, multiclass
        clus
vv       4P LOSS MUTATED 4P LOSS WILD-TYPE
  CLUS_1               7                 2
  CLUS_2               6                 8
  CLUS_3               5                 9
  CLUS_4               5                 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
  4P LOSS MUTATED        7      5      7      3      1
  4P LOSS WILD-TYPE      2      8     11      2      4
D48V12, multiclass
        clus
vv       4P LOSS MUTATED 4P LOSS WILD-TYPE
  CLUS_1               7                 2
  CLUS_2               5                 8
  CLUS_3               7                11
  CLUS_4               3                 2
  CLUS_5               1                 4
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(49) Variable = 4Q LOSS MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  4Q LOSS MUTATED        8      9      8
  4Q LOSS WILD-TYPE     17     13     14
D49V1, multiclass
        clus
vv       4Q LOSS MUTATED 4Q LOSS WILD-TYPE
  CLUS_1               8                17
  CLUS_2               9                13
  CLUS_3               8                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 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  4Q LOSS MUTATED        1      6      5      6      3      1      3      0
  4Q LOSS WILD-TYPE      5      7      8      3      5      8      5      3
D49V2, multiclass
        clus
vv       4Q LOSS MUTATED 4Q LOSS WILD-TYPE
  CLUS_1               1                 5
  CLUS_2               6                 7
  CLUS_3               5                 8
  CLUS_4               6                 3
  CLUS_5               3                 5
  CLUS_6               1                 8
  CLUS_7               3                 5
  CLUS_8               0                 3
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  4Q LOSS MUTATED       16     21     14     15
  4Q LOSS WILD-TYPE     50     11     17     21
D49V3, multiclass
        clus
vv       4Q LOSS MUTATED 4Q LOSS WILD-TYPE
  CLUS_1              16                50
  CLUS_2              21                11
  CLUS_3              14                17
  CLUS_4              15                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
  4Q LOSS MUTATED       17     16      8
  4Q LOSS WILD-TYPE     11     23     21
D49V4, multiclass
        clus
vv       4Q LOSS MUTATED 4Q LOSS WILD-TYPE
  CLUS_1              17                11
  CLUS_2              16                23
  CLUS_3               8                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
  4Q LOSS MUTATED       14      9      9     15      0
  4Q LOSS WILD-TYPE     28     18     16     15      3
D49V5, multiclass
        clus
vv       4Q LOSS MUTATED 4Q LOSS WILD-TYPE
  CLUS_1              14                28
  CLUS_2               9                18
  CLUS_3               9                16
  CLUS_4              15                15
  CLUS_5               0                 3
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  4Q LOSS MUTATED        6      5     12      8      6     10
  4Q LOSS WILD-TYPE     14     15     12     10     23      6
D49V6, multiclass
        clus
vv       4Q LOSS MUTATED 4Q LOSS WILD-TYPE
  CLUS_1               6                14
  CLUS_2               5                15
  CLUS_3              12                12
  CLUS_4               8                10
  CLUS_5               6                23
  CLUS_6              10                 6
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  4Q LOSS MUTATED       14      6     12      9     25
  4Q LOSS WILD-TYPE     15      8     21     19     35
D49V7, multiclass
        clus
vv       4Q LOSS MUTATED 4Q LOSS WILD-TYPE
  CLUS_1              14                15
  CLUS_2               6                 8
  CLUS_3              12                21
  CLUS_4               9                19
  CLUS_5              25                35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  4Q LOSS MUTATED       14     14      5      7     16      5      5
  4Q LOSS WILD-TYPE     13     22      7     12     16     13     15
D49V8, multiclass
        clus
vv       4Q LOSS MUTATED 4Q LOSS WILD-TYPE
  CLUS_1              14                13
  CLUS_2              14                22
  CLUS_3               5                 7
  CLUS_4               7                12
  CLUS_5              16                16
  CLUS_6               5                13
  CLUS_7               5                15
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  4Q LOSS MUTATED        9     20      6      4     22
  4Q LOSS WILD-TYPE      9     22     11      4     34
D49V9, multiclass
        clus
vv       4Q LOSS MUTATED 4Q LOSS WILD-TYPE
  CLUS_1               9                 9
  CLUS_2              20                22
  CLUS_3               6                11
  CLUS_4               4                 4
  CLUS_5              22                34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  4Q LOSS MUTATED       13     27     21
  4Q LOSS WILD-TYPE      9     36     35
D49V10, multiclass
        clus
vv       4Q LOSS MUTATED 4Q LOSS WILD-TYPE
  CLUS_1              13                 9
  CLUS_2              27                36
  CLUS_3              21                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
  4Q LOSS MUTATED        7      7      7      7
  4Q LOSS WILD-TYPE      2      7      7      6
D49V11, multiclass
        clus
vv       4Q LOSS MUTATED 4Q LOSS WILD-TYPE
  CLUS_1               7                 2
  CLUS_2               7                 7
  CLUS_3               7                 7
  CLUS_4               7                 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
  4Q LOSS MUTATED        6      6     10      3      3
  4Q LOSS WILD-TYPE      3      7      8      2      2
D49V12, multiclass
        clus
vv       4Q LOSS MUTATED 4Q LOSS WILD-TYPE
  CLUS_1               6                 3
  CLUS_2               6                 7
  CLUS_3              10                 8
  CLUS_4               3                 2
  CLUS_5               3                 2
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(50) Variable = 5P LOSS MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  5P LOSS MUTATED        1      4      4
  5P LOSS WILD-TYPE     24     18     18
D50V1, multiclass
        clus
vv       5P LOSS MUTATED 5P LOSS WILD-TYPE
  CLUS_1               1                24
  CLUS_2               4                18
  CLUS_3               4                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 CLUS_8
  5P LOSS MUTATED        0      2      1      3      1      1      1      0
  5P LOSS WILD-TYPE      6     11     12      6      7      8      7      3
D50V2, multiclass
        clus
vv       5P LOSS MUTATED 5P LOSS WILD-TYPE
  CLUS_1               0                 6
  CLUS_2               2                11
  CLUS_3               1                12
  CLUS_4               3                 6
  CLUS_5               1                 7
  CLUS_6               1                 8
  CLUS_7               1                 7
  CLUS_8               0                 3
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  5P LOSS MUTATED       12      8      4      2
  5P LOSS WILD-TYPE     54     24     27     34
D50V3, multiclass
        clus
vv       5P LOSS MUTATED 5P LOSS WILD-TYPE
  CLUS_1              12                54
  CLUS_2               8                24
  CLUS_3               4                27
  CLUS_4               2                34
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  5P LOSS MUTATED        5      4      8
  5P LOSS WILD-TYPE     23     35     21
D50V4, multiclass
        clus
vv       5P LOSS MUTATED 5P LOSS WILD-TYPE
  CLUS_1               5                23
  CLUS_2               4                35
  CLUS_3               8                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
  5P LOSS MUTATED        9      2      3      6      0
  5P LOSS WILD-TYPE     33     25     22     24      3
D50V5, multiclass
        clus
vv       5P LOSS MUTATED 5P LOSS WILD-TYPE
  CLUS_1               9                33
  CLUS_2               2                25
  CLUS_3               3                22
  CLUS_4               6                24
  CLUS_5               0                 3
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  5P LOSS MUTATED        3      2      2      4      5      4
  5P LOSS WILD-TYPE     17     18     22     14     24     12
D50V6, multiclass
        clus
vv       5P LOSS MUTATED 5P LOSS WILD-TYPE
  CLUS_1               3                17
  CLUS_2               2                18
  CLUS_3               2                22
  CLUS_4               4                14
  CLUS_5               5                24
  CLUS_6               4                12
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  5P LOSS MUTATED        4      3      6      3     10
  5P LOSS WILD-TYPE     25     11     27     25     50
D50V7, multiclass
        clus
vv       5P LOSS MUTATED 5P LOSS WILD-TYPE
  CLUS_1               4                25
  CLUS_2               3                11
  CLUS_3               6                27
  CLUS_4               3                25
  CLUS_5              10                50
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  5P LOSS MUTATED        6     10      0      1      6      1      2
  5P LOSS WILD-TYPE     21     26     12     18     26     17     18
D50V8, multiclass
        clus
vv       5P LOSS MUTATED 5P LOSS WILD-TYPE
  CLUS_1               6                21
  CLUS_2              10                26
  CLUS_3               0                12
  CLUS_4               1                18
  CLUS_5               6                26
  CLUS_6               1                17
  CLUS_7               2                18
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  5P LOSS MUTATED        2      7      4      0      9
  5P LOSS WILD-TYPE     16     35     13      8     47
D50V9, multiclass
        clus
vv       5P LOSS MUTATED 5P LOSS WILD-TYPE
  CLUS_1               2                16
  CLUS_2               7                35
  CLUS_3               4                13
  CLUS_4               0                 8
  CLUS_5               9                47
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  5P LOSS MUTATED        5      9      8
  5P LOSS WILD-TYPE     17     54     48
D50V10, multiclass
        clus
vv       5P LOSS MUTATED 5P LOSS WILD-TYPE
  CLUS_1               5                17
  CLUS_2               9                54
  CLUS_3               8                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 CLUS_4
  5P LOSS MUTATED        4      1      2      3
  5P LOSS WILD-TYPE      5     13     12     10
D50V11, multiclass
        clus
vv       5P LOSS MUTATED 5P LOSS WILD-TYPE
  CLUS_1               4                 5
  CLUS_2               1                13
  CLUS_3               2                12
  CLUS_4               3                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
  5P LOSS MUTATED        4      1      4      1      0
  5P LOSS WILD-TYPE      5     12     14      4      5
D50V12, multiclass
        clus
vv       5P LOSS MUTATED 5P LOSS WILD-TYPE
  CLUS_1               4                 5
  CLUS_2               1                12
  CLUS_3               4                14
  CLUS_4               1                 4
  CLUS_5               0                 5
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(51) Variable = 5Q LOSS MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  5Q LOSS MUTATED        2      6      7
  5Q LOSS WILD-TYPE     23     16     15
D51V1, multiclass
        clus
vv       5Q LOSS MUTATED 5Q LOSS WILD-TYPE
  CLUS_1               2                23
  CLUS_2               6                16
  CLUS_3               7                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 CLUS_8
  5Q LOSS MUTATED        0      3      1      6      3      0      2      0
  5Q LOSS WILD-TYPE      6     10     12      3      5      9      6      3
D51V2, multiclass
        clus
vv       5Q LOSS MUTATED 5Q LOSS WILD-TYPE
  CLUS_1               0                 6
  CLUS_2               3                10
  CLUS_3               1                12
  CLUS_4               6                 3
  CLUS_5               3                 5
  CLUS_6               0                 9
  CLUS_7               2                 6
  CLUS_8               0                 3
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  5Q LOSS MUTATED       12     12      8      8
  5Q LOSS WILD-TYPE     54     20     23     28
D51V3, multiclass
        clus
vv       5Q LOSS MUTATED 5Q LOSS WILD-TYPE
  CLUS_1              12                54
  CLUS_2              12                20
  CLUS_3               8                23
  CLUS_4               8                28
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  5Q LOSS MUTATED       11      7      8
  5Q LOSS WILD-TYPE     17     32     21
D51V4, multiclass
        clus
vv       5Q LOSS MUTATED 5Q LOSS WILD-TYPE
  CLUS_1              11                17
  CLUS_2               7                32
  CLUS_3               8                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
  5Q LOSS MUTATED       10      6      5     10      0
  5Q LOSS WILD-TYPE     32     21     20     20      3
D51V5, multiclass
        clus
vv       5Q LOSS MUTATED 5Q LOSS WILD-TYPE
  CLUS_1              10                32
  CLUS_2               6                21
  CLUS_3               5                20
  CLUS_4              10                20
  CLUS_5               0                 3
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  5Q LOSS MUTATED        4      4      6      6      6      5
  5Q LOSS WILD-TYPE     16     16     18     12     23     11
D51V6, multiclass
        clus
vv       5Q LOSS MUTATED 5Q LOSS WILD-TYPE
  CLUS_1               4                16
  CLUS_2               4                16
  CLUS_3               6                18
  CLUS_4               6                12
  CLUS_5               6                23
  CLUS_6               5                11
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  5Q LOSS MUTATED        7      3      9      5     16
  5Q LOSS WILD-TYPE     22     11     24     23     44
D51V7, multiclass
        clus
vv       5Q LOSS MUTATED 5Q LOSS WILD-TYPE
  CLUS_1               7                22
  CLUS_2               3                11
  CLUS_3               9                24
  CLUS_4               5                23
  CLUS_5              16                44
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  5Q LOSS MUTATED        9      9      4      2     11      3      2
  5Q LOSS WILD-TYPE     18     27      8     17     21     15     18
D51V8, multiclass
        clus
vv       5Q LOSS MUTATED 5Q LOSS WILD-TYPE
  CLUS_1               9                18
  CLUS_2               9                27
  CLUS_3               4                 8
  CLUS_4               2                17
  CLUS_5              11                21
  CLUS_6               3                15
  CLUS_7               2                18
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  5Q LOSS MUTATED        5     10      6      2     14
  5Q LOSS WILD-TYPE     13     32     11      6     42
D51V9, multiclass
        clus
vv       5Q LOSS MUTATED 5Q LOSS WILD-TYPE
  CLUS_1               5                13
  CLUS_2              10                32
  CLUS_3               6                11
  CLUS_4               2                 6
  CLUS_5              14                42
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  5Q LOSS MUTATED        9     16     12
  5Q LOSS WILD-TYPE     13     47     44
D51V10, multiclass
        clus
vv       5Q LOSS MUTATED 5Q LOSS WILD-TYPE
  CLUS_1               9                13
  CLUS_2              16                47
  CLUS_3              12                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 CLUS_4
  5Q LOSS MUTATED        6      3      3      5
  5Q LOSS WILD-TYPE      3     11     11      8
D51V11, multiclass
        clus
vv       5Q LOSS MUTATED 5Q LOSS WILD-TYPE
  CLUS_1               6                 3
  CLUS_2               3                11
  CLUS_3               3                11
  CLUS_4               5                 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
  5Q LOSS MUTATED        6      3      5      2      1
  5Q LOSS WILD-TYPE      3     10     13      3      4
D51V12, multiclass
        clus
vv       5Q LOSS MUTATED 5Q LOSS WILD-TYPE
  CLUS_1               6                 3
  CLUS_2               3                10
  CLUS_3               5                13
  CLUS_4               2                 3
  CLUS_5               1                 4
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(52) Variable = 6P LOSS MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  6P LOSS MUTATED        4      2      1
  6P LOSS WILD-TYPE     21     20     21
D52V1, multiclass
        clus
vv       6P LOSS MUTATED 6P LOSS WILD-TYPE
  CLUS_1               4                21
  CLUS_2               2                20
  CLUS_3               1                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 CLUS_8
  6P LOSS MUTATED        1      2      2      0      1      1      0      0
  6P LOSS WILD-TYPE      5     11     11      9      7      8      8      3
D52V2, multiclass
        clus
vv       6P LOSS MUTATED 6P LOSS WILD-TYPE
  CLUS_1               1                 5
  CLUS_2               2                11
  CLUS_3               2                11
  CLUS_4               0                 9
  CLUS_5               1                 7
  CLUS_6               1                 8
  CLUS_7               0                 8
  CLUS_8               0                 3
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  6P LOSS MUTATED        6      2      1      4
  6P LOSS WILD-TYPE     60     30     30     32
D52V3, multiclass
        clus
vv       6P LOSS MUTATED 6P LOSS WILD-TYPE
  CLUS_1               6                60
  CLUS_2               2                30
  CLUS_3               1                30
  CLUS_4               4                32
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  6P LOSS MUTATED        0      2      4
  6P LOSS WILD-TYPE     28     37     25
D52V4, multiclass
        clus
vv       6P LOSS MUTATED 6P LOSS WILD-TYPE
  CLUS_1               0                28
  CLUS_2               2                37
  CLUS_3               4                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
  6P LOSS MUTATED        4      2      2      1      1
  6P LOSS WILD-TYPE     38     25     23     29      2
D52V5, multiclass
        clus
vv       6P LOSS MUTATED 6P LOSS WILD-TYPE
  CLUS_1               4                38
  CLUS_2               2                25
  CLUS_3               2                23
  CLUS_4               1                29
  CLUS_5               1                 2
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  6P LOSS MUTATED        2      1      2      2      3      0
  6P LOSS WILD-TYPE     18     19     22     16     26     16
D52V6, multiclass
        clus
vv       6P LOSS MUTATED 6P LOSS WILD-TYPE
  CLUS_1               2                18
  CLUS_2               1                19
  CLUS_3               2                22
  CLUS_4               2                16
  CLUS_5               3                26
  CLUS_6               0                16
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  6P LOSS MUTATED        3      0      3      1      6
  6P LOSS WILD-TYPE     26     14     30     27     54
D52V7, multiclass
        clus
vv       6P LOSS MUTATED 6P LOSS WILD-TYPE
  CLUS_1               3                26
  CLUS_2               0                14
  CLUS_3               3                30
  CLUS_4               1                27
  CLUS_5               6                54
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  6P LOSS MUTATED        4      1      1      0      2      3      2
  6P LOSS WILD-TYPE     23     35     11     19     30     15     18
D52V8, multiclass
        clus
vv       6P LOSS MUTATED 6P LOSS WILD-TYPE
  CLUS_1               4                23
  CLUS_2               1                35
  CLUS_3               1                11
  CLUS_4               0                19
  CLUS_5               2                30
  CLUS_6               3                15
  CLUS_7               2                18
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  6P LOSS MUTATED        2      3      0      0      7
  6P LOSS WILD-TYPE     16     39     17      8     49
D52V9, multiclass
        clus
vv       6P LOSS MUTATED 6P LOSS WILD-TYPE
  CLUS_1               2                16
  CLUS_2               3                39
  CLUS_3               0                17
  CLUS_4               0                 8
  CLUS_5               7                49
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  6P LOSS MUTATED        0      5      7
  6P LOSS WILD-TYPE     22     58     49
D52V10, multiclass
        clus
vv       6P LOSS MUTATED 6P LOSS WILD-TYPE
  CLUS_1               0                22
  CLUS_2               5                58
  CLUS_3               7                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 CLUS_4
  6P LOSS MUTATED        0      0      1      0
  6P LOSS WILD-TYPE      9     14     13     13
D52V11, multiclass
[1] "Remove cluster labels:" "6P LOSS MUTATED"       
clus
  6P LOSS MUTATED 6P LOSS WILD-TYPE 
                1                49 
       TCGA-AF-2687        TCGA-AF-3911        TCGA-AF-4110        TCGA-AF-6655 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-AF-6672        TCGA-AG-3725        TCGA-AG-3731        TCGA-AG-3732 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-AG-4021        TCGA-AG-4022        TCGA-AH-6544        TCGA-AH-6547 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-AH-6643        TCGA-BM-6198        TCGA-CI-6619        TCGA-CI-6620 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-CI-6621        TCGA-CI-6624        TCGA-CL-5918        TCGA-DC-4749 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-DC-5337        TCGA-DC-5869        TCGA-DC-6156        TCGA-DC-6157 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-DC-6158        TCGA-DC-6681        TCGA-DC-6683        TCGA-DY-A1DC 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-DY-A1DD        TCGA-DY-A1DE        TCGA-DY-A1DG        TCGA-DY-A1H8 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-EI-6506        TCGA-EI-6507        TCGA-EI-6509        TCGA-EI-6511 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-EI-6513        TCGA-EI-6514        TCGA-F5-6464        TCGA-F5-6465 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-F5-6571        TCGA-F5-6702        TCGA-F5-6810        TCGA-F5-6811 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-F5-6812        TCGA-G5-6233        TCGA-G5-6235        TCGA-G5-6572 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-G5-6641 
"6P LOSS WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  6P LOSS MUTATED        1      0      0      0      0
  6P LOSS WILD-TYPE      8     13     18      5      5
D52V12, multiclass
[1] "Remove cluster labels:" "6P LOSS MUTATED"       
clus
  6P LOSS MUTATED 6P LOSS WILD-TYPE 
                1                49 
       TCGA-AF-2687        TCGA-AF-3911        TCGA-AF-4110        TCGA-AF-6655 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-AF-6672        TCGA-AG-3725        TCGA-AG-3731        TCGA-AG-3732 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-AG-4021        TCGA-AG-4022        TCGA-AH-6544        TCGA-AH-6547 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-AH-6643        TCGA-BM-6198        TCGA-CI-6619        TCGA-CI-6620 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-CI-6621        TCGA-CI-6624        TCGA-CL-5918        TCGA-DC-4749 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-DC-5337        TCGA-DC-5869        TCGA-DC-6156        TCGA-DC-6157 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-DC-6158        TCGA-DC-6681        TCGA-DC-6683        TCGA-DY-A1DC 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-DY-A1DD        TCGA-DY-A1DE        TCGA-DY-A1DG        TCGA-DY-A1H8 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-EI-6506        TCGA-EI-6507        TCGA-EI-6509        TCGA-EI-6511 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-EI-6513        TCGA-EI-6514        TCGA-F5-6464        TCGA-F5-6465 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-F5-6571        TCGA-F5-6702        TCGA-F5-6810        TCGA-F5-6811 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-F5-6812        TCGA-G5-6233        TCGA-G5-6235        TCGA-G5-6572 
"6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" "6P LOSS WILD-TYPE" 
       TCGA-G5-6641 
"6P LOSS WILD-TYPE" 

Clustering(53) Variable = 6Q LOSS MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  6Q LOSS MUTATED        4      7      2
  6Q LOSS WILD-TYPE     21     15     20
D53V1, multiclass
        clus
vv       6Q LOSS MUTATED 6Q LOSS WILD-TYPE
  CLUS_1               4                21
  CLUS_2               7                15
  CLUS_3               2                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 CLUS_8
  6Q LOSS MUTATED        1      4      2      1      2      3      0      0
  6Q LOSS WILD-TYPE      5      9     11      8      6      6      8      3
D53V2, multiclass
        clus
vv       6Q LOSS MUTATED 6Q LOSS WILD-TYPE
  CLUS_1               1                 5
  CLUS_2               4                 9
  CLUS_3               2                11
  CLUS_4               1                 8
  CLUS_5               2                 6
  CLUS_6               3                 6
  CLUS_7               0                 8
  CLUS_8               0                 3
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  6Q LOSS MUTATED        9      4      1      8
  6Q LOSS WILD-TYPE     57     28     30     28
D53V3, multiclass
        clus
vv       6Q LOSS MUTATED 6Q LOSS WILD-TYPE
  CLUS_1               9                57
  CLUS_2               4                28
  CLUS_3               1                30
  CLUS_4               8                28
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  6Q LOSS MUTATED        1      4      4
  6Q LOSS WILD-TYPE     27     35     25
D53V4, multiclass
        clus
vv       6Q LOSS MUTATED 6Q LOSS WILD-TYPE
  CLUS_1               1                27
  CLUS_2               4                35
  CLUS_3               4                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
  6Q LOSS MUTATED        6      4      5      1      1
  6Q LOSS WILD-TYPE     36     23     20     29      2
D53V5, multiclass
        clus
vv       6Q LOSS MUTATED 6Q LOSS WILD-TYPE
  CLUS_1               6                36
  CLUS_2               4                23
  CLUS_3               5                20
  CLUS_4               1                29
  CLUS_5               1                 2
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  6Q LOSS MUTATED        4      2      3      3      4      1
  6Q LOSS WILD-TYPE     16     18     21     15     25     15
D53V6, multiclass
        clus
vv       6Q LOSS MUTATED 6Q LOSS WILD-TYPE
  CLUS_1               4                16
  CLUS_2               2                18
  CLUS_3               3                21
  CLUS_4               3                15
  CLUS_5               4                25
  CLUS_6               1                15
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  6Q LOSS MUTATED        2      1      7      1     11
  6Q LOSS WILD-TYPE     27     13     26     27     49
D53V7, multiclass
        clus
vv       6Q LOSS MUTATED 6Q LOSS WILD-TYPE
  CLUS_1               2                27
  CLUS_2               1                13
  CLUS_3               7                26
  CLUS_4               1                27
  CLUS_5              11                49
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  6Q LOSS MUTATED        3      5      1      0      3      5      5
  6Q LOSS WILD-TYPE     24     31     11     19     29     13     15
D53V8, multiclass
        clus
vv       6Q LOSS MUTATED 6Q LOSS WILD-TYPE
  CLUS_1               3                24
  CLUS_2               5                31
  CLUS_3               1                11
  CLUS_4               0                19
  CLUS_5               3                29
  CLUS_6               5                13
  CLUS_7               5                15
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  6Q LOSS MUTATED        2      6      0      1     12
  6Q LOSS WILD-TYPE     16     36     17      7     44
D53V9, multiclass
        clus
vv       6Q LOSS MUTATED 6Q LOSS WILD-TYPE
  CLUS_1               2                16
  CLUS_2               6                36
  CLUS_3               0                17
  CLUS_4               1                 7
  CLUS_5              12                44
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  6Q LOSS MUTATED        3      7     11
  6Q LOSS WILD-TYPE     19     56     45
D53V10, multiclass
        clus
vv       6Q LOSS MUTATED 6Q LOSS WILD-TYPE
  CLUS_1               3                19
  CLUS_2               7                56
  CLUS_3              11                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 CLUS_4
  6Q LOSS MUTATED        0      0      4      0
  6Q LOSS WILD-TYPE      9     14     10     13
D53V11, multiclass
        clus
vv       6Q LOSS MUTATED 6Q LOSS WILD-TYPE
  CLUS_1               0                 9
  CLUS_2               0                14
  CLUS_3               4                10
  CLUS_4               0                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
  6Q LOSS MUTATED        1      0      3      0      0
  6Q LOSS WILD-TYPE      8     13     15      5      5
D53V12, multiclass
        clus
vv       6Q LOSS MUTATED 6Q LOSS WILD-TYPE
  CLUS_1               1                 8
  CLUS_2               0                13
  CLUS_3               3                15
  CLUS_4               0                 5
  CLUS_5               0                 5
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(54) Variable = 7Q LOSS MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  7Q LOSS MUTATED        1      0      0
  7Q LOSS WILD-TYPE     24     22     22
D54V1, multiclass
[1] "Remove cluster labels:" "7Q LOSS MUTATED"       
clus
  7Q LOSS MUTATED 7Q LOSS WILD-TYPE 
                1                68 
       TCGA-AF-2689        TCGA-AF-2691        TCGA-AF-2692        TCGA-AF-3400 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-AF-3913        TCGA-AG-3574        TCGA-AG-3575        TCGA-AG-3578 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-AG-3580        TCGA-AG-3581        TCGA-AG-3582        TCGA-AG-3583 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-AG-3584        TCGA-AG-3586        TCGA-AG-3587        TCGA-AG-3593 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-AG-3594        TCGA-AG-3598        TCGA-AG-3599        TCGA-AG-3600 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-AG-3601        TCGA-AG-3602        TCGA-AG-3605        TCGA-AG-3608 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-AG-3609        TCGA-AG-3611        TCGA-AG-3612        TCGA-AG-3726 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-AG-3727        TCGA-AG-3728        TCGA-AG-3878        TCGA-AG-3881 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-AG-3882        TCGA-AG-3883        TCGA-AG-3885        TCGA-AG-3887 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-AG-3890        TCGA-AG-3892        TCGA-AG-3893        TCGA-AG-3894 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-AG-3896        TCGA-AG-3898        TCGA-AG-3901        TCGA-AG-3902 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-AG-3909        TCGA-AG-3999        TCGA-AG-4001        TCGA-AG-4005 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-AG-4007        TCGA-AG-4008        TCGA-AG-4015        TCGA-AG-A002 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-AG-A00C        TCGA-AG-A00H        TCGA-AG-A00Y        TCGA-AG-A011 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-AG-A014        TCGA-AG-A015        TCGA-AG-A016        TCGA-AG-A01J 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-AG-A01L        TCGA-AG-A01N        TCGA-AG-A023        TCGA-AG-A025 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-AG-A026        TCGA-AG-A02G        TCGA-AG-A02X        TCGA-AG-A032 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  7Q LOSS MUTATED        0      0      1      0      0      0      0      0
  7Q LOSS WILD-TYPE      6     13     12      9      8      9      8      3
D54V2, multiclass
[1] "Remove cluster labels:" "7Q LOSS MUTATED"       
clus
  7Q LOSS MUTATED 7Q LOSS WILD-TYPE 
                1                68 
       TCGA-AF-2689        TCGA-AF-2691        TCGA-AF-2692        TCGA-AF-3400 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-AF-3913        TCGA-AG-3574        TCGA-AG-3575        TCGA-AG-3578 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-AG-3580        TCGA-AG-3581        TCGA-AG-3582        TCGA-AG-3583 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-AG-3584        TCGA-AG-3586        TCGA-AG-3587        TCGA-AG-3593 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-AG-3594        TCGA-AG-3598        TCGA-AG-3599        TCGA-AG-3600 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-AG-3601        TCGA-AG-3602        TCGA-AG-3605        TCGA-AG-3608 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-AG-3609        TCGA-AG-3611        TCGA-AG-3612        TCGA-AG-3726 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-AG-3727        TCGA-AG-3728        TCGA-AG-3878        TCGA-AG-3881 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-AG-3882        TCGA-AG-3883        TCGA-AG-3885        TCGA-AG-3887 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-AG-3890        TCGA-AG-3892        TCGA-AG-3893        TCGA-AG-3894 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-AG-3896        TCGA-AG-3898        TCGA-AG-3901        TCGA-AG-3902 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-AG-3909        TCGA-AG-3999        TCGA-AG-4001        TCGA-AG-4005 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-AG-4007        TCGA-AG-4008        TCGA-AG-4015        TCGA-AG-A002 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-AG-A00C        TCGA-AG-A00H        TCGA-AG-A00Y        TCGA-AG-A011 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-AG-A014        TCGA-AG-A015        TCGA-AG-A016        TCGA-AG-A01J 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-AG-A01L        TCGA-AG-A01N        TCGA-AG-A023        TCGA-AG-A025 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-AG-A026        TCGA-AG-A02G        TCGA-AG-A02X        TCGA-AG-A032 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  7Q LOSS MUTATED        1      0      0      2
  7Q LOSS WILD-TYPE     65     32     31     34
D54V3, multiclass
        clus
vv       7Q LOSS MUTATED 7Q LOSS WILD-TYPE
  CLUS_1               1                65
  CLUS_2               0                32
  CLUS_3               0                31
  CLUS_4               2                34
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  7Q LOSS MUTATED        0      1      1
  7Q LOSS WILD-TYPE     28     38     28
D54V4, multiclass
[1] "Remove cluster labels:" "7Q LOSS MUTATED"       
clus
  7Q LOSS MUTATED 7Q LOSS WILD-TYPE 
                2                94 
       TCGA-AF-2687        TCGA-AF-2690        TCGA-AF-2693        TCGA-AF-3911 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-AF-4110        TCGA-AF-6136        TCGA-AF-6655        TCGA-AF-6672 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-AF-A56K        TCGA-AF-A56L        TCGA-AF-A56N        TCGA-AG-3592 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-AG-3725        TCGA-AG-3731        TCGA-AG-3732        TCGA-AG-3742 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-AG-4021        TCGA-AG-4022        TCGA-AG-A01W        TCGA-AG-A01Y 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-AG-A020        TCGA-AG-A026        TCGA-AG-A02N        TCGA-AH-6544 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-AH-6547        TCGA-AH-6643        TCGA-AH-6644        TCGA-AH-6897 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-AH-6903        TCGA-BM-6198        TCGA-CI-6619        TCGA-CI-6620 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-CI-6621        TCGA-CI-6622        TCGA-CI-6623        TCGA-CI-6624 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-CL-4957        TCGA-CL-5917        TCGA-CL-5918        TCGA-DC-4745 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-DC-4749        TCGA-DC-5337        TCGA-DC-5869        TCGA-DC-6154 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-DC-6155        TCGA-DC-6156        TCGA-DC-6157        TCGA-DC-6158 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-DC-6160        TCGA-DC-6681        TCGA-DC-6683        TCGA-DT-5265 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-DY-A0XA        TCGA-DY-A1DC        TCGA-DY-A1DD        TCGA-DY-A1DE 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-DY-A1DF        TCGA-DY-A1DG        TCGA-DY-A1H8        TCGA-EF-5830 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-EF-5831        TCGA-EI-6506        TCGA-EI-6507        TCGA-EI-6508 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-EI-6509        TCGA-EI-6510        TCGA-EI-6511        TCGA-EI-6512 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-EI-6513        TCGA-EI-6514        TCGA-EI-6881        TCGA-EI-6882 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-EI-6883        TCGA-EI-6884        TCGA-EI-6885        TCGA-EI-6917 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-EI-7002        TCGA-EI-7004        TCGA-F5-6464        TCGA-F5-6465 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-F5-6571        TCGA-F5-6702        TCGA-F5-6810        TCGA-F5-6811 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-F5-6812        TCGA-F5-6813        TCGA-F5-6814        TCGA-F5-6861 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-F5-6863        TCGA-F5-6864        TCGA-G5-6233        TCGA-G5-6235 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-G5-6572        TCGA-G5-6641 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  7Q LOSS MUTATED        2      0      0      1      0
  7Q LOSS WILD-TYPE     40     27     25     29      3
D54V5, multiclass
        clus
vv       7Q LOSS MUTATED 7Q LOSS WILD-TYPE
  CLUS_1               2                40
  CLUS_2               0                27
  CLUS_3               0                25
  CLUS_4               1                29
  CLUS_5               0                 3
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  7Q LOSS MUTATED        0      0      0      1      2      0
  7Q LOSS WILD-TYPE     20     20     24     17     27     16
D54V6, multiclass
        clus
vv       7Q LOSS MUTATED 7Q LOSS WILD-TYPE
  CLUS_1               0                20
  CLUS_2               0                20
  CLUS_3               0                24
  CLUS_4               1                17
  CLUS_5               2                27
  CLUS_6               0                16
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  7Q LOSS MUTATED        0      0      3      0      0
  7Q LOSS WILD-TYPE     29     14     30     28     60
D54V7, multiclass
        clus
vv       7Q LOSS MUTATED 7Q LOSS WILD-TYPE
  CLUS_1               0                29
  CLUS_2               0                14
  CLUS_3               3                30
  CLUS_4               0                28
  CLUS_5               0                60
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  7Q LOSS MUTATED        1      1      0      0      0      1      0
  7Q LOSS WILD-TYPE     26     35     12     19     32     17     20
D54V8, multiclass
        clus
vv       7Q LOSS MUTATED 7Q LOSS WILD-TYPE
  CLUS_1               1                26
  CLUS_2               1                35
  CLUS_3               0                12
  CLUS_4               0                19
  CLUS_5               0                32
  CLUS_6               1                17
  CLUS_7               0                20
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  7Q LOSS MUTATED        0      2      0      0      1
  7Q LOSS WILD-TYPE     18     40     17      8     55
D54V9, multiclass
        clus
vv       7Q LOSS MUTATED 7Q LOSS WILD-TYPE
  CLUS_1               0                18
  CLUS_2               2                40
  CLUS_3               0                17
  CLUS_4               0                 8
  CLUS_5               1                55
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  7Q LOSS MUTATED        0      2      1
  7Q LOSS WILD-TYPE     22     61     55
D54V10, multiclass
        clus
vv       7Q LOSS MUTATED 7Q LOSS WILD-TYPE
  CLUS_1               0                22
  CLUS_2               2                61
  CLUS_3               1                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 CLUS_4
  7Q LOSS MUTATED        0      0      1      0
  7Q LOSS WILD-TYPE      9     14     13     13
D54V11, multiclass
[1] "Remove cluster labels:" "7Q LOSS MUTATED"       
clus
  7Q LOSS MUTATED 7Q LOSS WILD-TYPE 
                1                49 
       TCGA-AF-2687        TCGA-AF-3911        TCGA-AF-4110        TCGA-AF-6655 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-AF-6672        TCGA-AG-3725        TCGA-AG-3731        TCGA-AG-3732 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-AG-4021        TCGA-AG-4022        TCGA-AH-6544        TCGA-AH-6547 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-AH-6643        TCGA-BM-6198        TCGA-CI-6619        TCGA-CI-6620 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-CI-6621        TCGA-CI-6624        TCGA-CL-5918        TCGA-DC-4749 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-DC-5337        TCGA-DC-5869        TCGA-DC-6156        TCGA-DC-6157 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-DC-6158        TCGA-DC-6681        TCGA-DC-6683        TCGA-DY-A1DC 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-DY-A1DD        TCGA-DY-A1DE        TCGA-DY-A1DG        TCGA-DY-A1H8 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-EI-6506        TCGA-EI-6507        TCGA-EI-6509        TCGA-EI-6511 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-EI-6513        TCGA-EI-6514        TCGA-F5-6464        TCGA-F5-6465 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-F5-6571        TCGA-F5-6702        TCGA-F5-6810        TCGA-F5-6811 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-F5-6812        TCGA-G5-6233        TCGA-G5-6235        TCGA-G5-6572 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-G5-6641 
"7Q LOSS WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  7Q LOSS MUTATED        1      0      0      0      0
  7Q LOSS WILD-TYPE      8     13     18      5      5
D54V12, multiclass
[1] "Remove cluster labels:" "7Q LOSS MUTATED"       
clus
  7Q LOSS MUTATED 7Q LOSS WILD-TYPE 
                1                49 
       TCGA-AF-2687        TCGA-AF-3911        TCGA-AF-4110        TCGA-AF-6655 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-AF-6672        TCGA-AG-3725        TCGA-AG-3731        TCGA-AG-3732 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-AG-4021        TCGA-AG-4022        TCGA-AH-6544        TCGA-AH-6547 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-AH-6643        TCGA-BM-6198        TCGA-CI-6619        TCGA-CI-6620 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-CI-6621        TCGA-CI-6624        TCGA-CL-5918        TCGA-DC-4749 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-DC-5337        TCGA-DC-5869        TCGA-DC-6156        TCGA-DC-6157 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-DC-6158        TCGA-DC-6681        TCGA-DC-6683        TCGA-DY-A1DC 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-DY-A1DD        TCGA-DY-A1DE        TCGA-DY-A1DG        TCGA-DY-A1H8 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-EI-6506        TCGA-EI-6507        TCGA-EI-6509        TCGA-EI-6511 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-EI-6513        TCGA-EI-6514        TCGA-F5-6464        TCGA-F5-6465 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-F5-6571        TCGA-F5-6702        TCGA-F5-6810        TCGA-F5-6811 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-F5-6812        TCGA-G5-6233        TCGA-G5-6235        TCGA-G5-6572 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-G5-6641 
"7Q LOSS WILD-TYPE" 

Clustering(55) Variable = 8P LOSS MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  8P LOSS MUTATED       12      8     15
  8P LOSS WILD-TYPE     13     14      7
D55V1, multiclass
        clus
vv       8P LOSS MUTATED 8P LOSS WILD-TYPE
  CLUS_1              12                13
  CLUS_2               8                14
  CLUS_3              15                 7
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  8P LOSS MUTATED        3      4      7      8      4      3      4      2
  8P LOSS WILD-TYPE      3      9      6      1      4      6      4      1
D55V2, multiclass
        clus
vv       8P LOSS MUTATED 8P LOSS WILD-TYPE
  CLUS_1               3                 3
  CLUS_2               4                 9
  CLUS_3               7                 6
  CLUS_4               8                 1
  CLUS_5               4                 4
  CLUS_6               3                 6
  CLUS_7               4                 4
  CLUS_8               2                 1
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  8P LOSS MUTATED       22     16     17     18
  8P LOSS WILD-TYPE     44     16     14     18
D55V3, multiclass
        clus
vv       8P LOSS MUTATED 8P LOSS WILD-TYPE
  CLUS_1              22                44
  CLUS_2              16                16
  CLUS_3              17                14
  CLUS_4              18                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
  8P LOSS MUTATED       12     16     11
  8P LOSS WILD-TYPE     16     23     18
D55V4, multiclass
        clus
vv       8P LOSS MUTATED 8P LOSS WILD-TYPE
  CLUS_1              12                16
  CLUS_2              16                23
  CLUS_3              11                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
  8P LOSS MUTATED       22     10     10     10      3
  8P LOSS WILD-TYPE     20     17     15     20      0
D55V5, multiclass
        clus
vv       8P LOSS MUTATED 8P LOSS WILD-TYPE
  CLUS_1              22                20
  CLUS_2              10                17
  CLUS_3              10                15
  CLUS_4              10                20
  CLUS_5               3                 0
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  8P LOSS MUTATED       11     10      9      5     12      8
  8P LOSS WILD-TYPE      9     10     15     13     17      8
D55V6, multiclass
        clus
vv       8P LOSS MUTATED 8P LOSS WILD-TYPE
  CLUS_1              11                 9
  CLUS_2              10                10
  CLUS_3               9                15
  CLUS_4               5                13
  CLUS_5              12                17
  CLUS_6               8                 8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  8P LOSS MUTATED       13      6      7     12     34
  8P LOSS WILD-TYPE     16      8     26     16     26
D55V7, multiclass
        clus
vv       8P LOSS MUTATED 8P LOSS WILD-TYPE
  CLUS_1              13                16
  CLUS_2               6                 8
  CLUS_3               7                26
  CLUS_4              12                16
  CLUS_5              34                26
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  8P LOSS MUTATED       11     13      6      7     19      4     12
  8P LOSS WILD-TYPE     16     23      6     12     13     14      8
D55V8, multiclass
        clus
vv       8P LOSS MUTATED 8P LOSS WILD-TYPE
  CLUS_1              11                16
  CLUS_2              13                23
  CLUS_3               6                 6
  CLUS_4               7                12
  CLUS_5              19                13
  CLUS_6               4                14
  CLUS_7              12                 8
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  8P LOSS MUTATED        9     20      6      3     26
  8P LOSS WILD-TYPE      9     22     11      5     30
D55V9, multiclass
        clus
vv       8P LOSS MUTATED 8P LOSS WILD-TYPE
  CLUS_1               9                 9
  CLUS_2              20                22
  CLUS_3               6                11
  CLUS_4               3                 5
  CLUS_5              26                30
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  8P LOSS MUTATED       10     28     26
  8P LOSS WILD-TYPE     12     35     30
D55V10, multiclass
        clus
vv       8P LOSS MUTATED 8P LOSS WILD-TYPE
  CLUS_1              10                12
  CLUS_2              28                35
  CLUS_3              26                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
  8P LOSS MUTATED        2      5      6      6
  8P LOSS WILD-TYPE      7      9      8      7
D55V11, multiclass
        clus
vv       8P LOSS MUTATED 8P LOSS WILD-TYPE
  CLUS_1               2                 7
  CLUS_2               5                 9
  CLUS_3               6                 8
  CLUS_4               6                 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
  8P LOSS MUTATED        2      7      8      2      0
  8P LOSS WILD-TYPE      7      6     10      3      5
D55V12, multiclass
        clus
vv       8P LOSS MUTATED 8P LOSS WILD-TYPE
  CLUS_1               2                 7
  CLUS_2               7                 6
  CLUS_3               8                10
  CLUS_4               2                 3
  CLUS_5               0                 5
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(56) Variable = 8Q LOSS MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  8Q LOSS MUTATED        3      3      1
  8Q LOSS WILD-TYPE     22     19     21
D56V1, multiclass
        clus
vv       8Q LOSS MUTATED 8Q LOSS WILD-TYPE
  CLUS_1               3                22
  CLUS_2               3                19
  CLUS_3               1                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 CLUS_8
  8Q LOSS MUTATED        0      2      2      0      0      1      2      0
  8Q LOSS WILD-TYPE      6     11     11      9      8      8      6      3
D56V2, multiclass
        clus
vv       8Q LOSS MUTATED 8Q LOSS WILD-TYPE
  CLUS_1               0                 6
  CLUS_2               2                11
  CLUS_3               2                11
  CLUS_4               0                 9
  CLUS_5               0                 8
  CLUS_6               1                 8
  CLUS_7               2                 6
  CLUS_8               0                 3
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  8Q LOSS MUTATED        2      3      3      3
  8Q LOSS WILD-TYPE     64     29     28     33
D56V3, multiclass
        clus
vv       8Q LOSS MUTATED 8Q LOSS WILD-TYPE
  CLUS_1               2                64
  CLUS_2               3                29
  CLUS_3               3                28
  CLUS_4               3                33
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  8Q LOSS MUTATED        2      2      0
  8Q LOSS WILD-TYPE     26     37     29
D56V4, multiclass
        clus
vv       8Q LOSS MUTATED 8Q LOSS WILD-TYPE
  CLUS_1               2                26
  CLUS_2               2                37
  CLUS_3               0                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
  8Q LOSS MUTATED        4      1      0      2      0
  8Q LOSS WILD-TYPE     38     26     25     28      3
D56V5, multiclass
        clus
vv       8Q LOSS MUTATED 8Q LOSS WILD-TYPE
  CLUS_1               4                38
  CLUS_2               1                26
  CLUS_3               0                25
  CLUS_4               2                28
  CLUS_5               0                 3
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  8Q LOSS MUTATED        1      1      1      0      1      3
  8Q LOSS WILD-TYPE     19     19     23     18     28     13
D56V6, multiclass
        clus
vv       8Q LOSS MUTATED 8Q LOSS WILD-TYPE
  CLUS_1               1                19
  CLUS_2               1                19
  CLUS_3               1                23
  CLUS_4               0                18
  CLUS_5               1                28
  CLUS_6               3                13
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  8Q LOSS MUTATED        1      0      1      3      6
  8Q LOSS WILD-TYPE     28     14     32     25     54
D56V7, multiclass
        clus
vv       8Q LOSS MUTATED 8Q LOSS WILD-TYPE
  CLUS_1               1                28
  CLUS_2               0                14
  CLUS_3               1                32
  CLUS_4               3                25
  CLUS_5               6                54
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  8Q LOSS MUTATED        3      0      0      1      3      2      2
  8Q LOSS WILD-TYPE     24     36     12     18     29     16     18
D56V8, multiclass
        clus
vv       8Q LOSS MUTATED 8Q LOSS WILD-TYPE
  CLUS_1               3                24
  CLUS_2               0                36
  CLUS_3               0                12
  CLUS_4               1                18
  CLUS_5               3                29
  CLUS_6               2                16
  CLUS_7               2                18
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  8Q LOSS MUTATED        1      2      1      1      5
  8Q LOSS WILD-TYPE     17     40     16      7     51
D56V9, multiclass
        clus
vv       8Q LOSS MUTATED 8Q LOSS WILD-TYPE
  CLUS_1               1                17
  CLUS_2               2                40
  CLUS_3               1                16
  CLUS_4               1                 7
  CLUS_5               5                51
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  8Q LOSS MUTATED        0      4      6
  8Q LOSS WILD-TYPE     22     59     50
D56V10, multiclass
        clus
vv       8Q LOSS MUTATED 8Q LOSS WILD-TYPE
  CLUS_1               0                22
  CLUS_2               4                59
  CLUS_3               6                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 CLUS_4
  8Q LOSS MUTATED        1      0      0      2
  8Q LOSS WILD-TYPE      8     14     14     11
D56V11, multiclass
        clus
vv       8Q LOSS MUTATED 8Q LOSS WILD-TYPE
  CLUS_1               1                 8
  CLUS_2               0                14
  CLUS_3               0                14
  CLUS_4               2                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
  8Q LOSS MUTATED        0      0      2      1      0
  8Q LOSS WILD-TYPE      9     13     16      4      5
D56V12, multiclass
        clus
vv       8Q LOSS MUTATED 8Q LOSS WILD-TYPE
  CLUS_1               0                 9
  CLUS_2               0                13
  CLUS_3               2                16
  CLUS_4               1                 4
  CLUS_5               0                 5
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(57) Variable = 9P LOSS MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  9P LOSS MUTATED        5      2      3
  9P LOSS WILD-TYPE     20     20     19
D57V1, multiclass
        clus
vv       9P LOSS MUTATED 9P LOSS WILD-TYPE
  CLUS_1               5                20
  CLUS_2               2                20
  CLUS_3               3                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 CLUS_8
  9P LOSS MUTATED        1      0      3      1      1      2      2      0
  9P LOSS WILD-TYPE      5     13     10      8      7      7      6      3
D57V2, multiclass
        clus
vv       9P LOSS MUTATED 9P LOSS WILD-TYPE
  CLUS_1               1                 5
  CLUS_2               0                13
  CLUS_3               3                10
  CLUS_4               1                 8
  CLUS_5               1                 7
  CLUS_6               2                 7
  CLUS_7               2                 6
  CLUS_8               0                 3
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  9P LOSS MUTATED        9      2      7      5
  9P LOSS WILD-TYPE     57     30     24     31
D57V3, multiclass
        clus
vv       9P LOSS MUTATED 9P LOSS WILD-TYPE
  CLUS_1               9                57
  CLUS_2               2                30
  CLUS_3               7                24
  CLUS_4               5                31
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  9P LOSS MUTATED        7      3      4
  9P LOSS WILD-TYPE     21     36     25
D57V4, multiclass
        clus
vv       9P LOSS MUTATED 9P LOSS WILD-TYPE
  CLUS_1               7                21
  CLUS_2               3                36
  CLUS_3               4                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
  9P LOSS MUTATED        5      2      3      6      0
  9P LOSS WILD-TYPE     37     25     22     24      3
D57V5, multiclass
        clus
vv       9P LOSS MUTATED 9P LOSS WILD-TYPE
  CLUS_1               5                37
  CLUS_2               2                25
  CLUS_3               3                22
  CLUS_4               6                24
  CLUS_5               0                 3
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  9P LOSS MUTATED        3      1      3      3      3      3
  9P LOSS WILD-TYPE     17     19     21     15     26     13
D57V6, multiclass
        clus
vv       9P LOSS MUTATED 9P LOSS WILD-TYPE
  CLUS_1               3                17
  CLUS_2               1                19
  CLUS_3               3                21
  CLUS_4               3                15
  CLUS_5               3                26
  CLUS_6               3                13
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  9P LOSS MUTATED        4      1      3      5     10
  9P LOSS WILD-TYPE     25     13     30     23     50
D57V7, multiclass
        clus
vv       9P LOSS MUTATED 9P LOSS WILD-TYPE
  CLUS_1               4                25
  CLUS_2               1                13
  CLUS_3               3                30
  CLUS_4               5                23
  CLUS_5              10                50
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  9P LOSS MUTATED        4      5      1      3      7      0      3
  9P LOSS WILD-TYPE     23     31     11     16     25     18     17
D57V8, multiclass
        clus
vv       9P LOSS MUTATED 9P LOSS WILD-TYPE
  CLUS_1               4                23
  CLUS_2               5                31
  CLUS_3               1                11
  CLUS_4               3                16
  CLUS_5               7                25
  CLUS_6               0                18
  CLUS_7               3                17
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  9P LOSS MUTATED        2      8      2      3      6
  9P LOSS WILD-TYPE     16     34     15      5     50
D57V9, multiclass
        clus
vv       9P LOSS MUTATED 9P LOSS WILD-TYPE
  CLUS_1               2                16
  CLUS_2               8                34
  CLUS_3               2                15
  CLUS_4               3                 5
  CLUS_5               6                50
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  9P LOSS MUTATED        7      6      8
  9P LOSS WILD-TYPE     15     57     48
D57V10, multiclass
        clus
vv       9P LOSS MUTATED 9P LOSS WILD-TYPE
  CLUS_1               7                15
  CLUS_2               6                57
  CLUS_3               8                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 CLUS_4
  9P LOSS MUTATED        3      2      2      2
  9P LOSS WILD-TYPE      6     12     12     11
D57V11, multiclass
        clus
vv       9P LOSS MUTATED 9P LOSS WILD-TYPE
  CLUS_1               3                 6
  CLUS_2               2                12
  CLUS_3               2                12
  CLUS_4               2                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
  9P LOSS MUTATED        5      1      2      1      0
  9P LOSS WILD-TYPE      4     12     16      4      5
D57V12, multiclass
        clus
vv       9P LOSS MUTATED 9P LOSS WILD-TYPE
  CLUS_1               5                 4
  CLUS_2               1                12
  CLUS_3               2                16
  CLUS_4               1                 4
  CLUS_5               0                 5
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(58) Variable = 9Q LOSS MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  9Q LOSS MUTATED        5      1      5
  9Q LOSS WILD-TYPE     20     21     17
D58V1, multiclass
        clus
vv       9Q LOSS MUTATED 9Q LOSS WILD-TYPE
  CLUS_1               5                20
  CLUS_2               1                21
  CLUS_3               5                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 CLUS_8
  9Q LOSS MUTATED        1      0      3      3      1      1      2      0
  9Q LOSS WILD-TYPE      5     13     10      6      7      8      6      3
D58V2, multiclass
        clus
vv       9Q LOSS MUTATED 9Q LOSS WILD-TYPE
  CLUS_1               1                 5
  CLUS_2               0                13
  CLUS_3               3                10
  CLUS_4               3                 6
  CLUS_5               1                 7
  CLUS_6               1                 8
  CLUS_7               2                 6
  CLUS_8               0                 3
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  9Q LOSS MUTATED        8      2      7      6
  9Q LOSS WILD-TYPE     58     30     24     30
D58V3, multiclass
        clus
vv       9Q LOSS MUTATED 9Q LOSS WILD-TYPE
  CLUS_1               8                58
  CLUS_2               2                30
  CLUS_3               7                24
  CLUS_4               6                30
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  9Q LOSS MUTATED        7      3      3
  9Q LOSS WILD-TYPE     21     36     26
D58V4, multiclass
        clus
vv       9Q LOSS MUTATED 9Q LOSS WILD-TYPE
  CLUS_1               7                21
  CLUS_2               3                36
  CLUS_3               3                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
  9Q LOSS MUTATED        4      3      3      6      0
  9Q LOSS WILD-TYPE     38     24     22     24      3
D58V5, multiclass
        clus
vv       9Q LOSS MUTATED 9Q LOSS WILD-TYPE
  CLUS_1               4                38
  CLUS_2               3                24
  CLUS_3               3                22
  CLUS_4               6                24
  CLUS_5               0                 3
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  9Q LOSS MUTATED        4      2      3      2      3      2
  9Q LOSS WILD-TYPE     16     18     21     16     26     14
D58V6, multiclass
        clus
vv       9Q LOSS MUTATED 9Q LOSS WILD-TYPE
  CLUS_1               4                16
  CLUS_2               2                18
  CLUS_3               3                21
  CLUS_4               2                16
  CLUS_5               3                26
  CLUS_6               2                14
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  9Q LOSS MUTATED        5      1      2      4     11
  9Q LOSS WILD-TYPE     24     13     31     24     49
D58V7, multiclass
        clus
vv       9Q LOSS MUTATED 9Q LOSS WILD-TYPE
  CLUS_1               5                24
  CLUS_2               1                13
  CLUS_3               2                31
  CLUS_4               4                24
  CLUS_5              11                49
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  9Q LOSS MUTATED        3      5      2      2      9      0      2
  9Q LOSS WILD-TYPE     24     31     10     17     23     18     18
D58V8, multiclass
        clus
vv       9Q LOSS MUTATED 9Q LOSS WILD-TYPE
  CLUS_1               3                24
  CLUS_2               5                31
  CLUS_3               2                10
  CLUS_4               2                17
  CLUS_5               9                23
  CLUS_6               0                18
  CLUS_7               2                18
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  9Q LOSS MUTATED        3      7      1      4      6
  9Q LOSS WILD-TYPE     15     35     16      4     50
D58V9, multiclass
        clus
vv       9Q LOSS MUTATED 9Q LOSS WILD-TYPE
  CLUS_1               3                15
  CLUS_2               7                35
  CLUS_3               1                16
  CLUS_4               4                 4
  CLUS_5               6                50
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  9Q LOSS MUTATED        9      5      7
  9Q LOSS WILD-TYPE     13     58     49
D58V10, multiclass
        clus
vv       9Q LOSS MUTATED 9Q LOSS WILD-TYPE
  CLUS_1               9                13
  CLUS_2               5                58
  CLUS_3               7                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 CLUS_4
  9Q LOSS MUTATED        3      2      2      1
  9Q LOSS WILD-TYPE      6     12     12     12
D58V11, multiclass
        clus
vv       9Q LOSS MUTATED 9Q LOSS WILD-TYPE
  CLUS_1               3                 6
  CLUS_2               2                12
  CLUS_3               2                12
  CLUS_4               1                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
  9Q LOSS MUTATED        5      1      1      1      0
  9Q LOSS WILD-TYPE      4     12     17      4      5
D58V12, multiclass
        clus
vv       9Q LOSS MUTATED 9Q LOSS WILD-TYPE
  CLUS_1               5                 4
  CLUS_2               1                12
  CLUS_3               1                17
  CLUS_4               1                 4
  CLUS_5               0                 5
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(59) Variable = 10P LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  10P LOSS MUTATED        7      2      2
  10P LOSS WILD-TYPE     18     20     20
D59V1, multiclass
        clus
vv       10P LOSS MUTATED 10P LOSS WILD-TYPE
  CLUS_1                7                 18
  CLUS_2                2                 20
  CLUS_3                2                 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 CLUS_8
  10P LOSS MUTATED        1      4      4      0      2      0      0      0
  10P LOSS WILD-TYPE      5      9      9      9      6      9      8      3
D59V2, multiclass
        clus
vv       10P LOSS MUTATED 10P LOSS WILD-TYPE
  CLUS_1                1                  5
  CLUS_2                4                  9
  CLUS_3                4                  9
  CLUS_4                0                  9
  CLUS_5                2                  6
  CLUS_6                0                  9
  CLUS_7                0                  8
  CLUS_8                0                  3
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  10P LOSS MUTATED        9      6      6     12
  10P LOSS WILD-TYPE     57     26     25     24
D59V3, multiclass
        clus
vv       10P LOSS MUTATED 10P LOSS WILD-TYPE
  CLUS_1                9                 57
  CLUS_2                6                 26
  CLUS_3                6                 25
  CLUS_4               12                 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
  10P LOSS MUTATED       11      6      5
  10P LOSS WILD-TYPE     17     33     24
D59V4, multiclass
        clus
vv       10P LOSS MUTATED 10P LOSS WILD-TYPE
  CLUS_1               11                 17
  CLUS_2                6                 33
  CLUS_3                5                 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
  10P LOSS MUTATED       11      8      1      5      0
  10P LOSS WILD-TYPE     31     19     24     25      3
D59V5, multiclass
        clus
vv       10P LOSS MUTATED 10P LOSS WILD-TYPE
  CLUS_1               11                 31
  CLUS_2                8                 19
  CLUS_3                1                 24
  CLUS_4                5                 25
  CLUS_5                0                  3
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  10P LOSS MUTATED        1      3      8      1      6      6
  10P LOSS WILD-TYPE     19     17     16     17     23     10
D59V6, multiclass
        clus
vv       10P LOSS MUTATED 10P LOSS WILD-TYPE
  CLUS_1                1                 19
  CLUS_2                3                 17
  CLUS_3                8                 16
  CLUS_4                1                 17
  CLUS_5                6                 23
  CLUS_6                6                 10
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  10P LOSS MUTATED        7      1     11      5      9
  10P LOSS WILD-TYPE     22     13     22     23     51
D59V7, multiclass
        clus
vv       10P LOSS MUTATED 10P LOSS WILD-TYPE
  CLUS_1                7                 22
  CLUS_2                1                 13
  CLUS_3               11                 22
  CLUS_4                5                 23
  CLUS_5                9                 51
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  10P LOSS MUTATED        9      7      1      4      4      5      3
  10P LOSS WILD-TYPE     18     29     11     15     28     13     17
D59V8, multiclass
        clus
vv       10P LOSS MUTATED 10P LOSS WILD-TYPE
  CLUS_1                9                 18
  CLUS_2                7                 29
  CLUS_3                1                 11
  CLUS_4                4                 15
  CLUS_5                4                 28
  CLUS_6                5                 13
  CLUS_7                3                 17
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  10P LOSS MUTATED        4     10      3      2      9
  10P LOSS WILD-TYPE     14     32     14      6     47
D59V9, multiclass
        clus
vv       10P LOSS MUTATED 10P LOSS WILD-TYPE
  CLUS_1                4                 14
  CLUS_2               10                 32
  CLUS_3                3                 14
  CLUS_4                2                  6
  CLUS_5                9                 47
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  10P LOSS MUTATED        8     10     10
  10P LOSS WILD-TYPE     14     53     46
D59V10, multiclass
        clus
vv       10P LOSS MUTATED 10P LOSS WILD-TYPE
  CLUS_1                8                 14
  CLUS_2               10                 53
  CLUS_3               10                 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 CLUS_4
  10P LOSS MUTATED        3      3      5      3
  10P LOSS WILD-TYPE      6     11      9     10
D59V11, multiclass
        clus
vv       10P LOSS MUTATED 10P LOSS WILD-TYPE
  CLUS_1                3                  6
  CLUS_2                3                 11
  CLUS_3                5                  9
  CLUS_4                3                 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
  10P LOSS MUTATED        4      3      4      1      2
  10P LOSS WILD-TYPE      5     10     14      4      3
D59V12, multiclass
        clus
vv       10P LOSS MUTATED 10P LOSS WILD-TYPE
  CLUS_1                4                  5
  CLUS_2                3                 10
  CLUS_3                4                 14
  CLUS_4                1                  4
  CLUS_5                2                  3
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(60) Variable = 10Q LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  10Q LOSS MUTATED        8      5      2
  10Q LOSS WILD-TYPE     17     17     20
D60V1, multiclass
        clus
vv       10Q LOSS MUTATED 10Q LOSS WILD-TYPE
  CLUS_1                8                 17
  CLUS_2                5                 17
  CLUS_3                2                 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 CLUS_8
  10Q LOSS MUTATED        1      4      4      0      4      2      0      0
  10Q LOSS WILD-TYPE      5      9      9      9      4      7      8      3
D60V2, multiclass
        clus
vv       10Q LOSS MUTATED 10Q LOSS WILD-TYPE
  CLUS_1                1                  5
  CLUS_2                4                  9
  CLUS_3                4                  9
  CLUS_4                0                  9
  CLUS_5                4                  4
  CLUS_6                2                  7
  CLUS_7                0                  8
  CLUS_8                0                  3
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  10Q LOSS MUTATED        9      9      7     13
  10Q LOSS WILD-TYPE     57     23     24     23
D60V3, multiclass
        clus
vv       10Q LOSS MUTATED 10Q LOSS WILD-TYPE
  CLUS_1                9                 57
  CLUS_2                9                 23
  CLUS_3                7                 24
  CLUS_4               13                 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
  10Q LOSS MUTATED       11      7      5
  10Q LOSS WILD-TYPE     17     32     24
D60V4, multiclass
        clus
vv       10Q LOSS MUTATED 10Q LOSS WILD-TYPE
  CLUS_1               11                 17
  CLUS_2                7                 32
  CLUS_3                5                 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
  10Q LOSS MUTATED       11     10      2      5      1
  10Q LOSS WILD-TYPE     31     17     23     25      2
D60V5, multiclass
        clus
vv       10Q LOSS MUTATED 10Q LOSS WILD-TYPE
  CLUS_1               11                 31
  CLUS_2               10                 17
  CLUS_3                2                 23
  CLUS_4                5                 25
  CLUS_5                1                  2
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  10Q LOSS MUTATED        2      3     10      1      6      7
  10Q LOSS WILD-TYPE     18     17     14     17     23      9
D60V6, multiclass
        clus
vv       10Q LOSS MUTATED 10Q LOSS WILD-TYPE
  CLUS_1                2                 18
  CLUS_2                3                 17
  CLUS_3               10                 14
  CLUS_4                1                 17
  CLUS_5                6                 23
  CLUS_6                7                  9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  10Q LOSS MUTATED        7      1     11      7     12
  10Q LOSS WILD-TYPE     22     13     22     21     48
D60V7, multiclass
        clus
vv       10Q LOSS MUTATED 10Q LOSS WILD-TYPE
  CLUS_1                7                 22
  CLUS_2                1                 13
  CLUS_3               11                 22
  CLUS_4                7                 21
  CLUS_5               12                 48
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  10Q LOSS MUTATED       12      5      1      4      5      6      5
  10Q LOSS WILD-TYPE     15     31     11     15     27     12     15
D60V8, multiclass
        clus
vv       10Q LOSS MUTATED 10Q LOSS WILD-TYPE
  CLUS_1               12                 15
  CLUS_2                5                 31
  CLUS_3                1                 11
  CLUS_4                4                 15
  CLUS_5                5                 27
  CLUS_6                6                 12
  CLUS_7                5                 15
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  10Q LOSS MUTATED        6     10      2      2     13
  10Q LOSS WILD-TYPE     12     32     15      6     43
D60V9, multiclass
        clus
vv       10Q LOSS MUTATED 10Q LOSS WILD-TYPE
  CLUS_1                6                 12
  CLUS_2               10                 32
  CLUS_3                2                 15
  CLUS_4                2                  6
  CLUS_5               13                 43
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  10Q LOSS MUTATED        9     11     13
  10Q LOSS WILD-TYPE     13     52     43
D60V10, multiclass
        clus
vv       10Q LOSS MUTATED 10Q LOSS WILD-TYPE
  CLUS_1                9                 13
  CLUS_2               11                 52
  CLUS_3               13                 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 CLUS_4
  10Q LOSS MUTATED        2      5      4      3
  10Q LOSS WILD-TYPE      7      9     10     10
D60V11, multiclass
        clus
vv       10Q LOSS MUTATED 10Q LOSS WILD-TYPE
  CLUS_1                2                  7
  CLUS_2                5                  9
  CLUS_3                4                 10
  CLUS_4                3                 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
  10Q LOSS MUTATED        4      4      3      1      2
  10Q LOSS WILD-TYPE      5      9     15      4      3
D60V12, multiclass
        clus
vv       10Q LOSS MUTATED 10Q LOSS WILD-TYPE
  CLUS_1                4                  5
  CLUS_2                4                  9
  CLUS_3                3                 15
  CLUS_4                1                  4
  CLUS_5                2                  3
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(61) Variable = 11P LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  11P LOSS MUTATED        4      5      1
  11P LOSS WILD-TYPE     21     17     21
D61V1, multiclass
        clus
vv       11P LOSS MUTATED 11P LOSS WILD-TYPE
  CLUS_1                4                 21
  CLUS_2                5                 17
  CLUS_3                1                 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 CLUS_8
  11P LOSS MUTATED        0      4      2      0      2      2      0      0
  11P LOSS WILD-TYPE      6      9     11      9      6      7      8      3
D61V2, multiclass
        clus
vv       11P LOSS MUTATED 11P LOSS WILD-TYPE
  CLUS_1                0                  6
  CLUS_2                4                  9
  CLUS_3                2                 11
  CLUS_4                0                  9
  CLUS_5                2                  6
  CLUS_6                2                  7
  CLUS_7                0                  8
  CLUS_8                0                  3
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  11P LOSS MUTATED        5      8      1      9
  11P LOSS WILD-TYPE     61     24     30     27
D61V3, multiclass
        clus
vv       11P LOSS MUTATED 11P LOSS WILD-TYPE
  CLUS_1                5                 61
  CLUS_2                8                 24
  CLUS_3                1                 30
  CLUS_4                9                 27
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  11P LOSS MUTATED        1      7      5
  11P LOSS WILD-TYPE     27     32     24
D61V4, multiclass
        clus
vv       11P LOSS MUTATED 11P LOSS WILD-TYPE
  CLUS_1                1                 27
  CLUS_2                7                 32
  CLUS_3                5                 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
  11P LOSS MUTATED        4      7      4      4      0
  11P LOSS WILD-TYPE     38     20     21     26      3
D61V5, multiclass
        clus
vv       11P LOSS MUTATED 11P LOSS WILD-TYPE
  CLUS_1                4                 38
  CLUS_2                7                 20
  CLUS_3                4                 21
  CLUS_4                4                 26
  CLUS_5                0                  3
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  11P LOSS MUTATED        1      2      5      3      4      4
  11P LOSS WILD-TYPE     19     18     19     15     25     12
D61V6, multiclass
        clus
vv       11P LOSS MUTATED 11P LOSS WILD-TYPE
  CLUS_1                1                 19
  CLUS_2                2                 18
  CLUS_3                5                 19
  CLUS_4                3                 15
  CLUS_5                4                 25
  CLUS_6                4                 12
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  11P LOSS MUTATED        4      4      8      0      7
  11P LOSS WILD-TYPE     25     10     25     28     53
D61V7, multiclass
        clus
vv       11P LOSS MUTATED 11P LOSS WILD-TYPE
  CLUS_1                4                 25
  CLUS_2                4                 10
  CLUS_3                8                 25
  CLUS_4                0                 28
  CLUS_5                7                 53
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  11P LOSS MUTATED        3      6      2      2      1      5      4
  11P LOSS WILD-TYPE     24     30     10     17     31     13     16
D61V8, multiclass
        clus
vv       11P LOSS MUTATED 11P LOSS WILD-TYPE
  CLUS_1                3                 24
  CLUS_2                6                 30
  CLUS_3                2                 10
  CLUS_4                2                 17
  CLUS_5                1                 31
  CLUS_6                5                 13
  CLUS_7                4                 16
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  11P LOSS MUTATED        3      6      2      1     10
  11P LOSS WILD-TYPE     15     36     15      7     46
D61V9, multiclass
        clus
vv       11P LOSS MUTATED 11P LOSS WILD-TYPE
  CLUS_1                3                 15
  CLUS_2                6                 36
  CLUS_3                2                 15
  CLUS_4                1                  7
  CLUS_5               10                 46
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  11P LOSS MUTATED        2     10     10
  11P LOSS WILD-TYPE     20     53     46
D61V10, multiclass
        clus
vv       11P LOSS MUTATED 11P LOSS WILD-TYPE
  CLUS_1                2                 20
  CLUS_2               10                 53
  CLUS_3               10                 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 CLUS_4
  11P LOSS MUTATED        1      1      1      3
  11P LOSS WILD-TYPE      8     13     13     10
D61V11, multiclass
        clus
vv       11P LOSS MUTATED 11P LOSS WILD-TYPE
  CLUS_1                1                  8
  CLUS_2                1                 13
  CLUS_3                1                 13
  CLUS_4                3                 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
  11P LOSS MUTATED        0      2      2      0      2
  11P LOSS WILD-TYPE      9     11     16      5      3
D61V12, multiclass
        clus
vv       11P LOSS MUTATED 11P LOSS WILD-TYPE
  CLUS_1                0                  9
  CLUS_2                2                 11
  CLUS_3                2                 16
  CLUS_4                0                  5
  CLUS_5                2                  3
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(62) Variable = 11Q LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  11Q LOSS MUTATED        4      7      1
  11Q LOSS WILD-TYPE     21     15     21
D62V1, multiclass
        clus
vv       11Q LOSS MUTATED 11Q LOSS WILD-TYPE
  CLUS_1                4                 21
  CLUS_2                7                 15
  CLUS_3                1                 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 CLUS_8
  11Q LOSS MUTATED        0      5      3      0      2      2      0      0
  11Q LOSS WILD-TYPE      6      8     10      9      6      7      8      3
D62V2, multiclass
        clus
vv       11Q LOSS MUTATED 11Q LOSS WILD-TYPE
  CLUS_1                0                  6
  CLUS_2                5                  8
  CLUS_3                3                 10
  CLUS_4                0                  9
  CLUS_5                2                  6
  CLUS_6                2                  7
  CLUS_7                0                  8
  CLUS_8                0                  3
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  11Q LOSS MUTATED        9      9      1     11
  11Q LOSS WILD-TYPE     57     23     30     25
D62V3, multiclass
        clus
vv       11Q LOSS MUTATED 11Q LOSS WILD-TYPE
  CLUS_1                9                 57
  CLUS_2                9                 23
  CLUS_3                1                 30
  CLUS_4               11                 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
  11Q LOSS MUTATED        1     11      6
  11Q LOSS WILD-TYPE     27     28     23
D62V4, multiclass
        clus
vv       11Q LOSS MUTATED 11Q LOSS WILD-TYPE
  CLUS_1                1                 27
  CLUS_2               11                 28
  CLUS_3                6                 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 CLUS_4 CLUS_5
  11Q LOSS MUTATED        6      5      5      6      0
  11Q LOSS WILD-TYPE     36     22     20     24      3
D62V5, multiclass
        clus
vv       11Q LOSS MUTATED 11Q LOSS WILD-TYPE
  CLUS_1                6                 36
  CLUS_2                5                 22
  CLUS_3                5                 20
  CLUS_4                6                 24
  CLUS_5                0                  3
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  11Q LOSS MUTATED        2      1      5      5      6      3
  11Q LOSS WILD-TYPE     18     19     19     13     23     13
D62V6, multiclass
        clus
vv       11Q LOSS MUTATED 11Q LOSS WILD-TYPE
  CLUS_1                2                 18
  CLUS_2                1                 19
  CLUS_3                5                 19
  CLUS_4                5                 13
  CLUS_5                6                 23
  CLUS_6                3                 13
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  11Q LOSS MUTATED        3      5     11      1     10
  11Q LOSS WILD-TYPE     26      9     22     27     50
D62V7, multiclass
        clus
vv       11Q LOSS MUTATED 11Q LOSS WILD-TYPE
  CLUS_1                3                 26
  CLUS_2                5                  9
  CLUS_3               11                 22
  CLUS_4                1                 27
  CLUS_5               10                 50
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  11Q LOSS MUTATED        1     11      4      2      2      6      4
  11Q LOSS WILD-TYPE     26     25      8     17     30     12     16
D62V8, multiclass
        clus
vv       11Q LOSS MUTATED 11Q LOSS WILD-TYPE
  CLUS_1                1                 26
  CLUS_2               11                 25
  CLUS_3                4                  8
  CLUS_4                2                 17
  CLUS_5                2                 30
  CLUS_6                6                 12
  CLUS_7                4                 16
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  11Q LOSS MUTATED        2     13      1      1     12
  11Q LOSS WILD-TYPE     16     29     16      7     44
D62V9, multiclass
        clus
vv       11Q LOSS MUTATED 11Q LOSS WILD-TYPE
  CLUS_1                2                 16
  CLUS_2               13                 29
  CLUS_3                1                 16
  CLUS_4                1                  7
  CLUS_5               12                 44
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  11Q LOSS MUTATED        2     15     12
  11Q LOSS WILD-TYPE     20     48     44
D62V10, multiclass
        clus
vv       11Q LOSS MUTATED 11Q LOSS WILD-TYPE
  CLUS_1                2                 20
  CLUS_2               15                 48
  CLUS_3               12                 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 CLUS_4
  11Q LOSS MUTATED        1      1      2      4
  11Q LOSS WILD-TYPE      8     13     12      9
D62V11, multiclass
        clus
vv       11Q LOSS MUTATED 11Q LOSS WILD-TYPE
  CLUS_1                1                  8
  CLUS_2                1                 13
  CLUS_3                2                 12
  CLUS_4                4                  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
  11Q LOSS MUTATED        0      2      4      1      1
  11Q LOSS WILD-TYPE      9     11     14      4      4
D62V12, multiclass
        clus
vv       11Q LOSS MUTATED 11Q LOSS WILD-TYPE
  CLUS_1                0                  9
  CLUS_2                2                 11
  CLUS_3                4                 14
  CLUS_4                1                  4
  CLUS_5                1                  4
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(63) Variable = 12P LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  12P LOSS MUTATED        1      3      3
  12P LOSS WILD-TYPE     24     19     19
D63V1, multiclass
        clus
vv       12P LOSS MUTATED 12P LOSS WILD-TYPE
  CLUS_1                1                 24
  CLUS_2                3                 19
  CLUS_3                3                 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 CLUS_8
  12P LOSS MUTATED        1      1      0      3      1      1      0      0
  12P LOSS WILD-TYPE      5     12     13      6      7      8      8      3
D63V2, multiclass
        clus
vv       12P LOSS MUTATED 12P LOSS WILD-TYPE
  CLUS_1                1                  5
  CLUS_2                1                 12
  CLUS_3                0                 13
  CLUS_4                3                  6
  CLUS_5                1                  7
  CLUS_6                1                  8
  CLUS_7                0                  8
  CLUS_8                0                  3
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  12P LOSS MUTATED        7      6      5      4
  12P LOSS WILD-TYPE     59     26     26     32
D63V3, multiclass
        clus
vv       12P LOSS MUTATED 12P LOSS WILD-TYPE
  CLUS_1                7                 59
  CLUS_2                6                 26
  CLUS_3                5                 26
  CLUS_4                4                 32
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  12P LOSS MUTATED        3      5      7
  12P LOSS WILD-TYPE     25     34     22
D63V4, multiclass
        clus
vv       12P LOSS MUTATED 12P LOSS WILD-TYPE
  CLUS_1                3                 25
  CLUS_2                5                 34
  CLUS_3                7                 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
  12P LOSS MUTATED        7      5      3      4      0
  12P LOSS WILD-TYPE     35     22     22     26      3
D63V5, multiclass
        clus
vv       12P LOSS MUTATED 12P LOSS WILD-TYPE
  CLUS_1                7                 35
  CLUS_2                5                 22
  CLUS_3                3                 22
  CLUS_4                4                 26
  CLUS_5                0                  3
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  12P LOSS MUTATED        2      1      5      3      4      4
  12P LOSS WILD-TYPE     18     19     19     15     25     12
D63V6, multiclass
        clus
vv       12P LOSS MUTATED 12P LOSS WILD-TYPE
  CLUS_1                2                 18
  CLUS_2                1                 19
  CLUS_3                5                 19
  CLUS_4                3                 15
  CLUS_5                4                 25
  CLUS_6                4                 12
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  12P LOSS MUTATED        4      3      5      2      8
  12P LOSS WILD-TYPE     25     11     28     26     52
D63V7, multiclass
        clus
vv       12P LOSS MUTATED 12P LOSS WILD-TYPE
  CLUS_1                4                 25
  CLUS_2                3                 11
  CLUS_3                5                 28
  CLUS_4                2                 26
  CLUS_5                8                 52
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  12P LOSS MUTATED        4      6      2      3      6      0      1
  12P LOSS WILD-TYPE     23     30     10     16     26     18     19
D63V8, multiclass
        clus
vv       12P LOSS MUTATED 12P LOSS WILD-TYPE
  CLUS_1                4                 23
  CLUS_2                6                 30
  CLUS_3                2                 10
  CLUS_4                3                 16
  CLUS_5                6                 26
  CLUS_6                0                 18
  CLUS_7                1                 19
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  12P LOSS MUTATED        5      7      2      0      7
  12P LOSS WILD-TYPE     13     35     15      8     49
D63V9, multiclass
        clus
vv       12P LOSS MUTATED 12P LOSS WILD-TYPE
  CLUS_1                5                 13
  CLUS_2                7                 35
  CLUS_3                2                 15
  CLUS_4                0                  8
  CLUS_5                7                 49
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  12P LOSS MUTATED        4     10      7
  12P LOSS WILD-TYPE     18     53     49
D63V10, multiclass
        clus
vv       12P LOSS MUTATED 12P LOSS WILD-TYPE
  CLUS_1                4                 18
  CLUS_2               10                 53
  CLUS_3                7                 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 CLUS_4
  12P LOSS MUTATED        1      5      0      2
  12P LOSS WILD-TYPE      8      9     14     11
D63V11, multiclass
        clus
vv       12P LOSS MUTATED 12P LOSS WILD-TYPE
  CLUS_1                1                  8
  CLUS_2                5                  9
  CLUS_3                0                 14
  CLUS_4                2                 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
  12P LOSS MUTATED        2      3      1      1      1
  12P LOSS WILD-TYPE      7     10     17      4      4
D63V12, multiclass
        clus
vv       12P LOSS MUTATED 12P LOSS WILD-TYPE
  CLUS_1                2                  7
  CLUS_2                3                 10
  CLUS_3                1                 17
  CLUS_4                1                  4
  CLUS_5                1                  4
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(64) Variable = 12Q LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  12Q LOSS MUTATED        1      2      3
  12Q LOSS WILD-TYPE     24     20     19
D64V1, multiclass
        clus
vv       12Q LOSS MUTATED 12Q LOSS WILD-TYPE
  CLUS_1                1                 24
  CLUS_2                2                 20
  CLUS_3                3                 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 CLUS_8
  12Q LOSS MUTATED        1      1      1      2      1      0      0      0
  12Q LOSS WILD-TYPE      5     12     12      7      7      9      8      3
D64V2, multiclass
        clus
vv       12Q LOSS MUTATED 12Q LOSS WILD-TYPE
  CLUS_1                1                  5
  CLUS_2                1                 12
  CLUS_3                1                 12
  CLUS_4                2                  7
  CLUS_5                1                  7
  CLUS_6                0                  9
  CLUS_7                0                  8
  CLUS_8                0                  3
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  12Q LOSS MUTATED        4      6      4      5
  12Q LOSS WILD-TYPE     62     26     27     31
D64V3, multiclass
        clus
vv       12Q LOSS MUTATED 12Q LOSS WILD-TYPE
  CLUS_1                4                 62
  CLUS_2                6                 26
  CLUS_3                4                 27
  CLUS_4                5                 31
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  12Q LOSS MUTATED        3      6      4
  12Q LOSS WILD-TYPE     25     33     25
D64V4, multiclass
        clus
vv       12Q LOSS MUTATED 12Q LOSS WILD-TYPE
  CLUS_1                3                 25
  CLUS_2                6                 33
  CLUS_3                4                 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
  12Q LOSS MUTATED        5      7      1      3      0
  12Q LOSS WILD-TYPE     37     20     24     27      3
D64V5, multiclass
        clus
vv       12Q LOSS MUTATED 12Q LOSS WILD-TYPE
  CLUS_1                5                 37
  CLUS_2                7                 20
  CLUS_3                1                 24
  CLUS_4                3                 27
  CLUS_5                0                  3
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  12Q LOSS MUTATED        1      2      4      2      3      4
  12Q LOSS WILD-TYPE     19     18     20     16     26     12
D64V6, multiclass
        clus
vv       12Q LOSS MUTATED 12Q LOSS WILD-TYPE
  CLUS_1                1                 19
  CLUS_2                2                 18
  CLUS_3                4                 20
  CLUS_4                2                 16
  CLUS_5                3                 26
  CLUS_6                4                 12
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  12Q LOSS MUTATED        4      2      5      2      6
  12Q LOSS WILD-TYPE     25     12     28     26     54
D64V7, multiclass
        clus
vv       12Q LOSS MUTATED 12Q LOSS WILD-TYPE
  CLUS_1                4                 25
  CLUS_2                2                 12
  CLUS_3                5                 28
  CLUS_4                2                 26
  CLUS_5                6                 54
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  12Q LOSS MUTATED        4      5      2      3      5      0      0
  12Q LOSS WILD-TYPE     23     31     10     16     27     18     20
D64V8, multiclass
        clus
vv       12Q LOSS MUTATED 12Q LOSS WILD-TYPE
  CLUS_1                4                 23
  CLUS_2                5                 31
  CLUS_3                2                 10
  CLUS_4                3                 16
  CLUS_5                5                 27
  CLUS_6                0                 18
  CLUS_7                0                 20
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  12Q LOSS MUTATED        4      7      1      0      5
  12Q LOSS WILD-TYPE     14     35     16      8     51
D64V9, multiclass
        clus
vv       12Q LOSS MUTATED 12Q LOSS WILD-TYPE
  CLUS_1                4                 14
  CLUS_2                7                 35
  CLUS_3                1                 16
  CLUS_4                0                  8
  CLUS_5                5                 51
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  12Q LOSS MUTATED        3     10      4
  12Q LOSS WILD-TYPE     19     53     52
D64V10, multiclass
        clus
vv       12Q LOSS MUTATED 12Q LOSS WILD-TYPE
  CLUS_1                3                 19
  CLUS_2               10                 53
  CLUS_3                4                 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 CLUS_4
  12Q LOSS MUTATED        1      5      1      2
  12Q LOSS WILD-TYPE      8      9     13     11
D64V11, multiclass
        clus
vv       12Q LOSS MUTATED 12Q LOSS WILD-TYPE
  CLUS_1                1                  8
  CLUS_2                5                  9
  CLUS_3                1                 13
  CLUS_4                2                 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
  12Q LOSS MUTATED        2      3      2      1      1
  12Q LOSS WILD-TYPE      7     10     16      4      4
D64V12, multiclass
        clus
vv       12Q LOSS MUTATED 12Q LOSS WILD-TYPE
  CLUS_1                2                  7
  CLUS_2                3                 10
  CLUS_3                2                 16
  CLUS_4                1                  4
  CLUS_5                1                  4
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(65) Variable = 13Q LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  13Q LOSS MUTATED        1      2      0
  13Q LOSS WILD-TYPE     24     20     22
D65V1, multiclass
        clus
vv       13Q LOSS MUTATED 13Q LOSS WILD-TYPE
  CLUS_1                1                 24
  CLUS_2                2                 20
  CLUS_3                0                 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 CLUS_8
  13Q LOSS MUTATED        0      1      1      0      0      1      0      0
  13Q LOSS WILD-TYPE      6     12     12      9      8      8      8      3
D65V2, multiclass
        clus
vv       13Q LOSS MUTATED 13Q LOSS WILD-TYPE
  CLUS_1                0                  6
  CLUS_2                1                 12
  CLUS_3                1                 12
  CLUS_4                0                  9
  CLUS_5                0                  8
  CLUS_6                1                  8
  CLUS_7                0                  8
  CLUS_8                0                  3
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  13Q LOSS MUTATED        2      2      1      3
  13Q LOSS WILD-TYPE     64     30     30     33
D65V3, multiclass
        clus
vv       13Q LOSS MUTATED 13Q LOSS WILD-TYPE
  CLUS_1                2                 64
  CLUS_2                2                 30
  CLUS_3                1                 30
  CLUS_4                3                 33
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  13Q LOSS MUTATED        2      0      3
  13Q LOSS WILD-TYPE     26     39     26
D65V4, multiclass
        clus
vv       13Q LOSS MUTATED 13Q LOSS WILD-TYPE
  CLUS_1                2                 26
  CLUS_2                0                 39
  CLUS_3                3                 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
  13Q LOSS MUTATED        2      1      3      2      0
  13Q LOSS WILD-TYPE     40     26     22     28      3
D65V5, multiclass
        clus
vv       13Q LOSS MUTATED 13Q LOSS WILD-TYPE
  CLUS_1                2                 40
  CLUS_2                1                 26
  CLUS_3                3                 22
  CLUS_4                2                 28
  CLUS_5                0                  3
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  13Q LOSS MUTATED        2      0      2      1      3      0
  13Q LOSS WILD-TYPE     18     20     22     17     26     16
D65V6, multiclass
        clus
vv       13Q LOSS MUTATED 13Q LOSS WILD-TYPE
  CLUS_1                2                 18
  CLUS_2                0                 20
  CLUS_3                2                 22
  CLUS_4                1                 17
  CLUS_5                3                 26
  CLUS_6                0                 16
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  13Q LOSS MUTATED        1      0      2      1      4
  13Q LOSS WILD-TYPE     28     14     31     27     56
D65V7, multiclass
        clus
vv       13Q LOSS MUTATED 13Q LOSS WILD-TYPE
  CLUS_1                1                 28
  CLUS_2                0                 14
  CLUS_3                2                 31
  CLUS_4                1                 27
  CLUS_5                4                 56
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  13Q LOSS MUTATED        3      1      0      0      1      2      1
  13Q LOSS WILD-TYPE     24     35     12     19     31     16     19
D65V8, multiclass
        clus
vv       13Q LOSS MUTATED 13Q LOSS WILD-TYPE
  CLUS_1                3                 24
  CLUS_2                1                 35
  CLUS_3                0                 12
  CLUS_4                0                 19
  CLUS_5                1                 31
  CLUS_6                2                 16
  CLUS_7                1                 19
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  13Q LOSS MUTATED        0      1      3      0      3
  13Q LOSS WILD-TYPE     18     41     14      8     53
D65V9, multiclass
        clus
vv       13Q LOSS MUTATED 13Q LOSS WILD-TYPE
  CLUS_1                0                 18
  CLUS_2                1                 41
  CLUS_3                3                 14
  CLUS_4                0                  8
  CLUS_5                3                 53
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  13Q LOSS MUTATED        1      3      3
  13Q LOSS WILD-TYPE     21     60     53
D65V10, multiclass
        clus
vv       13Q LOSS MUTATED 13Q LOSS WILD-TYPE
  CLUS_1                1                 21
  CLUS_2                3                 60
  CLUS_3                3                 53
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  13Q LOSS MUTATED        1      1      0      0
  13Q LOSS WILD-TYPE      8     13     14     13
D65V11, multiclass
[1] "Remove cluster labels:" "13Q LOSS MUTATED"      
clus
  13Q LOSS MUTATED 13Q LOSS WILD-TYPE 
                 2                 48 
        TCGA-AF-2687         TCGA-AF-3911         TCGA-AF-4110 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-AF-6655         TCGA-AF-6672         TCGA-AG-3725 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-AG-3731         TCGA-AG-3732         TCGA-AG-4022 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-AH-6544         TCGA-AH-6547         TCGA-AH-6643 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-BM-6198         TCGA-CI-6619         TCGA-CI-6620 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-CI-6621         TCGA-CI-6624         TCGA-CL-5918 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-DC-4749         TCGA-DC-5337         TCGA-DC-5869 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-DC-6157         TCGA-DC-6158         TCGA-DC-6681 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-DC-6682         TCGA-DC-6683         TCGA-DY-A1DC 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-DY-A1DD         TCGA-DY-A1DE         TCGA-DY-A1DG 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-DY-A1H8         TCGA-EI-6506         TCGA-EI-6507 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-EI-6509         TCGA-EI-6511         TCGA-EI-6513 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-EI-6514         TCGA-F5-6464         TCGA-F5-6465 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-F5-6571         TCGA-F5-6702         TCGA-F5-6810 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-F5-6811         TCGA-F5-6812         TCGA-G5-6233 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-G5-6235         TCGA-G5-6572         TCGA-G5-6641 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  13Q LOSS MUTATED        1      0      0      0      1
  13Q LOSS WILD-TYPE      8     13     18      5      4
D65V12, multiclass
[1] "Remove cluster labels:" "13Q LOSS MUTATED"      
clus
  13Q LOSS MUTATED 13Q LOSS WILD-TYPE 
                 2                 48 
        TCGA-AF-2687         TCGA-AF-3911         TCGA-AF-4110 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-AF-6655         TCGA-AF-6672         TCGA-AG-3725 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-AG-3731         TCGA-AG-3732         TCGA-AG-4022 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-AH-6544         TCGA-AH-6547         TCGA-AH-6643 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-BM-6198         TCGA-CI-6619         TCGA-CI-6620 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-CI-6621         TCGA-CI-6624         TCGA-CL-5918 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-DC-4749         TCGA-DC-5337         TCGA-DC-5869 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-DC-6157         TCGA-DC-6158         TCGA-DC-6681 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-DC-6682         TCGA-DC-6683         TCGA-DY-A1DC 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-DY-A1DD         TCGA-DY-A1DE         TCGA-DY-A1DG 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-DY-A1H8         TCGA-EI-6506         TCGA-EI-6507 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-EI-6509         TCGA-EI-6511         TCGA-EI-6513 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-EI-6514         TCGA-F5-6464         TCGA-F5-6465 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-F5-6571         TCGA-F5-6702         TCGA-F5-6810 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-F5-6811         TCGA-F5-6812         TCGA-G5-6233 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 
        TCGA-G5-6235         TCGA-G5-6572         TCGA-G5-6641 
"13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" "13Q LOSS WILD-TYPE" 

Clustering(66) Variable = 14Q LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  14Q LOSS MUTATED        9      7     11
  14Q LOSS WILD-TYPE     16     15     11
D66V1, multiclass
        clus
vv       14Q LOSS MUTATED 14Q LOSS WILD-TYPE
  CLUS_1                9                 16
  CLUS_2                7                 15
  CLUS_3               11                 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 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  14Q LOSS MUTATED        2      3      5      7      3      3      4      0
  14Q LOSS WILD-TYPE      4     10      8      2      5      6      4      3
D66V2, multiclass
        clus
vv       14Q LOSS MUTATED 14Q LOSS WILD-TYPE
  CLUS_1                2                  4
  CLUS_2                3                 10
  CLUS_3                5                  8
  CLUS_4                7                  2
  CLUS_5                3                  5
  CLUS_6                3                  6
  CLUS_7                4                  4
  CLUS_8                0                  3
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  14Q LOSS MUTATED       20     19     16     12
  14Q LOSS WILD-TYPE     46     13     15     24
D66V3, multiclass
        clus
vv       14Q LOSS MUTATED 14Q LOSS WILD-TYPE
  CLUS_1               20                 46
  CLUS_2               19                 13
  CLUS_3               16                 15
  CLUS_4               12                 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
  14Q LOSS MUTATED       13     18     10
  14Q LOSS WILD-TYPE     15     21     19
D66V4, multiclass
        clus
vv       14Q LOSS MUTATED 14Q LOSS WILD-TYPE
  CLUS_1               13                 15
  CLUS_2               18                 21
  CLUS_3               10                 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
  14Q LOSS MUTATED       19     12     11     11      1
  14Q LOSS WILD-TYPE     23     15     14     19      2
D66V5, multiclass
        clus
vv       14Q LOSS MUTATED 14Q LOSS WILD-TYPE
  CLUS_1               19                 23
  CLUS_2               12                 15
  CLUS_3               11                 14
  CLUS_4               11                 19
  CLUS_5                1                  2
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  14Q LOSS MUTATED        9      8     10      7     11      9
  14Q LOSS WILD-TYPE     11     12     14     11     18      7
D66V6, multiclass
        clus
vv       14Q LOSS MUTATED 14Q LOSS WILD-TYPE
  CLUS_1                9                 11
  CLUS_2                8                 12
  CLUS_3               10                 14
  CLUS_4                7                 11
  CLUS_5               11                 18
  CLUS_6                9                  7
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  14Q LOSS MUTATED        9      4     12     15     26
  14Q LOSS WILD-TYPE     20     10     21     13     34
D66V7, multiclass
        clus
vv       14Q LOSS MUTATED 14Q LOSS WILD-TYPE
  CLUS_1                9                 20
  CLUS_2                4                 10
  CLUS_3               12                 21
  CLUS_4               15                 13
  CLUS_5               26                 34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  14Q LOSS MUTATED       12     13      3     12     16      3      7
  14Q LOSS WILD-TYPE     15     23      9      7     16     15     13
D66V8, multiclass
        clus
vv       14Q LOSS MUTATED 14Q LOSS WILD-TYPE
  CLUS_1               12                 15
  CLUS_2               13                 23
  CLUS_3                3                  9
  CLUS_4               12                  7
  CLUS_5               16                 16
  CLUS_6                3                 15
  CLUS_7                7                 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 CLUS_5
  14Q LOSS MUTATED        6     23      6      3     20
  14Q LOSS WILD-TYPE     12     19     11      5     36
D66V9, multiclass
        clus
vv       14Q LOSS MUTATED 14Q LOSS WILD-TYPE
  CLUS_1                6                 12
  CLUS_2               23                 19
  CLUS_3                6                 11
  CLUS_4                3                  5
  CLUS_5               20                 36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  14Q LOSS MUTATED       11     29     18
  14Q LOSS WILD-TYPE     11     34     38
D66V10, multiclass
        clus
vv       14Q LOSS MUTATED 14Q LOSS WILD-TYPE
  CLUS_1               11                 11
  CLUS_2               29                 34
  CLUS_3               18                 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
  14Q LOSS MUTATED        5      6      9      7
  14Q LOSS WILD-TYPE      4      8      5      6
D66V11, multiclass
        clus
vv       14Q LOSS MUTATED 14Q LOSS WILD-TYPE
  CLUS_1                5                  4
  CLUS_2                6                  8
  CLUS_3                9                  5
  CLUS_4                7                  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
  14Q LOSS MUTATED        5      6     10      4      2
  14Q LOSS WILD-TYPE      4      7      8      1      3
D66V12, multiclass
        clus
vv       14Q LOSS MUTATED 14Q LOSS WILD-TYPE
  CLUS_1                5                  4
  CLUS_2                6                  7
  CLUS_3               10                  8
  CLUS_4                4                  1
  CLUS_5                2                  3
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(67) Variable = 15Q LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  15Q LOSS MUTATED       10     11     13
  15Q LOSS WILD-TYPE     15     11      9
D67V1, multiclass
        clus
vv       15Q LOSS MUTATED 15Q LOSS WILD-TYPE
  CLUS_1               10                 15
  CLUS_2               11                 11
  CLUS_3               13                  9
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  15Q LOSS MUTATED        1      7      6      5      7      3      5      0
  15Q LOSS WILD-TYPE      5      6      7      4      1      6      3      3
D67V2, multiclass
        clus
vv       15Q LOSS MUTATED 15Q LOSS WILD-TYPE
  CLUS_1                1                  5
  CLUS_2                7                  6
  CLUS_3                6                  7
  CLUS_4                5                  4
  CLUS_5                7                  1
  CLUS_6                3                  6
  CLUS_7                5                  3
  CLUS_8                0                  3
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  15Q LOSS MUTATED       17     21     15     20
  15Q LOSS WILD-TYPE     49     11     16     16
D67V3, multiclass
        clus
vv       15Q LOSS MUTATED 15Q LOSS WILD-TYPE
  CLUS_1               17                 49
  CLUS_2               21                 11
  CLUS_3               15                 16
  CLUS_4               20                 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
  15Q LOSS MUTATED       12     16     12
  15Q LOSS WILD-TYPE     16     23     17
D67V4, multiclass
        clus
vv       15Q LOSS MUTATED 15Q LOSS WILD-TYPE
  CLUS_1               12                 16
  CLUS_2               16                 23
  CLUS_3               12                 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
  15Q LOSS MUTATED       22     11      8     12      3
  15Q LOSS WILD-TYPE     20     16     17     18      0
D67V5, multiclass
        clus
vv       15Q LOSS MUTATED 15Q LOSS WILD-TYPE
  CLUS_1               22                 20
  CLUS_2               11                 16
  CLUS_3                8                 17
  CLUS_4               12                 18
  CLUS_5                3                  0
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  15Q LOSS MUTATED        7      7     11      8     13     10
  15Q LOSS WILD-TYPE     13     13     13     10     16      6
D67V6, multiclass
        clus
vv       15Q LOSS MUTATED 15Q LOSS WILD-TYPE
  CLUS_1                7                 13
  CLUS_2                7                 13
  CLUS_3               11                 13
  CLUS_4                8                 10
  CLUS_5               13                 16
  CLUS_6               10                  6
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  15Q LOSS MUTATED       13      3     15     12     30
  15Q LOSS WILD-TYPE     16     11     18     16     30
D67V7, multiclass
        clus
vv       15Q LOSS MUTATED 15Q LOSS WILD-TYPE
  CLUS_1               13                 16
  CLUS_2                3                 11
  CLUS_3               15                 18
  CLUS_4               12                 16
  CLUS_5               30                 30
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  15Q LOSS MUTATED       16     13      4      7     15      7     11
  15Q LOSS WILD-TYPE     11     23      8     12     17     11      9
D67V8, multiclass
        clus
vv       15Q LOSS MUTATED 15Q LOSS WILD-TYPE
  CLUS_1               16                 11
  CLUS_2               13                 23
  CLUS_3                4                  8
  CLUS_4                7                 12
  CLUS_5               15                 17
  CLUS_6                7                 11
  CLUS_7               11                  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 CLUS_5
  15Q LOSS MUTATED       10     19      6      3     25
  15Q LOSS WILD-TYPE      8     23     11      5     31
D67V9, multiclass
        clus
vv       15Q LOSS MUTATED 15Q LOSS WILD-TYPE
  CLUS_1               10                  8
  CLUS_2               19                 23
  CLUS_3                6                 11
  CLUS_4                3                  5
  CLUS_5               25                 31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  15Q LOSS MUTATED       12     27     24
  15Q LOSS WILD-TYPE     10     36     32
D67V10, multiclass
        clus
vv       15Q LOSS MUTATED 15Q LOSS WILD-TYPE
  CLUS_1               12                 10
  CLUS_2               27                 36
  CLUS_3               24                 32
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  15Q LOSS MUTATED        4      6      8      6
  15Q LOSS WILD-TYPE      5      8      6      7
D67V11, multiclass
        clus
vv       15Q LOSS MUTATED 15Q LOSS WILD-TYPE
  CLUS_1                4                  5
  CLUS_2                6                  8
  CLUS_3                8                  6
  CLUS_4                6                  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
  15Q LOSS MUTATED        4      6     10      3      1
  15Q LOSS WILD-TYPE      5      7      8      2      4
D67V12, multiclass
        clus
vv       15Q LOSS MUTATED 15Q LOSS WILD-TYPE
  CLUS_1                4                  5
  CLUS_2                6                  7
  CLUS_3               10                  8
  CLUS_4                3                  2
  CLUS_5                1                  4
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(68) Variable = 16P LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  16P LOSS MUTATED        0      2      2
  16P LOSS WILD-TYPE     25     20     20
D68V1, multiclass
        clus
vv       16P LOSS MUTATED 16P LOSS WILD-TYPE
  CLUS_1                0                 25
  CLUS_2                2                 20
  CLUS_3                2                 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 CLUS_8
  16P LOSS MUTATED        0      1      0      1      1      0      1      0
  16P LOSS WILD-TYPE      6     12     13      8      7      9      7      3
D68V2, multiclass
        clus
vv       16P LOSS MUTATED 16P LOSS WILD-TYPE
  CLUS_1                0                  6
  CLUS_2                1                 12
  CLUS_3                0                 13
  CLUS_4                1                  8
  CLUS_5                1                  7
  CLUS_6                0                  9
  CLUS_7                1                  7
  CLUS_8                0                  3
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  16P LOSS MUTATED        1      3      1      4
  16P LOSS WILD-TYPE     65     29     30     32
D68V3, multiclass
        clus
vv       16P LOSS MUTATED 16P LOSS WILD-TYPE
  CLUS_1                1                 65
  CLUS_2                3                 29
  CLUS_3                1                 30
  CLUS_4                4                 32
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  16P LOSS MUTATED        0      1      4
  16P LOSS WILD-TYPE     28     38     25
D68V4, multiclass
        clus
vv       16P LOSS MUTATED 16P LOSS WILD-TYPE
  CLUS_1                0                 28
  CLUS_2                1                 38
  CLUS_3                4                 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
  16P LOSS MUTATED        1      3      3      1      0
  16P LOSS WILD-TYPE     41     24     22     29      3
D68V5, multiclass
        clus
vv       16P LOSS MUTATED 16P LOSS WILD-TYPE
  CLUS_1                1                 41
  CLUS_2                3                 24
  CLUS_3                3                 22
  CLUS_4                1                 29
  CLUS_5                0                  3
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  16P LOSS MUTATED        1      1      2      3      1      0
  16P LOSS WILD-TYPE     19     19     22     15     28     16
D68V6, multiclass
        clus
vv       16P LOSS MUTATED 16P LOSS WILD-TYPE
  CLUS_1                1                 19
  CLUS_2                1                 19
  CLUS_3                2                 22
  CLUS_4                3                 15
  CLUS_5                1                 28
  CLUS_6                0                 16
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  16P LOSS MUTATED        1      0      5      1      2
  16P LOSS WILD-TYPE     28     14     28     27     58
D68V7, multiclass
        clus
vv       16P LOSS MUTATED 16P LOSS WILD-TYPE
  CLUS_1                1                 28
  CLUS_2                0                 14
  CLUS_3                5                 28
  CLUS_4                1                 27
  CLUS_5                2                 58
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  16P LOSS MUTATED        1      2      1      1      1      2      1
  16P LOSS WILD-TYPE     26     34     11     18     31     16     19
D68V8, multiclass
        clus
vv       16P LOSS MUTATED 16P LOSS WILD-TYPE
  CLUS_1                1                 26
  CLUS_2                2                 34
  CLUS_3                1                 11
  CLUS_4                1                 18
  CLUS_5                1                 31
  CLUS_6                2                 16
  CLUS_7                1                 19
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  16P LOSS MUTATED        0      4      0      0      4
  16P LOSS WILD-TYPE     18     38     17      8     52
D68V9, multiclass
        clus
vv       16P LOSS MUTATED 16P LOSS WILD-TYPE
  CLUS_1                0                 18
  CLUS_2                4                 38
  CLUS_3                0                 17
  CLUS_4                0                  8
  CLUS_5                4                 52
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  16P LOSS MUTATED        1      4      3
  16P LOSS WILD-TYPE     21     59     53
D68V10, multiclass
        clus
vv       16P LOSS MUTATED 16P LOSS WILD-TYPE
  CLUS_1                1                 21
  CLUS_2                4                 59
  CLUS_3                3                 53
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  16P LOSS MUTATED        1      0      2      0
  16P LOSS WILD-TYPE      8     14     12     13
D68V11, multiclass
        clus
vv       16P LOSS MUTATED 16P LOSS WILD-TYPE
  CLUS_1                1                  8
  CLUS_2                0                 14
  CLUS_3                2                 12
  CLUS_4                0                 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
  16P LOSS MUTATED        1      0      1      0      1
  16P LOSS WILD-TYPE      8     13     17      5      4
D68V12, multiclass
        clus
vv       16P LOSS MUTATED 16P LOSS WILD-TYPE
  CLUS_1                1                  8
  CLUS_2                0                 13
  CLUS_3                1                 17
  CLUS_4                0                  5
  CLUS_5                1                  4
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(69) Variable = 16Q LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  16Q LOSS MUTATED        1      4      2
  16Q LOSS WILD-TYPE     24     18     20
D69V1, multiclass
        clus
vv       16Q LOSS MUTATED 16Q LOSS WILD-TYPE
  CLUS_1                1                 24
  CLUS_2                4                 18
  CLUS_3                2                 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 CLUS_8
  16Q LOSS MUTATED        1      1      0      1      1      1      2      0
  16Q LOSS WILD-TYPE      5     12     13      8      7      8      6      3
D69V2, multiclass
        clus
vv       16Q LOSS MUTATED 16Q LOSS WILD-TYPE
  CLUS_1                1                  5
  CLUS_2                1                 12
  CLUS_3                0                 13
  CLUS_4                1                  8
  CLUS_5                1                  7
  CLUS_6                1                  8
  CLUS_7                2                  6
  CLUS_8                0                  3
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  16Q LOSS MUTATED        3      4      1      7
  16Q LOSS WILD-TYPE     63     28     30     29
D69V3, multiclass
        clus
vv       16Q LOSS MUTATED 16Q LOSS WILD-TYPE
  CLUS_1                3                 63
  CLUS_2                4                 28
  CLUS_3                1                 30
  CLUS_4                7                 29
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  16Q LOSS MUTATED        1      3      4
  16Q LOSS WILD-TYPE     27     36     25
D69V4, multiclass
        clus
vv       16Q LOSS MUTATED 16Q LOSS WILD-TYPE
  CLUS_1                1                 27
  CLUS_2                3                 36
  CLUS_3                4                 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
  16Q LOSS MUTATED        3      3      4      1      0
  16Q LOSS WILD-TYPE     39     24     21     29      3
D69V5, multiclass
        clus
vv       16Q LOSS MUTATED 16Q LOSS WILD-TYPE
  CLUS_1                3                 39
  CLUS_2                3                 24
  CLUS_3                4                 21
  CLUS_4                1                 29
  CLUS_5                0                  3
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  16Q LOSS MUTATED        2      1      2      3      2      1
  16Q LOSS WILD-TYPE     18     19     22     15     27     15
D69V6, multiclass
        clus
vv       16Q LOSS MUTATED 16Q LOSS WILD-TYPE
  CLUS_1                2                 18
  CLUS_2                1                 19
  CLUS_3                2                 22
  CLUS_4                3                 15
  CLUS_5                2                 27
  CLUS_6                1                 15
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  16Q LOSS MUTATED        2      1      6      1      5
  16Q LOSS WILD-TYPE     27     13     27     27     55
D69V7, multiclass
        clus
vv       16Q LOSS MUTATED 16Q LOSS WILD-TYPE
  CLUS_1                2                 27
  CLUS_2                1                 13
  CLUS_3                6                 27
  CLUS_4                1                 27
  CLUS_5                5                 55
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  16Q LOSS MUTATED        2      4      1      1      3      2      2
  16Q LOSS WILD-TYPE     25     32     11     18     29     16     18
D69V8, multiclass
        clus
vv       16Q LOSS MUTATED 16Q LOSS WILD-TYPE
  CLUS_1                2                 25
  CLUS_2                4                 32
  CLUS_3                1                 11
  CLUS_4                1                 18
  CLUS_5                3                 29
  CLUS_6                2                 16
  CLUS_7                2                 18
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  16Q LOSS MUTATED        1      5      1      0      7
  16Q LOSS WILD-TYPE     17     37     16      8     49
D69V9, multiclass
        clus
vv       16Q LOSS MUTATED 16Q LOSS WILD-TYPE
  CLUS_1                1                 17
  CLUS_2                5                 37
  CLUS_3                1                 16
  CLUS_4                0                  8
  CLUS_5                7                 49
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  16Q LOSS MUTATED        2      6      6
  16Q LOSS WILD-TYPE     20     57     50
D69V10, multiclass
        clus
vv       16Q LOSS MUTATED 16Q LOSS WILD-TYPE
  CLUS_1                2                 20
  CLUS_2                6                 57
  CLUS_3                6                 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 CLUS_4
  16Q LOSS MUTATED        1      1      2      2
  16Q LOSS WILD-TYPE      8     13     12     11
D69V11, multiclass
        clus
vv       16Q LOSS MUTATED 16Q LOSS WILD-TYPE
  CLUS_1                1                  8
  CLUS_2                1                 13
  CLUS_3                2                 12
  CLUS_4                2                 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
  16Q LOSS MUTATED        1      2      2      0      1
  16Q LOSS WILD-TYPE      8     11     16      5      4
D69V12, multiclass
        clus
vv       16Q LOSS MUTATED 16Q LOSS WILD-TYPE
  CLUS_1                1                  8
  CLUS_2                2                 11
  CLUS_3                2                 16
  CLUS_4                0                  5
  CLUS_5                1                  4
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(70) Variable = 17P LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  17P LOSS MUTATED       13     14     17
  17P LOSS WILD-TYPE     12      8      5
D70V1, multiclass
        clus
vv       17P LOSS MUTATED 17P LOSS WILD-TYPE
  CLUS_1               13                 12
  CLUS_2               14                  8
  CLUS_3               17                  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 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  17P LOSS MUTATED        3      9      9      8      6      5      3      1
  17P LOSS WILD-TYPE      3      4      4      1      2      4      5      2
D70V2, multiclass
        clus
vv       17P LOSS MUTATED 17P LOSS WILD-TYPE
  CLUS_1                3                  3
  CLUS_2                9                  4
  CLUS_3                9                  4
  CLUS_4                8                  1
  CLUS_5                6                  2
  CLUS_6                5                  4
  CLUS_7                3                  5
  CLUS_8                1                  2
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  17P LOSS MUTATED       38     22     18     29
  17P LOSS WILD-TYPE     28     10     13      7
D70V3, multiclass
        clus
vv       17P LOSS MUTATED 17P LOSS WILD-TYPE
  CLUS_1               38                 28
  CLUS_2               22                 10
  CLUS_3               18                 13
  CLUS_4               29                  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
  17P LOSS MUTATED       18     23     23
  17P LOSS WILD-TYPE     10     16      6
D70V4, multiclass
        clus
vv       17P LOSS MUTATED 17P LOSS WILD-TYPE
  CLUS_1               18                 10
  CLUS_2               23                 16
  CLUS_3               23                  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 CLUS_5
  17P LOSS MUTATED       26     17     16     22      3
  17P LOSS WILD-TYPE     16     10      9      8      0
D70V5, multiclass
        clus
vv       17P LOSS MUTATED 17P LOSS WILD-TYPE
  CLUS_1               26                 16
  CLUS_2               17                 10
  CLUS_3               16                  9
  CLUS_4               22                  8
  CLUS_5                3                  0
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  17P LOSS MUTATED       14     13     17     13     15     12
  17P LOSS WILD-TYPE      6      7      7      5     14      4
D70V6, multiclass
        clus
vv       17P LOSS MUTATED 17P LOSS WILD-TYPE
  CLUS_1               14                  6
  CLUS_2               13                  7
  CLUS_3               17                  7
  CLUS_4               13                  5
  CLUS_5               15                 14
  CLUS_6               12                  4
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  17P LOSS MUTATED       19     11     18     18     40
  17P LOSS WILD-TYPE     10      3     15     10     20
D70V7, multiclass
        clus
vv       17P LOSS MUTATED 17P LOSS WILD-TYPE
  CLUS_1               19                 10
  CLUS_2               11                  3
  CLUS_3               18                 15
  CLUS_4               18                 10
  CLUS_5               40                 20
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  17P LOSS MUTATED       19     24     10     10     19     10     14
  17P LOSS WILD-TYPE      8     12      2      9     13      8      6
D70V8, multiclass
        clus
vv       17P LOSS MUTATED 17P LOSS WILD-TYPE
  CLUS_1               19                  8
  CLUS_2               24                 12
  CLUS_3               10                  2
  CLUS_4               10                  9
  CLUS_5               19                 13
  CLUS_6               10                  8
  CLUS_7               14                  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 CLUS_5
  17P LOSS MUTATED       12     26     12      5     35
  17P LOSS WILD-TYPE      6     16      5      3     21
D70V9, multiclass
        clus
vv       17P LOSS MUTATED 17P LOSS WILD-TYPE
  CLUS_1               12                  6
  CLUS_2               26                 16
  CLUS_3               12                  5
  CLUS_4                5                  3
  CLUS_5               35                 21
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  17P LOSS MUTATED       17     39     34
  17P LOSS WILD-TYPE      5     24     22
D70V10, multiclass
        clus
vv       17P LOSS MUTATED 17P LOSS WILD-TYPE
  CLUS_1               17                  5
  CLUS_2               39                 24
  CLUS_3               34                 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
  17P LOSS MUTATED        3     10      8      9
  17P LOSS WILD-TYPE      6      4      6      4
D70V11, multiclass
        clus
vv       17P LOSS MUTATED 17P LOSS WILD-TYPE
  CLUS_1                3                  6
  CLUS_2               10                  4
  CLUS_3                8                  6
  CLUS_4                9                  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 CLUS_4 CLUS_5
  17P LOSS MUTATED        6      9     11      2      2
  17P LOSS WILD-TYPE      3      4      7      3      3
D70V12, multiclass
        clus
vv       17P LOSS MUTATED 17P LOSS WILD-TYPE
  CLUS_1                6                  3
  CLUS_2                9                  4
  CLUS_3               11                  7
  CLUS_4                2                  3
  CLUS_5                2                  3
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(71) Variable = 17Q LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  17Q LOSS MUTATED        4      2      3
  17Q LOSS WILD-TYPE     21     20     19
D71V1, multiclass
        clus
vv       17Q LOSS MUTATED 17Q LOSS WILD-TYPE
  CLUS_1                4                 21
  CLUS_2                2                 20
  CLUS_3                3                 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 CLUS_8
  17Q LOSS MUTATED        0      2      3      1      1      0      1      1
  17Q LOSS WILD-TYPE      6     11     10      8      7      9      7      2
D71V2, multiclass
        clus
vv       17Q LOSS MUTATED 17Q LOSS WILD-TYPE
  CLUS_1                0                  6
  CLUS_2                2                 11
  CLUS_3                3                 10
  CLUS_4                1                  8
  CLUS_5                1                  7
  CLUS_6                0                  9
  CLUS_7                1                  7
  CLUS_8                1                  2
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  17Q LOSS MUTATED        8      8      1      9
  17Q LOSS WILD-TYPE     58     24     30     27
D71V3, multiclass
        clus
vv       17Q LOSS MUTATED 17Q LOSS WILD-TYPE
  CLUS_1                8                 58
  CLUS_2                8                 24
  CLUS_3                1                 30
  CLUS_4                9                 27
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  17Q LOSS MUTATED        4      4      9
  17Q LOSS WILD-TYPE     24     35     20
D71V4, multiclass
        clus
vv       17Q LOSS MUTATED 17Q LOSS WILD-TYPE
  CLUS_1                4                 24
  CLUS_2                4                 35
  CLUS_3                9                 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
  17Q LOSS MUTATED        9      3      3      5      0
  17Q LOSS WILD-TYPE     33     24     22     25      3
D71V5, multiclass
        clus
vv       17Q LOSS MUTATED 17Q LOSS WILD-TYPE
  CLUS_1                9                 33
  CLUS_2                3                 24
  CLUS_3                3                 22
  CLUS_4                5                 25
  CLUS_5                0                  3
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  17Q LOSS MUTATED        0      2      4      5      5      4
  17Q LOSS WILD-TYPE     20     18     20     13     24     12
D71V6, multiclass
        clus
vv       17Q LOSS MUTATED 17Q LOSS WILD-TYPE
  CLUS_1                0                 20
  CLUS_2                2                 18
  CLUS_3                4                 20
  CLUS_4                5                 13
  CLUS_5                5                 24
  CLUS_6                4                 12
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  17Q LOSS MUTATED        6      3      9      2      6
  17Q LOSS WILD-TYPE     23     11     24     26     54
D71V7, multiclass
        clus
vv       17Q LOSS MUTATED 17Q LOSS WILD-TYPE
  CLUS_1                6                 23
  CLUS_2                3                 11
  CLUS_3                9                 24
  CLUS_4                2                 26
  CLUS_5                6                 54
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  17Q LOSS MUTATED        5      6      5      2      3      2      3
  17Q LOSS WILD-TYPE     22     30      7     17     29     16     17
D71V8, multiclass
        clus
vv       17Q LOSS MUTATED 17Q LOSS WILD-TYPE
  CLUS_1                5                 22
  CLUS_2                6                 30
  CLUS_3                5                  7
  CLUS_4                2                 17
  CLUS_5                3                 29
  CLUS_6                2                 16
  CLUS_7                3                 17
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  17Q LOSS MUTATED        3      7      3      1      6
  17Q LOSS WILD-TYPE     15     35     14      7     50
D71V9, multiclass
        clus
vv       17Q LOSS MUTATED 17Q LOSS WILD-TYPE
  CLUS_1                3                 15
  CLUS_2                7                 35
  CLUS_3                3                 14
  CLUS_4                1                  7
  CLUS_5                6                 50
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  17Q LOSS MUTATED        3     10      7
  17Q LOSS WILD-TYPE     19     53     49
D71V10, multiclass
        clus
vv       17Q LOSS MUTATED 17Q LOSS WILD-TYPE
  CLUS_1                3                 19
  CLUS_2               10                 53
  CLUS_3                7                 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 CLUS_4
  17Q LOSS MUTATED        1      3      1      0
  17Q LOSS WILD-TYPE      8     11     13     13
D71V11, multiclass
        clus
vv       17Q LOSS MUTATED 17Q LOSS WILD-TYPE
  CLUS_1                1                  8
  CLUS_2                3                 11
  CLUS_3                1                 13
  CLUS_4                0                 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
  17Q LOSS MUTATED        2      1      1      1      0
  17Q LOSS WILD-TYPE      7     12     17      4      5
D71V12, multiclass
        clus
vv       17Q LOSS MUTATED 17Q LOSS WILD-TYPE
  CLUS_1                2                  7
  CLUS_2                1                 12
  CLUS_3                1                 17
  CLUS_4                1                  4
  CLUS_5                0                  5
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(72) Variable = 18P LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  18P LOSS MUTATED       15     16     20
  18P LOSS WILD-TYPE     10      6      2
D72V1, multiclass
        clus
vv       18P LOSS MUTATED 18P LOSS WILD-TYPE
  CLUS_1               15                 10
  CLUS_2               16                  6
  CLUS_3               20                  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 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  18P LOSS MUTATED        4      9      9      8      7      7      6      1
  18P LOSS WILD-TYPE      2      4      4      1      1      2      2      2
D72V2, multiclass
        clus
vv       18P LOSS MUTATED 18P LOSS WILD-TYPE
  CLUS_1                4                  2
  CLUS_2                9                  4
  CLUS_3                9                  4
  CLUS_4                8                  1
  CLUS_5                7                  1
  CLUS_6                7                  2
  CLUS_7                6                  2
  CLUS_8                1                  2
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  18P LOSS MUTATED       42     26     30     30
  18P LOSS WILD-TYPE     24      6      1      6
D72V3, multiclass
        clus
vv       18P LOSS MUTATED 18P LOSS WILD-TYPE
  CLUS_1               42                 24
  CLUS_2               26                  6
  CLUS_3               30                  1
  CLUS_4               30                  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
  18P LOSS MUTATED       27     28     23
  18P LOSS WILD-TYPE      1     11      6
D72V4, multiclass
        clus
vv       18P LOSS MUTATED 18P LOSS WILD-TYPE
  CLUS_1               27                  1
  CLUS_2               28                 11
  CLUS_3               23                  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 CLUS_5
  18P LOSS MUTATED       32     22     16     24      3
  18P LOSS WILD-TYPE     10      5      9      6      0
D72V5, multiclass
        clus
vv       18P LOSS MUTATED 18P LOSS WILD-TYPE
  CLUS_1               32                 10
  CLUS_2               22                  5
  CLUS_3               16                  9
  CLUS_4               24                  6
  CLUS_5                3                  0
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  18P LOSS MUTATED       14     17     18     14     19     15
  18P LOSS WILD-TYPE      6      3      6      4     10      1
D72V6, multiclass
        clus
vv       18P LOSS MUTATED 18P LOSS WILD-TYPE
  CLUS_1               14                  6
  CLUS_2               17                  3
  CLUS_3               18                  6
  CLUS_4               14                  4
  CLUS_5               19                 10
  CLUS_6               15                  1
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  18P LOSS MUTATED       25     10     21     25     46
  18P LOSS WILD-TYPE      4      4     12      3     14
D72V7, multiclass
        clus
vv       18P LOSS MUTATED 18P LOSS WILD-TYPE
  CLUS_1               25                  4
  CLUS_2               10                  4
  CLUS_3               21                 12
  CLUS_4               25                  3
  CLUS_5               46                 14
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  18P LOSS MUTATED       26     27      7     17     25     10     15
  18P LOSS WILD-TYPE      1      9      5      2      7      8      5
D72V8, multiclass
        clus
vv       18P LOSS MUTATED 18P LOSS WILD-TYPE
  CLUS_1               26                  1
  CLUS_2               27                  9
  CLUS_3                7                  5
  CLUS_4               17                  2
  CLUS_5               25                  7
  CLUS_6               10                  8
  CLUS_7               15                  5
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  18P LOSS MUTATED       15     37     14      6     38
  18P LOSS WILD-TYPE      3      5      3      2     18
D72V9, multiclass
        clus
vv       18P LOSS MUTATED 18P LOSS WILD-TYPE
  CLUS_1               15                  3
  CLUS_2               37                  5
  CLUS_3               14                  3
  CLUS_4                6                  2
  CLUS_5               38                 18
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  18P LOSS MUTATED       19     52     39
  18P LOSS WILD-TYPE      3     11     17
D72V10, multiclass
        clus
vv       18P LOSS MUTATED 18P LOSS WILD-TYPE
  CLUS_1               19                  3
  CLUS_2               52                 11
  CLUS_3               39                 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
  18P LOSS MUTATED        9     12     11     11
  18P LOSS WILD-TYPE      0      2      3      2
D72V11, multiclass
        clus
vv       18P LOSS MUTATED 18P LOSS WILD-TYPE
  CLUS_1                9                  0
  CLUS_2               12                  2
  CLUS_3               11                  3
  CLUS_4               11                  2
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  18P LOSS MUTATED        9     11     14      5      4
  18P LOSS WILD-TYPE      0      2      4      0      1
D72V12, multiclass
        clus
vv       18P LOSS MUTATED 18P LOSS WILD-TYPE
  CLUS_1                9                  0
  CLUS_2               11                  2
  CLUS_3               14                  4
  CLUS_4                5                  0
  CLUS_5                4                  1
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(73) Variable = 18Q LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  18Q LOSS MUTATED       16     19     21
  18Q LOSS WILD-TYPE      9      3      1
D73V1, multiclass
        clus
vv       18Q LOSS MUTATED 18Q LOSS WILD-TYPE
  CLUS_1               16                  9
  CLUS_2               19                  3
  CLUS_3               21                  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 CLUS_8
  18Q LOSS MUTATED        4     11     10      9      8      7      6      1
  18Q LOSS WILD-TYPE      2      2      3      0      0      2      2      2
D73V2, multiclass
        clus
vv       18Q LOSS MUTATED 18Q LOSS WILD-TYPE
  CLUS_1                4                  2
  CLUS_2               11                  2
  CLUS_3               10                  3
  CLUS_4                9                  0
  CLUS_5                8                  0
  CLUS_6                7                  2
  CLUS_7                6                  2
  CLUS_8                1                  2
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  18Q LOSS MUTATED       45     28     31     34
  18Q LOSS WILD-TYPE     21      4      0      2
D73V3, multiclass
        clus
vv       18Q LOSS MUTATED 18Q LOSS WILD-TYPE
  CLUS_1               45                 21
  CLUS_2               28                  4
  CLUS_3               31                  0
  CLUS_4               34                  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
  18Q LOSS MUTATED       28     30     25
  18Q LOSS WILD-TYPE      0      9      4
D73V4, multiclass
        clus
vv       18Q LOSS MUTATED 18Q LOSS WILD-TYPE
  CLUS_1               28                  0
  CLUS_2               30                  9
  CLUS_3               25                  4
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  18Q LOSS MUTATED       34     24     19     25      3
  18Q LOSS WILD-TYPE      8      3      6      5      0
D73V5, multiclass
        clus
vv       18Q LOSS MUTATED 18Q LOSS WILD-TYPE
  CLUS_1               34                  8
  CLUS_2               24                  3
  CLUS_3               19                  6
  CLUS_4               25                  5
  CLUS_5                3                  0
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  18Q LOSS MUTATED       16     17     22     16     19     15
  18Q LOSS WILD-TYPE      4      3      2      2     10      1
D73V6, multiclass
        clus
vv       18Q LOSS MUTATED 18Q LOSS WILD-TYPE
  CLUS_1               16                  4
  CLUS_2               17                  3
  CLUS_3               22                  2
  CLUS_4               16                  2
  CLUS_5               19                 10
  CLUS_6               15                  1
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  18Q LOSS MUTATED       26     12     22     26     51
  18Q LOSS WILD-TYPE      3      2     11      2      9
D73V7, multiclass
        clus
vv       18Q LOSS MUTATED 18Q LOSS WILD-TYPE
  CLUS_1               26                  3
  CLUS_2               12                  2
  CLUS_3               22                 11
  CLUS_4               26                  2
  CLUS_5               51                  9
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  18Q LOSS MUTATED       27     30      7     17     27     13     16
  18Q LOSS WILD-TYPE      0      6      5      2      5      5      4
D73V8, multiclass
        clus
vv       18Q LOSS MUTATED 18Q LOSS WILD-TYPE
  CLUS_1               27                  0
  CLUS_2               30                  6
  CLUS_3                7                  5
  CLUS_4               17                  2
  CLUS_5               27                  5
  CLUS_6               13                  5
  CLUS_7               16                  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 CLUS_5
  18Q LOSS MUTATED       16     38     15      7     43
  18Q LOSS WILD-TYPE      2      4      2      1     13
D73V9, multiclass
        clus
vv       18Q LOSS MUTATED 18Q LOSS WILD-TYPE
  CLUS_1               16                  2
  CLUS_2               38                  4
  CLUS_3               15                  2
  CLUS_4                7                  1
  CLUS_5               43                 13
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  18Q LOSS MUTATED       22     54     43
  18Q LOSS WILD-TYPE      0      9     13
D73V10, multiclass
        clus
vv       18Q LOSS MUTATED 18Q LOSS WILD-TYPE
  CLUS_1               22                  0
  CLUS_2               54                  9
  CLUS_3               43                 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
  18Q LOSS MUTATED        9     13     11     11
  18Q LOSS WILD-TYPE      0      1      3      2
D73V11, multiclass
        clus
vv       18Q LOSS MUTATED 18Q LOSS WILD-TYPE
  CLUS_1                9                  0
  CLUS_2               13                  1
  CLUS_3               11                  3
  CLUS_4               11                  2
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  18Q LOSS MUTATED        9     11     14      5      5
  18Q LOSS WILD-TYPE      0      2      4      0      0
D73V12, multiclass
        clus
vv       18Q LOSS MUTATED 18Q LOSS WILD-TYPE
  CLUS_1                9                  0
  CLUS_2               11                  2
  CLUS_3               14                  4
  CLUS_4                5                  0
  CLUS_5                5                  0
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(74) Variable = 19P LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  19P LOSS MUTATED        1      2      2
  19P LOSS WILD-TYPE     24     20     20
D74V1, multiclass
        clus
vv       19P LOSS MUTATED 19P LOSS WILD-TYPE
  CLUS_1                1                 24
  CLUS_2                2                 20
  CLUS_3                2                 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 CLUS_8
  19P LOSS MUTATED        0      1      1      2      0      1      0      0
  19P LOSS WILD-TYPE      6     12     12      7      8      8      8      3
D74V2, multiclass
        clus
vv       19P LOSS MUTATED 19P LOSS WILD-TYPE
  CLUS_1                0                  6
  CLUS_2                1                 12
  CLUS_3                1                 12
  CLUS_4                2                  7
  CLUS_5                0                  8
  CLUS_6                1                  8
  CLUS_7                0                  8
  CLUS_8                0                  3
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  19P LOSS MUTATED        4      6      6      5
  19P LOSS WILD-TYPE     62     26     25     31
D74V3, multiclass
        clus
vv       19P LOSS MUTATED 19P LOSS WILD-TYPE
  CLUS_1                4                 62
  CLUS_2                6                 26
  CLUS_3                6                 25
  CLUS_4                5                 31
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  19P LOSS MUTATED        9      3      4
  19P LOSS WILD-TYPE     19     36     25
D74V4, multiclass
        clus
vv       19P LOSS MUTATED 19P LOSS WILD-TYPE
  CLUS_1                9                 19
  CLUS_2                3                 36
  CLUS_3                4                 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
  19P LOSS MUTATED        7      4      2      2      0
  19P LOSS WILD-TYPE     35     23     23     28      3
D74V5, multiclass
        clus
vv       19P LOSS MUTATED 19P LOSS WILD-TYPE
  CLUS_1                7                 35
  CLUS_2                4                 23
  CLUS_3                2                 23
  CLUS_4                2                 28
  CLUS_5                0                  3
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  19P LOSS MUTATED        2      4      3      1      3      2
  19P LOSS WILD-TYPE     18     16     21     17     26     14
D74V6, multiclass
        clus
vv       19P LOSS MUTATED 19P LOSS WILD-TYPE
  CLUS_1                2                 18
  CLUS_2                4                 16
  CLUS_3                3                 21
  CLUS_4                1                 17
  CLUS_5                3                 26
  CLUS_6                2                 14
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  19P LOSS MUTATED        4      2      3      6      6
  19P LOSS WILD-TYPE     25     12     30     22     54
D74V7, multiclass
        clus
vv       19P LOSS MUTATED 19P LOSS WILD-TYPE
  CLUS_1                4                 25
  CLUS_2                2                 12
  CLUS_3                3                 30
  CLUS_4                6                 22
  CLUS_5                6                 54
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  19P LOSS MUTATED        5      4      1      5      3      1      2
  19P LOSS WILD-TYPE     22     32     11     14     29     17     18
D74V8, multiclass
        clus
vv       19P LOSS MUTATED 19P LOSS WILD-TYPE
  CLUS_1                5                 22
  CLUS_2                4                 32
  CLUS_3                1                 11
  CLUS_4                5                 14
  CLUS_5                3                 29
  CLUS_6                1                 17
  CLUS_7                2                 18
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  19P LOSS MUTATED        4      8      1      1      5
  19P LOSS WILD-TYPE     14     34     16      7     51
D74V9, multiclass
        clus
vv       19P LOSS MUTATED 19P LOSS WILD-TYPE
  CLUS_1                4                 14
  CLUS_2                8                 34
  CLUS_3                1                 16
  CLUS_4                1                  7
  CLUS_5                5                 51
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  19P LOSS MUTATED        7      8      4
  19P LOSS WILD-TYPE     15     55     52
D74V10, multiclass
        clus
vv       19P LOSS MUTATED 19P LOSS WILD-TYPE
  CLUS_1                7                 15
  CLUS_2                8                 55
  CLUS_3                4                 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 CLUS_4
  19P LOSS MUTATED        2      3      2      3
  19P LOSS WILD-TYPE      7     11     12     10
D74V11, multiclass
        clus
vv       19P LOSS MUTATED 19P LOSS WILD-TYPE
  CLUS_1                2                  7
  CLUS_2                3                 11
  CLUS_3                2                 12
  CLUS_4                3                 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
  19P LOSS MUTATED        3      2      4      1      0
  19P LOSS WILD-TYPE      6     11     14      4      5
D74V12, multiclass
        clus
vv       19P LOSS MUTATED 19P LOSS WILD-TYPE
  CLUS_1                3                  6
  CLUS_2                2                 11
  CLUS_3                4                 14
  CLUS_4                1                  4
  CLUS_5                0                  5
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(75) Variable = 19Q LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  19Q LOSS MUTATED        1      2      1
  19Q LOSS WILD-TYPE     24     20     21
D75V1, multiclass
        clus
vv       19Q LOSS MUTATED 19Q LOSS WILD-TYPE
  CLUS_1                1                 24
  CLUS_2                2                 20
  CLUS_3                1                 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 CLUS_8
  19Q LOSS MUTATED        0      1      0      1      0      2      0      0
  19Q LOSS WILD-TYPE      6     12     13      8      8      7      8      3
D75V2, multiclass
        clus
vv       19Q LOSS MUTATED 19Q LOSS WILD-TYPE
  CLUS_1                0                  6
  CLUS_2                1                 12
  CLUS_3                0                 13
  CLUS_4                1                  8
  CLUS_5                0                  8
  CLUS_6                2                  7
  CLUS_7                0                  8
  CLUS_8                0                  3
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  19Q LOSS MUTATED        3      6      5      6
  19Q LOSS WILD-TYPE     63     26     26     30
D75V3, multiclass
        clus
vv       19Q LOSS MUTATED 19Q LOSS WILD-TYPE
  CLUS_1                3                 63
  CLUS_2                6                 26
  CLUS_3                5                 26
  CLUS_4                6                 30
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  19Q LOSS MUTATED        8      3      5
  19Q LOSS WILD-TYPE     20     36     24
D75V4, multiclass
        clus
vv       19Q LOSS MUTATED 19Q LOSS WILD-TYPE
  CLUS_1                8                 20
  CLUS_2                3                 36
  CLUS_3                5                 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
  19Q LOSS MUTATED        5      4      2      2      1
  19Q LOSS WILD-TYPE     37     23     23     28      2
D75V5, multiclass
        clus
vv       19Q LOSS MUTATED 19Q LOSS WILD-TYPE
  CLUS_1                5                 37
  CLUS_2                4                 23
  CLUS_3                2                 23
  CLUS_4                2                 28
  CLUS_5                1                  2
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  19Q LOSS MUTATED        2      4      3      1      2      2
  19Q LOSS WILD-TYPE     18     16     21     17     27     14
D75V6, multiclass
        clus
vv       19Q LOSS MUTATED 19Q LOSS WILD-TYPE
  CLUS_1                2                 18
  CLUS_2                4                 16
  CLUS_3                3                 21
  CLUS_4                1                 17
  CLUS_5                2                 27
  CLUS_6                2                 14
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  19Q LOSS MUTATED        5      2      3      5      5
  19Q LOSS WILD-TYPE     24     12     30     23     55
D75V7, multiclass
        clus
vv       19Q LOSS MUTATED 19Q LOSS WILD-TYPE
  CLUS_1                5                 24
  CLUS_2                2                 12
  CLUS_3                3                 30
  CLUS_4                5                 23
  CLUS_5                5                 55
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  19Q LOSS MUTATED        5      6      1      3      2      1      2
  19Q LOSS WILD-TYPE     22     30     11     16     30     17     18
D75V8, multiclass
        clus
vv       19Q LOSS MUTATED 19Q LOSS WILD-TYPE
  CLUS_1                5                 22
  CLUS_2                6                 30
  CLUS_3                1                 11
  CLUS_4                3                 16
  CLUS_5                2                 30
  CLUS_6                1                 17
  CLUS_7                2                 18
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  19Q LOSS MUTATED        4      8      1      2      3
  19Q LOSS WILD-TYPE     14     34     16      6     53
D75V9, multiclass
        clus
vv       19Q LOSS MUTATED 19Q LOSS WILD-TYPE
  CLUS_1                4                 14
  CLUS_2                8                 34
  CLUS_3                1                 16
  CLUS_4                2                  6
  CLUS_5                3                 53
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  19Q LOSS MUTATED        7      8      3
  19Q LOSS WILD-TYPE     15     55     53
D75V10, multiclass
        clus
vv       19Q LOSS MUTATED 19Q LOSS WILD-TYPE
  CLUS_1                7                 15
  CLUS_2                8                 55
  CLUS_3                3                 53
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  19Q LOSS MUTATED        2      3      2      2
  19Q LOSS WILD-TYPE      7     11     12     11
D75V11, multiclass
        clus
vv       19Q LOSS MUTATED 19Q LOSS WILD-TYPE
  CLUS_1                2                  7
  CLUS_2                3                 11
  CLUS_3                2                 12
  CLUS_4                2                 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
  19Q LOSS MUTATED        3      2      3      1      0
  19Q LOSS WILD-TYPE      6     11     15      4      5
D75V12, multiclass
        clus
vv       19Q LOSS MUTATED 19Q LOSS WILD-TYPE
  CLUS_1                3                  6
  CLUS_2                2                 11
  CLUS_3                3                 15
  CLUS_4                1                  4
  CLUS_5                0                  5
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(76) Variable = 20P LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  20P LOSS MUTATED        4      4      4
  20P LOSS WILD-TYPE     21     18     18
D76V1, multiclass
        clus
vv       20P LOSS MUTATED 20P LOSS WILD-TYPE
  CLUS_1                4                 21
  CLUS_2                4                 18
  CLUS_3                4                 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 CLUS_8
  20P LOSS MUTATED        1      1      3      2      2      2      1      0
  20P LOSS WILD-TYPE      5     12     10      7      6      7      7      3
D76V2, multiclass
        clus
vv       20P LOSS MUTATED 20P LOSS WILD-TYPE
  CLUS_1                1                  5
  CLUS_2                1                 12
  CLUS_3                3                 10
  CLUS_4                2                  7
  CLUS_5                2                  6
  CLUS_6                2                  7
  CLUS_7                1                  7
  CLUS_8                0                  3
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  20P LOSS MUTATED        4      5      5      9
  20P LOSS WILD-TYPE     62     27     26     27
D76V3, multiclass
        clus
vv       20P LOSS MUTATED 20P LOSS WILD-TYPE
  CLUS_1                4                 62
  CLUS_2                5                 27
  CLUS_3                5                 26
  CLUS_4                9                 27
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  20P LOSS MUTATED        6      3      3
  20P LOSS WILD-TYPE     22     36     26
D76V4, multiclass
        clus
vv       20P LOSS MUTATED 20P LOSS WILD-TYPE
  CLUS_1                6                 22
  CLUS_2                3                 36
  CLUS_3                3                 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
  20P LOSS MUTATED        3      4      6      5      1
  20P LOSS WILD-TYPE     39     23     19     25      2
D76V5, multiclass
        clus
vv       20P LOSS MUTATED 20P LOSS WILD-TYPE
  CLUS_1                3                 39
  CLUS_2                4                 23
  CLUS_3                6                 19
  CLUS_4                5                 25
  CLUS_5                1                  2
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  20P LOSS MUTATED        4      4      3      3      4      1
  20P LOSS WILD-TYPE     16     16     21     15     25     15
D76V6, multiclass
        clus
vv       20P LOSS MUTATED 20P LOSS WILD-TYPE
  CLUS_1                4                 16
  CLUS_2                4                 16
  CLUS_3                3                 21
  CLUS_4                3                 15
  CLUS_5                4                 25
  CLUS_6                1                 15
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  20P LOSS MUTATED        3      3      2      4     11
  20P LOSS WILD-TYPE     26     11     31     24     49
D76V7, multiclass
        clus
vv       20P LOSS MUTATED 20P LOSS WILD-TYPE
  CLUS_1                3                 26
  CLUS_2                3                 11
  CLUS_3                2                 31
  CLUS_4                4                 24
  CLUS_5               11                 49
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  20P LOSS MUTATED        4      4      1      1      6      2      5
  20P LOSS WILD-TYPE     23     32     11     18     26     16     15
D76V8, multiclass
        clus
vv       20P LOSS MUTATED 20P LOSS WILD-TYPE
  CLUS_1                4                 23
  CLUS_2                4                 32
  CLUS_3                1                 11
  CLUS_4                1                 18
  CLUS_5                6                 26
  CLUS_6                2                 16
  CLUS_7                5                 15
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  20P LOSS MUTATED        4      3      0      3     10
  20P LOSS WILD-TYPE     14     39     17      5     46
D76V9, multiclass
        clus
vv       20P LOSS MUTATED 20P LOSS WILD-TYPE
  CLUS_1                4                 14
  CLUS_2                3                 39
  CLUS_3                0                 17
  CLUS_4                3                  5
  CLUS_5               10                 46
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  20P LOSS MUTATED        6      4     10
  20P LOSS WILD-TYPE     16     59     46
D76V10, multiclass
        clus
vv       20P LOSS MUTATED 20P LOSS WILD-TYPE
  CLUS_1                6                 16
  CLUS_2                4                 59
  CLUS_3               10                 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 CLUS_4
  20P LOSS MUTATED        0      4      2      1
  20P LOSS WILD-TYPE      9     10     12     12
D76V11, multiclass
        clus
vv       20P LOSS MUTATED 20P LOSS WILD-TYPE
  CLUS_1                0                  9
  CLUS_2                4                 10
  CLUS_3                2                 12
  CLUS_4                1                 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
  20P LOSS MUTATED        2      5      0      0      0
  20P LOSS WILD-TYPE      7      8     18      5      5
D76V12, multiclass
        clus
vv       20P LOSS MUTATED 20P LOSS WILD-TYPE
  CLUS_1                2                  7
  CLUS_2                5                  8
  CLUS_3                0                 18
  CLUS_4                0                  5
  CLUS_5                0                  5
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(77) Variable = 21Q LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  21Q LOSS MUTATED        6      9     10
  21Q LOSS WILD-TYPE     19     13     12
D77V1, multiclass
        clus
vv       21Q LOSS MUTATED 21Q LOSS WILD-TYPE
  CLUS_1                6                 19
  CLUS_2                9                 13
  CLUS_3               10                 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 CLUS_8
  21Q LOSS MUTATED        2      4      2      4      5      3      5      0
  21Q LOSS WILD-TYPE      4      9     11      5      3      6      3      3
D77V2, multiclass
        clus
vv       21Q LOSS MUTATED 21Q LOSS WILD-TYPE
  CLUS_1                2                  4
  CLUS_2                4                  9
  CLUS_3                2                 11
  CLUS_4                4                  5
  CLUS_5                5                  3
  CLUS_6                3                  6
  CLUS_7                5                  3
  CLUS_8                0                  3
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  21Q LOSS MUTATED       23     16     15     14
  21Q LOSS WILD-TYPE     43     16     16     22
D77V3, multiclass
        clus
vv       21Q LOSS MUTATED 21Q LOSS WILD-TYPE
  CLUS_1               23                 43
  CLUS_2               16                 16
  CLUS_3               15                 16
  CLUS_4               14                 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
  21Q LOSS MUTATED       13     17     13
  21Q LOSS WILD-TYPE     15     22     16
D77V4, multiclass
        clus
vv       21Q LOSS MUTATED 21Q LOSS WILD-TYPE
  CLUS_1               13                 15
  CLUS_2               17                 22
  CLUS_3               13                 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
  21Q LOSS MUTATED       21     10      9     15      0
  21Q LOSS WILD-TYPE     21     17     16     15      3
D77V5, multiclass
        clus
vv       21Q LOSS MUTATED 21Q LOSS WILD-TYPE
  CLUS_1               21                 21
  CLUS_2               10                 17
  CLUS_3                9                 16
  CLUS_4               15                 15
  CLUS_5                0                  3
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  21Q LOSS MUTATED       10      9      9      8     10      9
  21Q LOSS WILD-TYPE     10     11     15     10     19      7
D77V6, multiclass
        clus
vv       21Q LOSS MUTATED 21Q LOSS WILD-TYPE
  CLUS_1               10                 10
  CLUS_2                9                 11
  CLUS_3                9                 15
  CLUS_4                8                 10
  CLUS_5               10                 19
  CLUS_6                9                  7
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  21Q LOSS MUTATED       10      7     14     13     23
  21Q LOSS WILD-TYPE     19      7     19     15     37
D77V7, multiclass
        clus
vv       21Q LOSS MUTATED 21Q LOSS WILD-TYPE
  CLUS_1               10                 19
  CLUS_2                7                  7
  CLUS_3               14                 19
  CLUS_4               13                 15
  CLUS_5               23                 37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  21Q LOSS MUTATED       14     16      4      5     13      6      9
  21Q LOSS WILD-TYPE     13     20      8     14     19     12     11
D77V8, multiclass
        clus
vv       21Q LOSS MUTATED 21Q LOSS WILD-TYPE
  CLUS_1               14                 13
  CLUS_2               16                 20
  CLUS_3                4                  8
  CLUS_4                5                 14
  CLUS_5               13                 19
  CLUS_6                6                 12
  CLUS_7                9                 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 CLUS_5
  21Q LOSS MUTATED        7     22      2      6     24
  21Q LOSS WILD-TYPE     11     20     15      2     32
D77V9, multiclass
        clus
vv       21Q LOSS MUTATED 21Q LOSS WILD-TYPE
  CLUS_1                7                 11
  CLUS_2               22                 20
  CLUS_3                2                 15
  CLUS_4                6                  2
  CLUS_5               24                 32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  21Q LOSS MUTATED       13     23     25
  21Q LOSS WILD-TYPE      9     40     31
D77V10, multiclass
        clus
vv       21Q LOSS MUTATED 21Q LOSS WILD-TYPE
  CLUS_1               13                  9
  CLUS_2               23                 40
  CLUS_3               25                 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
  21Q LOSS MUTATED        2      5      8      8
  21Q LOSS WILD-TYPE      7      9      6      5
D77V11, multiclass
        clus
vv       21Q LOSS MUTATED 21Q LOSS WILD-TYPE
  CLUS_1                2                  7
  CLUS_2                5                  9
  CLUS_3                8                  6
  CLUS_4                8                  5
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  21Q LOSS MUTATED        4      6     12      1      0
  21Q LOSS WILD-TYPE      5      7      6      4      5
D77V12, multiclass
        clus
vv       21Q LOSS MUTATED 21Q LOSS WILD-TYPE
  CLUS_1                4                  5
  CLUS_2                6                  7
  CLUS_3               12                  6
  CLUS_4                1                  4
  CLUS_5                0                  5
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(78) Variable = 22Q LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  22Q LOSS MUTATED        7      8      8
  22Q LOSS WILD-TYPE     18     14     14
D78V1, multiclass
        clus
vv       22Q LOSS MUTATED 22Q LOSS WILD-TYPE
  CLUS_1                7                 18
  CLUS_2                8                 14
  CLUS_3                8                 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 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  22Q LOSS MUTATED        1      3      3      6      4      3      3      0
  22Q LOSS WILD-TYPE      5     10     10      3      4      6      5      3
D78V2, multiclass
        clus
vv       22Q LOSS MUTATED 22Q LOSS WILD-TYPE
  CLUS_1                1                  5
  CLUS_2                3                 10
  CLUS_3                3                 10
  CLUS_4                6                  3
  CLUS_5                4                  4
  CLUS_6                3                  6
  CLUS_7                3                  5
  CLUS_8                0                  3
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  22Q LOSS MUTATED       17     17     12     12
  22Q LOSS WILD-TYPE     49     15     19     24
D78V3, multiclass
        clus
vv       22Q LOSS MUTATED 22Q LOSS WILD-TYPE
  CLUS_1               17                 49
  CLUS_2               17                 15
  CLUS_3               12                 19
  CLUS_4               12                 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        9     15     12
  22Q LOSS WILD-TYPE     19     24     17
D78V4, multiclass
        clus
vv       22Q LOSS MUTATED 22Q LOSS WILD-TYPE
  CLUS_1                9                 19
  CLUS_2               15                 24
  CLUS_3               12                 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
  22Q LOSS MUTATED       17      9      7     12      0
  22Q LOSS WILD-TYPE     25     18     18     18      3
D78V5, multiclass
        clus
vv       22Q LOSS MUTATED 22Q LOSS WILD-TYPE
  CLUS_1               17                 25
  CLUS_2                9                 18
  CLUS_3                7                 18
  CLUS_4               12                 18
  CLUS_5                0                  3
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  22Q LOSS MUTATED        6      7      5      8     10      9
  22Q LOSS WILD-TYPE     14     13     19     10     19      7
D78V6, multiclass
        clus
vv       22Q LOSS MUTATED 22Q LOSS WILD-TYPE
  CLUS_1                6                 14
  CLUS_2                7                 13
  CLUS_3                5                 19
  CLUS_4                8                 10
  CLUS_5               10                 19
  CLUS_6                9                  7
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  22Q LOSS MUTATED        9      6     15      6     22
  22Q LOSS WILD-TYPE     20      8     18     22     38
D78V7, multiclass
        clus
vv       22Q LOSS MUTATED 22Q LOSS WILD-TYPE
  CLUS_1                9                 20
  CLUS_2                6                  8
  CLUS_3               15                 18
  CLUS_4                6                 22
  CLUS_5               22                 38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  22Q LOSS MUTATED        9     18      4      3     14      4      6
  22Q LOSS WILD-TYPE     18     18      8     16     18     14     14
D78V8, multiclass
        clus
vv       22Q LOSS MUTATED 22Q LOSS WILD-TYPE
  CLUS_1                9                 18
  CLUS_2               18                 18
  CLUS_3                4                  8
  CLUS_4                3                 16
  CLUS_5               14                 18
  CLUS_6                4                 14
  CLUS_7                6                 14
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  22Q LOSS MUTATED        4     24      2      4     20
  22Q LOSS WILD-TYPE     14     18     15      4     36
D78V9, multiclass
        clus
vv       22Q LOSS MUTATED 22Q LOSS WILD-TYPE
  CLUS_1                4                 14
  CLUS_2               24                 18
  CLUS_3                2                 15
  CLUS_4                4                  4
  CLUS_5               20                 36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  22Q LOSS MUTATED       12     24     18
  22Q LOSS WILD-TYPE     10     39     38
D78V10, multiclass
        clus
vv       22Q LOSS MUTATED 22Q LOSS WILD-TYPE
  CLUS_1               12                 10
  CLUS_2               24                 39
  CLUS_3               18                 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
  22Q LOSS MUTATED        3      5     10      4
  22Q LOSS WILD-TYPE      6      9      4      9
D78V11, multiclass
        clus
vv       22Q LOSS MUTATED 22Q LOSS WILD-TYPE
  CLUS_1                3                  6
  CLUS_2                5                  9
  CLUS_3               10                  4
  CLUS_4                4                  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
  22Q LOSS MUTATED        7      3     10      2      0
  22Q LOSS WILD-TYPE      2     10      8      3      5
D78V12, multiclass
        clus
vv       22Q LOSS MUTATED 22Q LOSS WILD-TYPE
  CLUS_1                7                  2
  CLUS_2                3                 10
  CLUS_3               10                  8
  CLUS_4                2                  3
  CLUS_5                0                  5
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(79) Variable = XP LOSS MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  XP LOSS MUTATED        3      6      2
  XP LOSS WILD-TYPE     22     16     20
D79V1, multiclass
        clus
vv       XP LOSS MUTATED XP LOSS WILD-TYPE
  CLUS_1               3                22
  CLUS_2               6                16
  CLUS_3               2                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 CLUS_8
  XP LOSS MUTATED        1      3      2      1      2      2      0      0
  XP LOSS WILD-TYPE      5     10     11      8      6      7      8      3
D79V2, multiclass
        clus
vv       XP LOSS MUTATED XP LOSS WILD-TYPE
  CLUS_1               1                 5
  CLUS_2               3                10
  CLUS_3               2                11
  CLUS_4               1                 8
  CLUS_5               2                 6
  CLUS_6               2                 7
  CLUS_7               0                 8
  CLUS_8               0                 3
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  XP LOSS MUTATED        8      5      3      9
  XP LOSS WILD-TYPE     58     27     28     27
D79V3, multiclass
        clus
vv       XP LOSS MUTATED XP LOSS WILD-TYPE
  CLUS_1               8                58
  CLUS_2               5                27
  CLUS_3               3                28
  CLUS_4               9                27
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  XP LOSS MUTATED        3      8      3
  XP LOSS WILD-TYPE     25     31     26
D79V4, multiclass
        clus
vv       XP LOSS MUTATED XP LOSS WILD-TYPE
  CLUS_1               3                25
  CLUS_2               8                31
  CLUS_3               3                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
  XP LOSS MUTATED        8      3      7      3      0
  XP LOSS WILD-TYPE     34     24     18     27      3
D79V5, multiclass
        clus
vv       XP LOSS MUTATED XP LOSS WILD-TYPE
  CLUS_1               8                34
  CLUS_2               3                24
  CLUS_3               7                18
  CLUS_4               3                27
  CLUS_5               0                 3
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  XP LOSS MUTATED        5      1      2      6      6      1
  XP LOSS WILD-TYPE     15     19     22     12     23     15
D79V6, multiclass
        clus
vv       XP LOSS MUTATED XP LOSS WILD-TYPE
  CLUS_1               5                15
  CLUS_2               1                19
  CLUS_3               2                22
  CLUS_4               6                12
  CLUS_5               6                23
  CLUS_6               1                15
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  XP LOSS MUTATED        3      2      8      2     10
  XP LOSS WILD-TYPE     26     12     25     26     50
D79V7, multiclass
        clus
vv       XP LOSS MUTATED XP LOSS WILD-TYPE
  CLUS_1               3                26
  CLUS_2               2                12
  CLUS_3               8                25
  CLUS_4               2                26
  CLUS_5              10                50
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  XP LOSS MUTATED        4      5      2      2      4      5      3
  XP LOSS WILD-TYPE     23     31     10     17     28     13     17
D79V8, multiclass
        clus
vv       XP LOSS MUTATED XP LOSS WILD-TYPE
  CLUS_1               4                23
  CLUS_2               5                31
  CLUS_3               2                10
  CLUS_4               2                17
  CLUS_5               4                28
  CLUS_6               5                13
  CLUS_7               3                17
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  XP LOSS MUTATED        3      6      2      1     10
  XP LOSS WILD-TYPE     15     36     15      7     46
D79V9, multiclass
        clus
vv       XP LOSS MUTATED XP LOSS WILD-TYPE
  CLUS_1               3                15
  CLUS_2               6                36
  CLUS_3               2                15
  CLUS_4               1                 7
  CLUS_5              10                46
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  XP LOSS MUTATED        5      9      8
  XP LOSS WILD-TYPE     17     54     48
D79V10, multiclass
        clus
vv       XP LOSS MUTATED XP LOSS WILD-TYPE
  CLUS_1               5                17
  CLUS_2               9                54
  CLUS_3               8                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 CLUS_4
  XP LOSS MUTATED        0      3      2      1
  XP LOSS WILD-TYPE      9     11     12     12
D79V11, multiclass
        clus
vv       XP LOSS MUTATED XP LOSS WILD-TYPE
  CLUS_1               0                 9
  CLUS_2               3                11
  CLUS_3               2                12
  CLUS_4               1                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
  XP LOSS MUTATED        1      3      2      0      0
  XP LOSS WILD-TYPE      8     10     16      5      5
D79V12, multiclass
        clus
vv       XP LOSS MUTATED XP LOSS WILD-TYPE
  CLUS_1               1                 8
  CLUS_2               3                10
  CLUS_3               2                16
  CLUS_4               0                 5
  CLUS_5               0                 5
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(80) Variable = XQ LOSS MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  XQ LOSS MUTATED        2      4      3
  XQ LOSS WILD-TYPE     23     18     19
D80V1, multiclass
        clus
vv       XQ LOSS MUTATED XQ LOSS WILD-TYPE
  CLUS_1               2                23
  CLUS_2               4                18
  CLUS_3               3                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 CLUS_8
  XQ LOSS MUTATED        0      1      2      1      3      2      0      0
  XQ LOSS WILD-TYPE      6     12     11      8      5      7      8      3
D80V2, multiclass
        clus
vv       XQ LOSS MUTATED XQ LOSS WILD-TYPE
  CLUS_1               0                 6
  CLUS_2               1                12
  CLUS_3               2                11
  CLUS_4               1                 8
  CLUS_5               3                 5
  CLUS_6               2                 7
  CLUS_7               0                 8
  CLUS_8               0                 3
[1] 8 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  XQ LOSS MUTATED        9      5      3      7
  XQ LOSS WILD-TYPE     57     27     28     29
D80V3, multiclass
        clus
vv       XQ LOSS MUTATED XQ LOSS WILD-TYPE
  CLUS_1               9                57
  CLUS_2               5                27
  CLUS_3               3                28
  CLUS_4               7                29
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  XQ LOSS MUTATED        3      9      3
  XQ LOSS WILD-TYPE     25     30     26
D80V4, multiclass
        clus
vv       XQ LOSS MUTATED XQ LOSS WILD-TYPE
  CLUS_1               3                25
  CLUS_2               9                30
  CLUS_3               3                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
  XQ LOSS MUTATED        8      3      5      4      0
  XQ LOSS WILD-TYPE     34     24     20     26      3
D80V5, multiclass
        clus
vv       XQ LOSS MUTATED XQ LOSS WILD-TYPE
  CLUS_1               8                34
  CLUS_2               3                24
  CLUS_3               5                20
  CLUS_4               4                26
  CLUS_5               0                 3
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  XQ LOSS MUTATED        3      1      3      5      7      1
  XQ LOSS WILD-TYPE     17     19     21     13     22     15
D80V6, multiclass
        clus
vv       XQ LOSS MUTATED XQ LOSS WILD-TYPE
  CLUS_1               3                17
  CLUS_2               1                19
  CLUS_3               3                21
  CLUS_4               5                13
  CLUS_5               7                22
  CLUS_6               1                15
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  XQ LOSS MUTATED        3      2      8      3      8
  XQ LOSS WILD-TYPE     26     12     25     25     52
D80V7, multiclass
        clus
vv       XQ LOSS MUTATED XQ LOSS WILD-TYPE
  CLUS_1               3                26
  CLUS_2               2                12
  CLUS_3               8                25
  CLUS_4               3                25
  CLUS_5               8                52
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  XQ LOSS MUTATED        4      5      2      3      3      3      4
  XQ LOSS WILD-TYPE     23     31     10     16     29     15     16
D80V8, multiclass
        clus
vv       XQ LOSS MUTATED XQ LOSS WILD-TYPE
  CLUS_1               4                23
  CLUS_2               5                31
  CLUS_3               2                10
  CLUS_4               3                16
  CLUS_5               3                29
  CLUS_6               3                15
  CLUS_7               4                16
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  XQ LOSS MUTATED        3      7      2      2      7
  XQ LOSS WILD-TYPE     15     35     15      6     49
D80V9, multiclass
        clus
vv       XQ LOSS MUTATED XQ LOSS WILD-TYPE
  CLUS_1               3                15
  CLUS_2               7                35
  CLUS_3               2                15
  CLUS_4               2                 6
  CLUS_5               7                49
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  XQ LOSS MUTATED        5     10      6
  XQ LOSS WILD-TYPE     17     53     50
D80V10, multiclass
        clus
vv       XQ LOSS MUTATED XQ LOSS WILD-TYPE
  CLUS_1               5                17
  CLUS_2              10                53
  CLUS_3               6                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 CLUS_4
  XQ LOSS MUTATED        0      3      3      1
  XQ LOSS WILD-TYPE      9     11     11     12
D80V11, multiclass
        clus
vv       XQ LOSS MUTATED XQ LOSS WILD-TYPE
  CLUS_1               0                 9
  CLUS_2               3                11
  CLUS_3               3                11
  CLUS_4               1                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
  XQ LOSS MUTATED        1      3      3      0      0
  XQ LOSS WILD-TYPE      8     10     15      5      5
D80V12, multiclass
        clus
vv       XQ LOSS MUTATED XQ LOSS WILD-TYPE
  CLUS_1               1                 8
  CLUS_2               3                10
  CLUS_3               3                15
  CLUS_4               0                 5
  CLUS_5               0                 5
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
