[1] "ofn"        "-oTPCPG-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/PCPG-TP/22542422/PCPG-TP.transferedmergedcluster.txt"
[1] "dfn:"
[1] "/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_Correlate_Genomic_Events_Preprocess/PCPG-TP/22533878/transformed.cor.cli.txt"

nPatients in clinical file=179, in cluster file=162, common to both=162
[1] "Reduce the number of clustering variables from 82 to 70."
[1]  70 162
[1] "1P GAIN MUTATION ANALYSIS"
[1] 3
  1P GAIN MUTATED 1P GAIN WILD-TYPE 
                6               156 
  1P GAIN MUTATED 1P GAIN WILD-TYPE 
                6               156 
[1] "1Q GAIN MUTATION ANALYSIS"
[1] 3
  1Q GAIN MUTATED 1Q GAIN WILD-TYPE 
               19               143 
  1Q GAIN MUTATED 1Q GAIN WILD-TYPE 
               19               143 
[1] "2P GAIN MUTATION ANALYSIS"
[1] 3
  2P GAIN MUTATED 2P GAIN WILD-TYPE 
                6               156 
  2P GAIN MUTATED 2P GAIN WILD-TYPE 
                6               156 
[1] "4P GAIN MUTATION ANALYSIS"
[1] 3
  4P GAIN MUTATED 4P GAIN WILD-TYPE 
                4               158 
  4P GAIN MUTATED 4P GAIN WILD-TYPE 
                4               158 
[1] "4Q GAIN MUTATION ANALYSIS"
[1] 3
  4Q GAIN MUTATED 4Q GAIN WILD-TYPE 
                3               159 
  4Q GAIN MUTATED 4Q GAIN WILD-TYPE 
                3               159 
[1] "5P GAIN MUTATION ANALYSIS"
[1] 3
  5P GAIN MUTATED 5P GAIN WILD-TYPE 
               11               151 
  5P GAIN MUTATED 5P GAIN WILD-TYPE 
               11               151 
[1] "5Q GAIN MUTATION ANALYSIS"
[1] 3
  5Q GAIN MUTATED 5Q GAIN WILD-TYPE 
                7               155 
  5Q GAIN MUTATED 5Q GAIN WILD-TYPE 
                7               155 
[1] "6P GAIN MUTATION ANALYSIS"
[1] 3
  6P GAIN MUTATED 6P GAIN WILD-TYPE 
               14               148 
  6P GAIN MUTATED 6P GAIN WILD-TYPE 
               14               148 
[1] "6Q GAIN MUTATION ANALYSIS"
[1] 3
  6Q GAIN MUTATED 6Q GAIN WILD-TYPE 
                8               154 
  6Q GAIN MUTATED 6Q GAIN WILD-TYPE 
                8               154 
[1] "7P GAIN MUTATION ANALYSIS"
[1] 3
  7P GAIN MUTATED 7P GAIN WILD-TYPE 
               27               135 
  7P GAIN MUTATED 7P GAIN WILD-TYPE 
               27               135 
[1] "7Q GAIN MUTATION ANALYSIS"
[1] 3
  7Q GAIN MUTATED 7Q GAIN WILD-TYPE 
               21               141 
  7Q GAIN MUTATED 7Q GAIN WILD-TYPE 
               21               141 
[1] "8P GAIN MUTATION ANALYSIS"
[1] 3
  8P GAIN MUTATED 8P GAIN WILD-TYPE 
                9               153 
  8P GAIN MUTATED 8P GAIN WILD-TYPE 
                9               153 
[1] "8Q GAIN MUTATION ANALYSIS"
[1] 3
  8Q GAIN MUTATED 8Q GAIN WILD-TYPE 
               13               149 
  8Q GAIN MUTATED 8Q GAIN WILD-TYPE 
               13               149 
[1] "9P GAIN MUTATION ANALYSIS"
[1] 3
  9P GAIN MUTATED 9P GAIN WILD-TYPE 
                4               158 
  9P GAIN MUTATED 9P GAIN WILD-TYPE 
                4               158 
[1] "9Q GAIN MUTATION ANALYSIS"
[1] 3
  9Q GAIN MUTATED 9Q GAIN WILD-TYPE 
                3               159 
  9Q GAIN MUTATED 9Q GAIN WILD-TYPE 
                3               159 
[1] "10P GAIN MUTATION ANALYSIS"
[1] 3
  10P GAIN MUTATED 10P GAIN WILD-TYPE 
                12                150 
  10P GAIN MUTATED 10P GAIN WILD-TYPE 
                12                150 
[1] "10Q GAIN MUTATION ANALYSIS"
[1] 3
  10Q GAIN MUTATED 10Q GAIN WILD-TYPE 
                10                152 
  10Q GAIN MUTATED 10Q GAIN WILD-TYPE 
                10                152 
[1] "11P GAIN MUTATION ANALYSIS"
[1] 3
  11P GAIN MUTATED 11P GAIN WILD-TYPE 
                 5                157 
  11P GAIN MUTATED 11P GAIN WILD-TYPE 
                 5                157 
[1] "12P GAIN MUTATION ANALYSIS"
[1] 3
  12P GAIN MUTATED 12P GAIN WILD-TYPE 
                11                151 
  12P GAIN MUTATED 12P GAIN WILD-TYPE 
                11                151 
[1] "12Q GAIN MUTATION ANALYSIS"
[1] 3
  12Q GAIN MUTATED 12Q GAIN WILD-TYPE 
                14                148 
  12Q GAIN MUTATED 12Q GAIN WILD-TYPE 
                14                148 
[1] "13Q GAIN MUTATION ANALYSIS"
[1] 3
  13Q GAIN MUTATED 13Q GAIN WILD-TYPE 
                 9                153 
  13Q GAIN MUTATED 13Q GAIN WILD-TYPE 
                 9                153 
[1] "14Q GAIN MUTATION ANALYSIS"
[1] 3
  14Q GAIN MUTATED 14Q GAIN WILD-TYPE 
                 4                158 
  14Q GAIN MUTATED 14Q GAIN WILD-TYPE 
                 4                158 
[1] "15Q GAIN MUTATION ANALYSIS"
[1] 3
  15Q GAIN MUTATED 15Q GAIN WILD-TYPE 
                14                148 
  15Q GAIN MUTATED 15Q GAIN WILD-TYPE 
                14                148 
[1] "16P GAIN MUTATION ANALYSIS"
[1] 3
  16P GAIN MUTATED 16P GAIN WILD-TYPE 
                 6                156 
  16P GAIN MUTATED 16P GAIN WILD-TYPE 
                 6                156 
[1] "16Q GAIN MUTATION ANALYSIS"
[1] 3
  16Q GAIN MUTATED 16Q GAIN WILD-TYPE 
                 6                156 
  16Q GAIN MUTATED 16Q GAIN WILD-TYPE 
                 6                156 
[1] "17Q GAIN MUTATION ANALYSIS"
[1] 3
  17Q GAIN MUTATED 17Q GAIN WILD-TYPE 
                 6                156 
  17Q GAIN MUTATED 17Q GAIN WILD-TYPE 
                 6                156 
[1] "18P GAIN MUTATION ANALYSIS"
[1] 3
  18P GAIN MUTATED 18P GAIN WILD-TYPE 
                 8                154 
  18P GAIN MUTATED 18P GAIN WILD-TYPE 
                 8                154 
[1] "18Q GAIN MUTATION ANALYSIS"
[1] 3
  18Q GAIN MUTATED 18Q GAIN WILD-TYPE 
                10                152 
  18Q GAIN MUTATED 18Q GAIN WILD-TYPE 
                10                152 
[1] "19P GAIN MUTATION ANALYSIS"
[1] 3
  19P GAIN MUTATED 19P GAIN WILD-TYPE 
                20                142 
  19P GAIN MUTATED 19P GAIN WILD-TYPE 
                20                142 
[1] "19Q GAIN MUTATION ANALYSIS"
[1] 3
  19Q GAIN MUTATED 19Q GAIN WILD-TYPE 
                14                148 
  19Q GAIN MUTATED 19Q GAIN WILD-TYPE 
                14                148 
[1] "20P GAIN MUTATION ANALYSIS"
[1] 3
  20P GAIN MUTATED 20P GAIN WILD-TYPE 
                12                150 
  20P GAIN MUTATED 20P GAIN WILD-TYPE 
                12                150 
[1] "20Q GAIN MUTATION ANALYSIS"
[1] 3
  20Q GAIN MUTATED 20Q GAIN WILD-TYPE 
                10                152 
  20Q GAIN MUTATED 20Q GAIN WILD-TYPE 
                10                152 
[1] "21Q GAIN MUTATION ANALYSIS"
[1] 3
  21Q GAIN MUTATED 21Q GAIN WILD-TYPE 
                 3                159 
  21Q GAIN MUTATED 21Q GAIN WILD-TYPE 
                 3                159 
[1] "22Q GAIN MUTATION ANALYSIS"
[1] 3
  22Q GAIN MUTATED 22Q GAIN WILD-TYPE 
                 3                159 
  22Q GAIN MUTATED 22Q GAIN WILD-TYPE 
                 3                159 
[1] "XP GAIN MUTATION ANALYSIS"
[1] 3
  XP GAIN MUTATED XP GAIN WILD-TYPE 
                6               156 
  XP GAIN MUTATED XP GAIN WILD-TYPE 
                6               156 
[1] "XQ GAIN MUTATION ANALYSIS"
[1] 3
  XQ GAIN MUTATED XQ GAIN WILD-TYPE 
                5               157 
  XQ GAIN MUTATED XQ GAIN WILD-TYPE 
                5               157 
[1] "1P LOSS MUTATION ANALYSIS"
[1] 3
  1P LOSS MUTATED 1P LOSS WILD-TYPE 
               97                65 
  1P LOSS MUTATED 1P LOSS WILD-TYPE 
               97                65 
[1] "1Q LOSS MUTATION ANALYSIS"
[1] 3
  1Q LOSS MUTATED 1Q LOSS WILD-TYPE 
               25               137 
  1Q LOSS MUTATED 1Q LOSS WILD-TYPE 
               25               137 
[1] "2P LOSS MUTATION ANALYSIS"
[1] 3
  2P LOSS MUTATED 2P LOSS WILD-TYPE 
               10               152 
  2P LOSS MUTATED 2P LOSS WILD-TYPE 
               10               152 
[1] "2Q LOSS MUTATION ANALYSIS"
[1] 3
  2Q LOSS MUTATED 2Q LOSS WILD-TYPE 
               13               149 
  2Q LOSS MUTATED 2Q LOSS WILD-TYPE 
               13               149 
[1] "3P LOSS MUTATION ANALYSIS"
[1] 3
  3P LOSS MUTATED 3P LOSS WILD-TYPE 
               60               102 
  3P LOSS MUTATED 3P LOSS WILD-TYPE 
               60               102 
[1] "3Q LOSS MUTATION ANALYSIS"
[1] 3
  3Q LOSS MUTATED 3Q LOSS WILD-TYPE 
               87                75 
  3Q LOSS MUTATED 3Q LOSS WILD-TYPE 
               87                75 
[1] "4P LOSS MUTATION ANALYSIS"
[1] 3
  4P LOSS MUTATED 4P LOSS WILD-TYPE 
               11               151 
  4P LOSS MUTATED 4P LOSS WILD-TYPE 
               11               151 
[1] "4Q LOSS MUTATION ANALYSIS"
[1] 3
  4Q LOSS MUTATED 4Q LOSS WILD-TYPE 
               10               152 
  4Q LOSS MUTATED 4Q LOSS WILD-TYPE 
               10               152 
[1] "5P LOSS MUTATION ANALYSIS"
[1] 3
  5P LOSS MUTATED 5P LOSS WILD-TYPE 
                5               157 
  5P LOSS MUTATED 5P LOSS WILD-TYPE 
                5               157 
[1] "5Q LOSS MUTATION ANALYSIS"
[1] 3
  5Q LOSS MUTATED 5Q LOSS WILD-TYPE 
                7               155 
  5Q LOSS MUTATED 5Q LOSS WILD-TYPE 
                7               155 
[1] "6Q LOSS MUTATION ANALYSIS"
[1] 3
  6Q LOSS MUTATED 6Q LOSS WILD-TYPE 
               18               144 
  6Q LOSS MUTATED 6Q LOSS WILD-TYPE 
               18               144 
[1] "7Q LOSS MUTATION ANALYSIS"
[1] 3
  7Q LOSS MUTATED 7Q LOSS WILD-TYPE 
                7               155 
  7Q LOSS MUTATED 7Q LOSS WILD-TYPE 
                7               155 
[1] "8P LOSS MUTATION ANALYSIS"
[1] 3
  8P LOSS MUTATED 8P LOSS WILD-TYPE 
               21               141 
  8P LOSS MUTATED 8P LOSS WILD-TYPE 
               21               141 
[1] "8Q LOSS MUTATION ANALYSIS"
[1] 3
  8Q LOSS MUTATED 8Q LOSS WILD-TYPE 
               12               150 
  8Q LOSS MUTATED 8Q LOSS WILD-TYPE 
               12               150 
[1] "9P LOSS MUTATION ANALYSIS"
[1] 3
  9P LOSS MUTATED 9P LOSS WILD-TYPE 
               11               151 
  9P LOSS MUTATED 9P LOSS WILD-TYPE 
               11               151 
[1] "9Q LOSS MUTATION ANALYSIS"
[1] 3
  9Q LOSS MUTATED 9Q LOSS WILD-TYPE 
               12               150 
  9Q LOSS MUTATED 9Q LOSS WILD-TYPE 
               12               150 
[1] "11P LOSS MUTATION ANALYSIS"
[1] 3
  11P LOSS MUTATED 11P LOSS WILD-TYPE 
                54                108 
  11P LOSS MUTATED 11P LOSS WILD-TYPE 
                54                108 
[1] "11Q LOSS MUTATION ANALYSIS"
[1] 3
  11Q LOSS MUTATED 11Q LOSS WILD-TYPE 
                40                122 
  11Q LOSS MUTATED 11Q LOSS WILD-TYPE 
                40                122 
[1] "12P LOSS MUTATION ANALYSIS"
[1] 3
  12P LOSS MUTATED 12P LOSS WILD-TYPE 
                 3                159 
  12P LOSS MUTATED 12P LOSS WILD-TYPE 
                 3                159 
[1] "13Q LOSS MUTATION ANALYSIS"
[1] 3
  13Q LOSS MUTATED 13Q LOSS WILD-TYPE 
                 8                154 
  13Q LOSS MUTATED 13Q LOSS WILD-TYPE 
                 8                154 
[1] "14Q LOSS MUTATION ANALYSIS"
[1] 3
  14Q LOSS MUTATED 14Q LOSS WILD-TYPE 
                20                142 
  14Q LOSS MUTATED 14Q LOSS WILD-TYPE 
                20                142 
[1] "15Q LOSS MUTATION ANALYSIS"
[1] 3
  15Q LOSS MUTATED 15Q LOSS WILD-TYPE 
                 3                159 
  15Q LOSS MUTATED 15Q LOSS WILD-TYPE 
                 3                159 
[1] "16P LOSS MUTATION ANALYSIS"
[1] 3
  16P LOSS MUTATED 16P LOSS WILD-TYPE 
                 9                153 
  16P LOSS MUTATED 16P LOSS WILD-TYPE 
                 9                153 
[1] "16Q LOSS MUTATION ANALYSIS"
[1] 3
  16Q LOSS MUTATED 16Q LOSS WILD-TYPE 
                 5                157 
  16Q LOSS MUTATED 16Q LOSS WILD-TYPE 
                 5                157 
[1] "17P LOSS MUTATION ANALYSIS"
[1] 3
  17P LOSS MUTATED 17P LOSS WILD-TYPE 
                62                100 
  17P LOSS MUTATED 17P LOSS WILD-TYPE 
                62                100 
[1] "17Q LOSS MUTATION ANALYSIS"
[1] 3
  17Q LOSS MUTATED 17Q LOSS WILD-TYPE 
                15                147 
  17Q LOSS MUTATED 17Q LOSS WILD-TYPE 
                15                147 
[1] "18P LOSS MUTATION ANALYSIS"
[1] 3
  18P LOSS MUTATED 18P LOSS WILD-TYPE 
                16                146 
  18P LOSS MUTATED 18P LOSS WILD-TYPE 
                16                146 
[1] "18Q LOSS MUTATION ANALYSIS"
[1] 3
  18Q LOSS MUTATED 18Q LOSS WILD-TYPE 
                 6                156 
  18Q LOSS MUTATED 18Q LOSS WILD-TYPE 
                 6                156 
[1] "19Q LOSS MUTATION ANALYSIS"
[1] 3
  19Q LOSS MUTATED 19Q LOSS WILD-TYPE 
                 5                157 
  19Q LOSS MUTATED 19Q LOSS WILD-TYPE 
                 5                157 
[1] "20Q LOSS MUTATION ANALYSIS"
[1] 3
  20Q LOSS MUTATED 20Q LOSS WILD-TYPE 
                 3                159 
  20Q LOSS MUTATED 20Q LOSS WILD-TYPE 
                 3                159 
[1] "21Q LOSS MUTATION ANALYSIS"
[1] 3
  21Q LOSS MUTATED 21Q LOSS WILD-TYPE 
                36                126 
  21Q LOSS MUTATED 21Q LOSS WILD-TYPE 
                36                126 
[1] "22Q LOSS MUTATION ANALYSIS"
[1] 3
  22Q LOSS MUTATED 22Q LOSS WILD-TYPE 
                58                104 
  22Q LOSS MUTATED 22Q LOSS WILD-TYPE 
                58                104 
[1] "XP LOSS MUTATION ANALYSIS"
[1] 3
  XP LOSS MUTATED XP LOSS WILD-TYPE 
               48               114 
  XP LOSS MUTATED XP LOSS WILD-TYPE 
               48               114 
[1] "XQ LOSS MUTATION ANALYSIS"
[1] 3
  XQ LOSS MUTATED XQ LOSS WILD-TYPE 
               49               113 
  XQ LOSS MUTATED XQ LOSS WILD-TYPE 
               49               113 
[1] "data2feature, selection=ALL"
 [1] "CN_CNMF"                     "METHLYATION_CNMF"           
 [3] "RPPA_CNMF"                   "RPPA_CHIERARCHICAL"         
 [5] "MRNASEQ_CNMF"                "MRNASEQ_CHIERARCHICAL"      
 [7] "MIRSEQ_CNMF"                 "MIRSEQ_CHIERARCHICAL"       
 [9] "MIRSEQ_MATURE_CNMF"          "MIRSEQ_MATURE_CHIERARCHICAL"

Input Data has 10 rows and 162 columns.

Variable 1:'CN_CNMF':	nDistinctValues=5,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 2:'METHLYATION_CNMF':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 3:'RPPA_CNMF':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 4:'RPPA_CHIERARCHICAL':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 5:'MRNASEQ_CNMF':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 6:'MRNASEQ_CHIERARCHICAL':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 7:'MIRSEQ_CNMF':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 8:'MIRSEQ_CHIERARCHICAL':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 9:'MIRSEQ_MATURE_CNMF':	nDistinctValues=5,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 10:'MIRSEQ_MATURE_CHIERARCHICAL':	nDistinctValues=7,	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 162 columns, 0 survival variables, and 10 non-survival variables.
[1] "* survival variables: "
NULL
[1] "* non-survival variables: "
 [1] "CN_CNMF"                     "METHLYATION_CNMF"           
 [3] "RPPA_CNMF"                   "RPPA_CHIERARCHICAL"         
 [5] "MRNASEQ_CNMF"                "MRNASEQ_CHIERARCHICAL"      
 [7] "MIRSEQ_CNMF"                 "MIRSEQ_CHIERARCHICAL"       
 [9] "MIRSEQ_MATURE_CNMF"          "MIRSEQ_MATURE_CHIERARCHICAL"
CN_CNMF, nv=5, binary=FALSE, numeric=FALSE
METHLYATION_CNMF, nv=3, binary=FALSE, numeric=FALSE
RPPA_CNMF, nv=4, binary=FALSE, numeric=FALSE
RPPA_CHIERARCHICAL, nv=3, binary=FALSE, numeric=FALSE
MRNASEQ_CNMF, nv=4, binary=FALSE, numeric=FALSE
MRNASEQ_CHIERARCHICAL, nv=4, binary=FALSE, numeric=FALSE
MIRSEQ_CNMF, nv=3, binary=FALSE, numeric=FALSE
MIRSEQ_CHIERARCHICAL, nv=4, binary=FALSE, numeric=FALSE
MIRSEQ_MATURE_CNMF, nv=5, binary=FALSE, numeric=FALSE
MIRSEQ_MATURE_CHIERARCHICAL, nv=7, binary=FALSE, numeric=FALSE

Clustering(1) Variable = 1P GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  1P GAIN MUTATED        3      1      0      2      0
  1P GAIN WILD-TYPE     34     39     10     48     25
D1V1, multiclass
        clus
vv       1P GAIN MUTATED 1P GAIN WILD-TYPE
  CLUS_1               3                34
  CLUS_2               1                39
  CLUS_3               0                10
  CLUS_4               2                48
  CLUS_5               0                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
  1P GAIN MUTATED        3      3      0
  1P GAIN WILD-TYPE     37     74     45
D1V2, multiclass
        clus
vv       1P GAIN MUTATED 1P GAIN WILD-TYPE
  CLUS_1               3                37
  CLUS_2               3                74
  CLUS_3               0                45
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  1P GAIN MUTATED        0      0      1      1
  1P GAIN WILD-TYPE     16     20     22     17
D1V3, multiclass
[1] "Remove cluster labels:" "1P GAIN MUTATED"       
clus
  1P GAIN MUTATED 1P GAIN WILD-TYPE 
                2                75 
       TCGA-P8-A5KC        TCGA-P8-A5KD        TCGA-P8-A6RX        TCGA-P8-A6RY 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-PR-A5PF        TCGA-PR-A5PG        TCGA-PR-A5PH        TCGA-QR-A6GO 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-QR-A6GT        TCGA-QR-A6GU        TCGA-QR-A6GZ        TCGA-QR-A6H2 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-QR-A70W        TCGA-QT-A5XJ        TCGA-QT-A5XK        TCGA-QT-A5XL 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-QT-A5XM        TCGA-QT-A5XN        TCGA-QT-A5XO        TCGA-QT-A5XP 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-QT-A69Q        TCGA-QT-A7U0        TCGA-RM-A68T        TCGA-RM-A68W 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-RT-A6Y9        TCGA-RT-A6YA        TCGA-RT-A6YC        TCGA-RW-A67V 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-RW-A67X        TCGA-RW-A680        TCGA-RW-A685        TCGA-RW-A688 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-RW-A689        TCGA-RW-A68A        TCGA-RW-A68B        TCGA-RW-A68C 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-RW-A68D        TCGA-RW-A68F        TCGA-RW-A68G        TCGA-RW-A8AZ 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-RX-A8JQ        TCGA-S7-A7WM        TCGA-S7-A7WN        TCGA-S7-A7WP 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-S7-A7WQ        TCGA-S7-A7WR        TCGA-S7-A7WU        TCGA-S7-A7WV 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-S7-A7WW        TCGA-S7-A7WX        TCGA-S7-A7X0        TCGA-S7-A7X1 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-S7-A7X2        TCGA-SA-A6C2        TCGA-SP-A6QJ        TCGA-SR-A6MQ 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-SR-A6MX        TCGA-SR-A6MY        TCGA-SR-A6MZ        TCGA-TT-A6YN 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-W2-A7HC        TCGA-W2-A7HF        TCGA-WB-A80Q        TCGA-WB-A814 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-WB-A815        TCGA-WB-A817        TCGA-WB-A818        TCGA-WB-A819 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-WB-A81G        TCGA-WB-A81M        TCGA-WB-A81P        TCGA-WB-A81S 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-WB-A81T        TCGA-WB-A81V        TCGA-WB-A81W 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  1P GAIN MUTATED        0      0      2
  1P GAIN WILD-TYPE     31     18     26
D1V4, multiclass
[1] "Remove cluster labels:" "1P GAIN MUTATED"       
clus
  1P GAIN MUTATED 1P GAIN WILD-TYPE 
                2                75 
       TCGA-P8-A5KC        TCGA-P8-A5KD        TCGA-P8-A6RX        TCGA-P8-A6RY 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-PR-A5PF        TCGA-PR-A5PG        TCGA-PR-A5PH        TCGA-QR-A6GO 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-QR-A6GT        TCGA-QR-A6GU        TCGA-QR-A6GZ        TCGA-QR-A6H2 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-QR-A70W        TCGA-QT-A5XJ        TCGA-QT-A5XK        TCGA-QT-A5XL 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-QT-A5XM        TCGA-QT-A5XN        TCGA-QT-A5XO        TCGA-QT-A5XP 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-QT-A69Q        TCGA-QT-A7U0        TCGA-RM-A68T        TCGA-RM-A68W 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-RT-A6Y9        TCGA-RT-A6YA        TCGA-RT-A6YC        TCGA-RW-A67V 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-RW-A67X        TCGA-RW-A680        TCGA-RW-A685        TCGA-RW-A688 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-RW-A689        TCGA-RW-A68A        TCGA-RW-A68B        TCGA-RW-A68C 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-RW-A68D        TCGA-RW-A68F        TCGA-RW-A68G        TCGA-RW-A8AZ 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-RX-A8JQ        TCGA-S7-A7WM        TCGA-S7-A7WN        TCGA-S7-A7WP 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-S7-A7WQ        TCGA-S7-A7WR        TCGA-S7-A7WU        TCGA-S7-A7WV 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-S7-A7WW        TCGA-S7-A7WX        TCGA-S7-A7X0        TCGA-S7-A7X1 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-S7-A7X2        TCGA-SA-A6C2        TCGA-SP-A6QJ        TCGA-SR-A6MQ 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-SR-A6MX        TCGA-SR-A6MY        TCGA-SR-A6MZ        TCGA-TT-A6YN 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-W2-A7HC        TCGA-W2-A7HF        TCGA-WB-A80Q        TCGA-WB-A814 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-WB-A815        TCGA-WB-A817        TCGA-WB-A818        TCGA-WB-A819 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-WB-A81G        TCGA-WB-A81M        TCGA-WB-A81P        TCGA-WB-A81S 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
       TCGA-WB-A81T        TCGA-WB-A81V        TCGA-WB-A81W 
"1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" "1P GAIN WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  1P GAIN MUTATED        1      4      1      0
  1P GAIN WILD-TYPE     31     61     43     21
D1V5, multiclass
        clus
vv       1P GAIN MUTATED 1P GAIN WILD-TYPE
  CLUS_1               1                31
  CLUS_2               4                61
  CLUS_3               1                43
  CLUS_4               0                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 CLUS_4
  1P GAIN MUTATED        1      3      2      0
  1P GAIN WILD-TYPE     33     61     41     21
D1V6, multiclass
        clus
vv       1P GAIN MUTATED 1P GAIN WILD-TYPE
  CLUS_1               1                33
  CLUS_2               3                61
  CLUS_3               2                41
  CLUS_4               0                21
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  1P GAIN MUTATED        3      0      3
  1P GAIN WILD-TYPE     60     44     52
D1V7, multiclass
        clus
vv       1P GAIN MUTATED 1P GAIN WILD-TYPE
  CLUS_1               3                60
  CLUS_2               0                44
  CLUS_3               3                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
  1P GAIN MUTATED        3      3      0      0
  1P GAIN WILD-TYPE     63     51     18     24
D1V8, multiclass
        clus
vv       1P GAIN MUTATED 1P GAIN WILD-TYPE
  CLUS_1               3                63
  CLUS_2               3                51
  CLUS_3               0                18
  CLUS_4               0                24
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  1P GAIN MUTATED        1      3      0      2      0
  1P GAIN WILD-TYPE     32     47     16     31     29
D1V9, multiclass
        clus
vv       1P GAIN MUTATED 1P GAIN WILD-TYPE
  CLUS_1               1                32
  CLUS_2               3                47
  CLUS_3               0                16
  CLUS_4               2                31
  CLUS_5               0                29
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  1P GAIN MUTATED        1      2      1      1      1      0      0
  1P GAIN WILD-TYPE     17     39     26     14     22     18     19
D1V10, multiclass
        clus
vv       1P GAIN MUTATED 1P GAIN WILD-TYPE
  CLUS_1               1                17
  CLUS_2               2                39
  CLUS_3               1                26
  CLUS_4               1                14
  CLUS_5               1                22
  CLUS_6               0                18
  CLUS_7               0                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"

Clustering(2) Variable = 1Q GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  1Q GAIN MUTATED       10      1      0      6      2
  1Q GAIN WILD-TYPE     27     39     10     44     23
D2V1, multiclass
        clus
vv       1Q GAIN MUTATED 1Q GAIN WILD-TYPE
  CLUS_1              10                27
  CLUS_2               1                39
  CLUS_3               0                10
  CLUS_4               6                44
  CLUS_5               2                23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  1Q GAIN MUTATED        9      8      2
  1Q GAIN WILD-TYPE     31     69     43
D2V2, multiclass
        clus
vv       1Q GAIN MUTATED 1Q GAIN WILD-TYPE
  CLUS_1               9                31
  CLUS_2               8                69
  CLUS_3               2                43
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  1Q GAIN MUTATED        1      3      2      3
  1Q GAIN WILD-TYPE     15     17     21     15
D2V3, multiclass
        clus
vv       1Q GAIN MUTATED 1Q GAIN WILD-TYPE
  CLUS_1               1                15
  CLUS_2               3                17
  CLUS_3               2                21
  CLUS_4               3                15
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  1Q GAIN MUTATED        4      2      3
  1Q GAIN WILD-TYPE     27     16     25
D2V4, multiclass
        clus
vv       1Q GAIN MUTATED 1Q GAIN WILD-TYPE
  CLUS_1               4                27
  CLUS_2               2                16
  CLUS_3               3                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
  1Q GAIN MUTATED        6      8      4      1
  1Q GAIN WILD-TYPE     26     57     40     20
D2V5, multiclass
        clus
vv       1Q GAIN MUTATED 1Q GAIN WILD-TYPE
  CLUS_1               6                26
  CLUS_2               8                57
  CLUS_3               4                40
  CLUS_4               1                20
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  1Q GAIN MUTATED        3      7      8      1
  1Q GAIN WILD-TYPE     31     57     35     20
D2V6, multiclass
        clus
vv       1Q GAIN MUTATED 1Q GAIN WILD-TYPE
  CLUS_1               3                31
  CLUS_2               7                57
  CLUS_3               8                35
  CLUS_4               1                20
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  1Q GAIN MUTATED        9      5      5
  1Q GAIN WILD-TYPE     54     39     50
D2V7, multiclass
        clus
vv       1Q GAIN MUTATED 1Q GAIN WILD-TYPE
  CLUS_1               9                54
  CLUS_2               5                39
  CLUS_3               5                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
  1Q GAIN MUTATED        9      7      2      1
  1Q GAIN WILD-TYPE     57     47     16     23
D2V8, multiclass
        clus
vv       1Q GAIN MUTATED 1Q GAIN WILD-TYPE
  CLUS_1               9                57
  CLUS_2               7                47
  CLUS_3               2                16
  CLUS_4               1                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 CLUS_4 CLUS_5
  1Q GAIN MUTATED        5      8      0      3      3
  1Q GAIN WILD-TYPE     28     42     16     30     26
D2V9, multiclass
        clus
vv       1Q GAIN MUTATED 1Q GAIN WILD-TYPE
  CLUS_1               5                28
  CLUS_2               8                42
  CLUS_3               0                16
  CLUS_4               3                30
  CLUS_5               3                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
  1Q GAIN MUTATED        2      6      6      1      1      2      1
  1Q GAIN WILD-TYPE     16     35     21     14     22     16     18
D2V10, multiclass
        clus
vv       1Q GAIN MUTATED 1Q GAIN WILD-TYPE
  CLUS_1               2                16
  CLUS_2               6                35
  CLUS_3               6                21
  CLUS_4               1                14
  CLUS_5               1                22
  CLUS_6               2                16
  CLUS_7               1                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"

Clustering(3) Variable = 2P GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  2P GAIN MUTATED        2      3      0      0      1
  2P GAIN WILD-TYPE     35     37     10     50     24
D3V1, multiclass
        clus
vv       2P GAIN MUTATED 2P GAIN WILD-TYPE
  CLUS_1               2                35
  CLUS_2               3                37
  CLUS_3               0                10
  CLUS_4               0                50
  CLUS_5               1                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
  2P GAIN MUTATED        5      1      0
  2P GAIN WILD-TYPE     35     76     45
D3V2, multiclass
        clus
vv       2P GAIN MUTATED 2P GAIN WILD-TYPE
  CLUS_1               5                35
  CLUS_2               1                76
  CLUS_3               0                45
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  2P GAIN MUTATED        2      0      0      1
  2P GAIN WILD-TYPE     14     20     23     17
D3V3, multiclass
        clus
vv       2P GAIN MUTATED 2P GAIN WILD-TYPE
  CLUS_1               2                14
  CLUS_2               0                20
  CLUS_3               0                23
  CLUS_4               1                17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  2P GAIN MUTATED        1      1      1
  2P GAIN WILD-TYPE     30     17     27
D3V4, multiclass
        clus
vv       2P GAIN MUTATED 2P GAIN WILD-TYPE
  CLUS_1               1                30
  CLUS_2               1                17
  CLUS_3               1                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
  2P GAIN MUTATED        3      1      2      0
  2P GAIN WILD-TYPE     29     64     42     21
D3V5, multiclass
        clus
vv       2P GAIN MUTATED 2P GAIN WILD-TYPE
  CLUS_1               3                29
  CLUS_2               1                64
  CLUS_3               2                42
  CLUS_4               0                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 CLUS_4
  2P GAIN MUTATED        2      1      3      0
  2P GAIN WILD-TYPE     32     63     40     21
D3V6, multiclass
        clus
vv       2P GAIN MUTATED 2P GAIN WILD-TYPE
  CLUS_1               2                32
  CLUS_2               1                63
  CLUS_3               3                40
  CLUS_4               0                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
  2P GAIN MUTATED        5      0      1
  2P GAIN WILD-TYPE     58     44     54
D3V7, multiclass
        clus
vv       2P GAIN MUTATED 2P GAIN WILD-TYPE
  CLUS_1               5                58
  CLUS_2               0                44
  CLUS_3               1                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
  2P GAIN MUTATED        5      1      0      0
  2P GAIN WILD-TYPE     61     53     18     24
D3V8, multiclass
        clus
vv       2P GAIN MUTATED 2P GAIN WILD-TYPE
  CLUS_1               5                61
  CLUS_2               1                53
  CLUS_3               0                18
  CLUS_4               0                24
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  2P GAIN MUTATED        1      1      0      4      0
  2P GAIN WILD-TYPE     32     49     16     29     29
D3V9, multiclass
        clus
vv       2P GAIN MUTATED 2P GAIN WILD-TYPE
  CLUS_1               1                32
  CLUS_2               1                49
  CLUS_3               0                16
  CLUS_4               4                29
  CLUS_5               0                29
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  2P GAIN MUTATED        3      1      1      0      1      0      0
  2P GAIN WILD-TYPE     15     40     26     15     22     18     19
D3V10, multiclass
        clus
vv       2P GAIN MUTATED 2P GAIN WILD-TYPE
  CLUS_1               3                15
  CLUS_2               1                40
  CLUS_3               1                26
  CLUS_4               0                15
  CLUS_5               1                22
  CLUS_6               0                18
  CLUS_7               0                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"

Clustering(4) Variable = 4P GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  4P GAIN MUTATED        1      1      0      0      2
  4P GAIN WILD-TYPE     36     39     10     50     23
D4V1, multiclass
        clus
vv       4P GAIN MUTATED 4P GAIN WILD-TYPE
  CLUS_1               1                36
  CLUS_2               1                39
  CLUS_3               0                10
  CLUS_4               0                50
  CLUS_5               2                23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  4P GAIN MUTATED        2      1      1
  4P GAIN WILD-TYPE     38     76     44
D4V2, multiclass
        clus
vv       4P GAIN MUTATED 4P GAIN WILD-TYPE
  CLUS_1               2                38
  CLUS_2               1                76
  CLUS_3               1                44
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  4P GAIN MUTATED        2      0      0      0
  4P GAIN WILD-TYPE     14     20     23     18
D4V3, multiclass
[1] "Remove cluster labels:" "4P GAIN MUTATED"       
clus
  4P GAIN MUTATED 4P GAIN WILD-TYPE 
                2                75 
       TCGA-P8-A5KC        TCGA-P8-A5KD        TCGA-P8-A6RX        TCGA-P8-A6RY 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-PR-A5PF        TCGA-PR-A5PG        TCGA-PR-A5PH        TCGA-QR-A6GO 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-QR-A6GT        TCGA-QR-A6GU        TCGA-QR-A6H2        TCGA-QR-A70W 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-QT-A5XJ        TCGA-QT-A5XK        TCGA-QT-A5XL        TCGA-QT-A5XM 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-QT-A5XN        TCGA-QT-A5XO        TCGA-QT-A5XP        TCGA-QT-A69Q 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-QT-A7U0        TCGA-RM-A68T        TCGA-RM-A68W        TCGA-RT-A6Y9 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-RT-A6YA        TCGA-RT-A6YC        TCGA-RW-A67V        TCGA-RW-A67X 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-RW-A680        TCGA-RW-A681        TCGA-RW-A685        TCGA-RW-A688 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-RW-A689        TCGA-RW-A68A        TCGA-RW-A68B        TCGA-RW-A68C 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-RW-A68F        TCGA-RW-A68G        TCGA-RW-A8AZ        TCGA-RX-A8JQ 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-S7-A7WL        TCGA-S7-A7WM        TCGA-S7-A7WN        TCGA-S7-A7WP 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-S7-A7WQ        TCGA-S7-A7WR        TCGA-S7-A7WU        TCGA-S7-A7WV 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-S7-A7WW        TCGA-S7-A7WX        TCGA-S7-A7X0        TCGA-S7-A7X1 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-S7-A7X2        TCGA-SA-A6C2        TCGA-SP-A6QJ        TCGA-SR-A6MQ 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-SR-A6MX        TCGA-SR-A6MY        TCGA-SR-A6MZ        TCGA-TT-A6YN 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-W2-A7HC        TCGA-W2-A7HF        TCGA-WB-A80Q        TCGA-WB-A814 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-WB-A815        TCGA-WB-A817        TCGA-WB-A818        TCGA-WB-A819 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-WB-A81G        TCGA-WB-A81M        TCGA-WB-A81P        TCGA-WB-A81S 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-WB-A81T        TCGA-WB-A81V        TCGA-WB-A81W 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  4P GAIN MUTATED        0      1      1
  4P GAIN WILD-TYPE     31     17     27
D4V4, multiclass
[1] "Remove cluster labels:" "4P GAIN MUTATED"       
clus
  4P GAIN MUTATED 4P GAIN WILD-TYPE 
                2                75 
       TCGA-P8-A5KC        TCGA-P8-A5KD        TCGA-P8-A6RX        TCGA-P8-A6RY 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-PR-A5PF        TCGA-PR-A5PG        TCGA-PR-A5PH        TCGA-QR-A6GO 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-QR-A6GT        TCGA-QR-A6GU        TCGA-QR-A6H2        TCGA-QR-A70W 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-QT-A5XJ        TCGA-QT-A5XK        TCGA-QT-A5XL        TCGA-QT-A5XM 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-QT-A5XN        TCGA-QT-A5XO        TCGA-QT-A5XP        TCGA-QT-A69Q 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-QT-A7U0        TCGA-RM-A68T        TCGA-RM-A68W        TCGA-RT-A6Y9 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-RT-A6YA        TCGA-RT-A6YC        TCGA-RW-A67V        TCGA-RW-A67X 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-RW-A680        TCGA-RW-A681        TCGA-RW-A685        TCGA-RW-A688 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-RW-A689        TCGA-RW-A68A        TCGA-RW-A68B        TCGA-RW-A68C 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-RW-A68F        TCGA-RW-A68G        TCGA-RW-A8AZ        TCGA-RX-A8JQ 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-S7-A7WL        TCGA-S7-A7WM        TCGA-S7-A7WN        TCGA-S7-A7WP 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-S7-A7WQ        TCGA-S7-A7WR        TCGA-S7-A7WU        TCGA-S7-A7WV 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-S7-A7WW        TCGA-S7-A7WX        TCGA-S7-A7X0        TCGA-S7-A7X1 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-S7-A7X2        TCGA-SA-A6C2        TCGA-SP-A6QJ        TCGA-SR-A6MQ 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-SR-A6MX        TCGA-SR-A6MY        TCGA-SR-A6MZ        TCGA-TT-A6YN 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-W2-A7HC        TCGA-W2-A7HF        TCGA-WB-A80Q        TCGA-WB-A814 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-WB-A815        TCGA-WB-A817        TCGA-WB-A818        TCGA-WB-A819 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-WB-A81G        TCGA-WB-A81M        TCGA-WB-A81P        TCGA-WB-A81S 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-WB-A81T        TCGA-WB-A81V        TCGA-WB-A81W 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  4P GAIN MUTATED        1      1      1      1
  4P GAIN WILD-TYPE     31     64     43     20
D4V5, multiclass
        clus
vv       4P GAIN MUTATED 4P GAIN WILD-TYPE
  CLUS_1               1                31
  CLUS_2               1                64
  CLUS_3               1                43
  CLUS_4               1                20
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  4P GAIN MUTATED        2      1      1      0
  4P GAIN WILD-TYPE     32     63     42     21
D4V6, multiclass
        clus
vv       4P GAIN MUTATED 4P GAIN WILD-TYPE
  CLUS_1               2                32
  CLUS_2               1                63
  CLUS_3               1                42
  CLUS_4               0                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
  4P GAIN MUTATED        3      0      1
  4P GAIN WILD-TYPE     60     44     54
D4V7, multiclass
        clus
vv       4P GAIN MUTATED 4P GAIN WILD-TYPE
  CLUS_1               3                60
  CLUS_2               0                44
  CLUS_3               1                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
  4P GAIN MUTATED        3      1      0      0
  4P GAIN WILD-TYPE     63     53     18     24
D4V8, multiclass
        clus
vv       4P GAIN MUTATED 4P GAIN WILD-TYPE
  CLUS_1               3                63
  CLUS_2               1                53
  CLUS_3               0                18
  CLUS_4               0                24
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  4P GAIN MUTATED        1      1      0      2      0
  4P GAIN WILD-TYPE     32     49     16     31     29
D4V9, multiclass
        clus
vv       4P GAIN MUTATED 4P GAIN WILD-TYPE
  CLUS_1               1                32
  CLUS_2               1                49
  CLUS_3               0                16
  CLUS_4               2                31
  CLUS_5               0                29
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  4P GAIN MUTATED        1      1      1      0      1      0      0
  4P GAIN WILD-TYPE     17     40     26     15     22     18     19
D4V10, multiclass
        clus
vv       4P GAIN MUTATED 4P GAIN WILD-TYPE
  CLUS_1               1                17
  CLUS_2               1                40
  CLUS_3               1                26
  CLUS_4               0                15
  CLUS_5               1                22
  CLUS_6               0                18
  CLUS_7               0                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"

Clustering(5) Variable = 4Q GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  4Q GAIN MUTATED        0      0      0      0      3
  4Q GAIN WILD-TYPE     37     40     10     50     22
D5V1, multiclass
        clus
vv       4Q GAIN MUTATED 4Q GAIN WILD-TYPE
  CLUS_1               0                37
  CLUS_2               0                40
  CLUS_3               0                10
  CLUS_4               0                50
  CLUS_5               3                22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table 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        0      2      1
  4Q GAIN WILD-TYPE     40     75     44
D5V2, multiclass
        clus
vv       4Q GAIN MUTATED 4Q GAIN WILD-TYPE
  CLUS_1               0                40
  CLUS_2               2                75
  CLUS_3               1                44
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  4Q GAIN MUTATED        0      0      1      0
  4Q GAIN WILD-TYPE     16     20     22     18
D5V3, multiclass
[1] "Remove cluster labels:" "4Q GAIN MUTATED"       
clus
  4Q GAIN MUTATED 4Q GAIN WILD-TYPE 
                1                76 
       TCGA-P8-A5KC        TCGA-P8-A5KD        TCGA-P8-A6RX        TCGA-P8-A6RY 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-PR-A5PF        TCGA-PR-A5PG        TCGA-PR-A5PH        TCGA-QR-A6GO 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-QR-A6GT        TCGA-QR-A6GU        TCGA-QR-A6GZ        TCGA-QR-A6H2 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-QR-A70W        TCGA-QT-A5XJ        TCGA-QT-A5XK        TCGA-QT-A5XL 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-QT-A5XM        TCGA-QT-A5XN        TCGA-QT-A5XO        TCGA-QT-A5XP 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-QT-A69Q        TCGA-QT-A7U0        TCGA-RM-A68T        TCGA-RM-A68W 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-RT-A6Y9        TCGA-RT-A6YA        TCGA-RT-A6YC        TCGA-RW-A67V 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-RW-A67X        TCGA-RW-A680        TCGA-RW-A681        TCGA-RW-A685 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-RW-A689        TCGA-RW-A68A        TCGA-RW-A68B        TCGA-RW-A68C 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-RW-A68D        TCGA-RW-A68F        TCGA-RW-A68G        TCGA-RW-A8AZ 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-RX-A8JQ        TCGA-S7-A7WL        TCGA-S7-A7WM        TCGA-S7-A7WN 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-S7-A7WP        TCGA-S7-A7WQ        TCGA-S7-A7WR        TCGA-S7-A7WU 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-S7-A7WV        TCGA-S7-A7WW        TCGA-S7-A7WX        TCGA-S7-A7X0 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-S7-A7X1        TCGA-S7-A7X2        TCGA-SA-A6C2        TCGA-SP-A6QJ 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-SR-A6MQ        TCGA-SR-A6MX        TCGA-SR-A6MY        TCGA-SR-A6MZ 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-TT-A6YN        TCGA-W2-A7HC        TCGA-W2-A7HF        TCGA-WB-A80Q 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-WB-A814        TCGA-WB-A815        TCGA-WB-A817        TCGA-WB-A818 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-WB-A819        TCGA-WB-A81G        TCGA-WB-A81M        TCGA-WB-A81P 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-WB-A81S        TCGA-WB-A81T        TCGA-WB-A81V        TCGA-WB-A81W 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  4Q GAIN MUTATED        0      1      0
  4Q GAIN WILD-TYPE     31     17     28
D5V4, multiclass
[1] "Remove cluster labels:" "4Q GAIN MUTATED"       
clus
  4Q GAIN MUTATED 4Q GAIN WILD-TYPE 
                1                76 
       TCGA-P8-A5KC        TCGA-P8-A5KD        TCGA-P8-A6RX        TCGA-P8-A6RY 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-PR-A5PF        TCGA-PR-A5PG        TCGA-PR-A5PH        TCGA-QR-A6GO 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-QR-A6GT        TCGA-QR-A6GU        TCGA-QR-A6GZ        TCGA-QR-A6H2 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-QR-A70W        TCGA-QT-A5XJ        TCGA-QT-A5XK        TCGA-QT-A5XL 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-QT-A5XM        TCGA-QT-A5XN        TCGA-QT-A5XO        TCGA-QT-A5XP 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-QT-A69Q        TCGA-QT-A7U0        TCGA-RM-A68T        TCGA-RM-A68W 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-RT-A6Y9        TCGA-RT-A6YA        TCGA-RT-A6YC        TCGA-RW-A67V 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-RW-A67X        TCGA-RW-A680        TCGA-RW-A681        TCGA-RW-A685 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-RW-A689        TCGA-RW-A68A        TCGA-RW-A68B        TCGA-RW-A68C 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-RW-A68D        TCGA-RW-A68F        TCGA-RW-A68G        TCGA-RW-A8AZ 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-RX-A8JQ        TCGA-S7-A7WL        TCGA-S7-A7WM        TCGA-S7-A7WN 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-S7-A7WP        TCGA-S7-A7WQ        TCGA-S7-A7WR        TCGA-S7-A7WU 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-S7-A7WV        TCGA-S7-A7WW        TCGA-S7-A7WX        TCGA-S7-A7X0 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-S7-A7X1        TCGA-S7-A7X2        TCGA-SA-A6C2        TCGA-SP-A6QJ 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-SR-A6MQ        TCGA-SR-A6MX        TCGA-SR-A6MY        TCGA-SR-A6MZ 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-TT-A6YN        TCGA-W2-A7HC        TCGA-W2-A7HF        TCGA-WB-A80Q 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-WB-A814        TCGA-WB-A815        TCGA-WB-A817        TCGA-WB-A818 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-WB-A819        TCGA-WB-A81G        TCGA-WB-A81M        TCGA-WB-A81P 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-WB-A81S        TCGA-WB-A81T        TCGA-WB-A81V        TCGA-WB-A81W 
"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
  4Q GAIN MUTATED        1      1      0      1
  4Q GAIN WILD-TYPE     31     64     44     20
D5V5, multiclass
        clus
vv       4Q GAIN MUTATED 4Q GAIN WILD-TYPE
  CLUS_1               1                31
  CLUS_2               1                64
  CLUS_3               0                44
  CLUS_4               1                20
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  4Q GAIN MUTATED        1      2      0      0
  4Q GAIN WILD-TYPE     33     62     43     21
D5V6, multiclass
        clus
vv       4Q GAIN MUTATED 4Q GAIN WILD-TYPE
  CLUS_1               1                33
  CLUS_2               2                62
  CLUS_3               0                43
  CLUS_4               0                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 GAIN MUTATED        1      0      2
  4Q GAIN WILD-TYPE     62     44     53
D5V7, multiclass
        clus
vv       4Q GAIN MUTATED 4Q GAIN WILD-TYPE
  CLUS_1               1                62
  CLUS_2               0                44
  CLUS_3               2                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
  4Q GAIN MUTATED        1      2      0      0
  4Q GAIN WILD-TYPE     65     52     18     24
D5V8, multiclass
        clus
vv       4Q GAIN MUTATED 4Q GAIN WILD-TYPE
  CLUS_1               1                65
  CLUS_2               2                52
  CLUS_3               0                18
  CLUS_4               0                24
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  4Q GAIN MUTATED        1      2      0      0      0
  4Q GAIN WILD-TYPE     32     48     16     33     29
D5V9, multiclass
        clus
vv       4Q GAIN MUTATED 4Q GAIN WILD-TYPE
  CLUS_1               1                32
  CLUS_2               2                48
  CLUS_3               0                16
  CLUS_4               0                33
  CLUS_5               0                29
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  4Q GAIN MUTATED        1      1      1      0      0      0      0
  4Q GAIN WILD-TYPE     17     40     26     15     23     18     19
D5V10, multiclass
        clus
vv       4Q GAIN MUTATED 4Q GAIN WILD-TYPE
  CLUS_1               1                17
  CLUS_2               1                40
  CLUS_3               1                26
  CLUS_4               0                15
  CLUS_5               0                23
  CLUS_6               0                18
  CLUS_7               0                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"

Clustering(6) Variable = 5P GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  5P GAIN MUTATED        2      3      0      5      1
  5P GAIN WILD-TYPE     35     37     10     45     24
D6V1, multiclass
        clus
vv       5P GAIN MUTATED 5P GAIN WILD-TYPE
  CLUS_1               2                35
  CLUS_2               3                37
  CLUS_3               0                10
  CLUS_4               5                45
  CLUS_5               1                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
  5P GAIN MUTATED        1      4      6
  5P GAIN WILD-TYPE     39     73     39
D6V2, multiclass
        clus
vv       5P GAIN MUTATED 5P GAIN WILD-TYPE
  CLUS_1               1                39
  CLUS_2               4                73
  CLUS_3               6                39
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  5P GAIN MUTATED        0      2      1      0
  5P GAIN WILD-TYPE     16     18     22     18
D6V3, multiclass
        clus
vv       5P GAIN MUTATED 5P GAIN WILD-TYPE
  CLUS_1               0                16
  CLUS_2               2                18
  CLUS_3               1                22
  CLUS_4               0                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
  5P GAIN MUTATED        1      1      1
  5P GAIN WILD-TYPE     30     17     27
D6V4, multiclass
        clus
vv       5P GAIN MUTATED 5P GAIN WILD-TYPE
  CLUS_1               1                30
  CLUS_2               1                17
  CLUS_3               1                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
  5P GAIN MUTATED        2      4      3      2
  5P GAIN WILD-TYPE     30     61     41     19
D6V5, multiclass
        clus
vv       5P GAIN MUTATED 5P GAIN WILD-TYPE
  CLUS_1               2                30
  CLUS_2               4                61
  CLUS_3               3                41
  CLUS_4               2                19
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  5P GAIN MUTATED        4      4      2      1
  5P GAIN WILD-TYPE     30     60     41     20
D6V6, multiclass
        clus
vv       5P GAIN MUTATED 5P GAIN WILD-TYPE
  CLUS_1               4                30
  CLUS_2               4                60
  CLUS_3               2                41
  CLUS_4               1                20
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  5P GAIN MUTATED        5      3      3
  5P GAIN WILD-TYPE     58     41     52
D6V7, multiclass
        clus
vv       5P GAIN MUTATED 5P GAIN WILD-TYPE
  CLUS_1               5                58
  CLUS_2               3                41
  CLUS_3               3                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
  5P GAIN MUTATED        5      2      2      2
  5P GAIN WILD-TYPE     61     52     16     22
D6V8, multiclass
        clus
vv       5P GAIN MUTATED 5P GAIN WILD-TYPE
  CLUS_1               5                61
  CLUS_2               2                52
  CLUS_3               2                16
  CLUS_4               2                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 CLUS_4 CLUS_5
  5P GAIN MUTATED        4      4      0      2      1
  5P GAIN WILD-TYPE     29     46     16     31     28
D6V9, multiclass
        clus
vv       5P GAIN MUTATED 5P GAIN WILD-TYPE
  CLUS_1               4                29
  CLUS_2               4                46
  CLUS_3               0                16
  CLUS_4               2                31
  CLUS_5               1                28
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  5P GAIN MUTATED        2      2      1      1      1      2      2
  5P GAIN WILD-TYPE     16     39     26     14     22     16     17
D6V10, multiclass
        clus
vv       5P GAIN MUTATED 5P GAIN WILD-TYPE
  CLUS_1               2                16
  CLUS_2               2                39
  CLUS_3               1                26
  CLUS_4               1                14
  CLUS_5               1                22
  CLUS_6               2                16
  CLUS_7               2                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"

Clustering(7) Variable = 5Q GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  5Q GAIN MUTATED        1      2      0      3      1
  5Q GAIN WILD-TYPE     36     38     10     47     24
D7V1, multiclass
        clus
vv       5Q GAIN MUTATED 5Q GAIN WILD-TYPE
  CLUS_1               1                36
  CLUS_2               2                38
  CLUS_3               0                10
  CLUS_4               3                47
  CLUS_5               1                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
  5Q GAIN MUTATED        1      0      6
  5Q GAIN WILD-TYPE     39     77     39
D7V2, multiclass
        clus
vv       5Q GAIN MUTATED 5Q GAIN WILD-TYPE
  CLUS_1               1                39
  CLUS_2               0                77
  CLUS_3               6                39
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  5Q GAIN MUTATED        0      1      0      0
  5Q GAIN WILD-TYPE     16     19     23     18
D7V3, multiclass
[1] "Remove cluster labels:" "5Q GAIN MUTATED"       
clus
  5Q GAIN MUTATED 5Q GAIN WILD-TYPE 
                1                76 
       TCGA-P8-A5KC        TCGA-P8-A5KD        TCGA-P8-A6RX        TCGA-P8-A6RY 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-PR-A5PF        TCGA-PR-A5PG        TCGA-PR-A5PH        TCGA-QR-A6GO 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-QR-A6GT        TCGA-QR-A6GU        TCGA-QR-A6GZ        TCGA-QR-A6H2 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-QR-A70W        TCGA-QT-A5XJ        TCGA-QT-A5XK        TCGA-QT-A5XL 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-QT-A5XM        TCGA-QT-A5XN        TCGA-QT-A5XO        TCGA-QT-A5XP 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-QT-A69Q        TCGA-QT-A7U0        TCGA-RM-A68T        TCGA-RM-A68W 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-RT-A6Y9        TCGA-RT-A6YA        TCGA-RT-A6YC        TCGA-RW-A67V 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-RW-A67X        TCGA-RW-A680        TCGA-RW-A681        TCGA-RW-A685 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-RW-A688        TCGA-RW-A689        TCGA-RW-A68A        TCGA-RW-A68B 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-RW-A68C        TCGA-RW-A68D        TCGA-RW-A68F        TCGA-RW-A68G 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-RW-A8AZ        TCGA-RX-A8JQ        TCGA-S7-A7WL        TCGA-S7-A7WM 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-S7-A7WN        TCGA-S7-A7WP        TCGA-S7-A7WQ        TCGA-S7-A7WR 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-S7-A7WU        TCGA-S7-A7WV        TCGA-S7-A7WW        TCGA-S7-A7WX 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-S7-A7X0        TCGA-S7-A7X1        TCGA-S7-A7X2        TCGA-SA-A6C2 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-SP-A6QJ        TCGA-SR-A6MQ        TCGA-SR-A6MX        TCGA-SR-A6MY 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-TT-A6YN        TCGA-W2-A7HC        TCGA-W2-A7HF        TCGA-WB-A80Q 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-WB-A814        TCGA-WB-A815        TCGA-WB-A817        TCGA-WB-A818 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-WB-A819        TCGA-WB-A81G        TCGA-WB-A81M        TCGA-WB-A81P 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-WB-A81S        TCGA-WB-A81T        TCGA-WB-A81V        TCGA-WB-A81W 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  5Q GAIN MUTATED        0      1      0
  5Q GAIN WILD-TYPE     31     17     28
D7V4, multiclass
[1] "Remove cluster labels:" "5Q GAIN MUTATED"       
clus
  5Q GAIN MUTATED 5Q GAIN WILD-TYPE 
                1                76 
       TCGA-P8-A5KC        TCGA-P8-A5KD        TCGA-P8-A6RX        TCGA-P8-A6RY 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-PR-A5PF        TCGA-PR-A5PG        TCGA-PR-A5PH        TCGA-QR-A6GO 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-QR-A6GT        TCGA-QR-A6GU        TCGA-QR-A6GZ        TCGA-QR-A6H2 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-QR-A70W        TCGA-QT-A5XJ        TCGA-QT-A5XK        TCGA-QT-A5XL 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-QT-A5XM        TCGA-QT-A5XN        TCGA-QT-A5XO        TCGA-QT-A5XP 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-QT-A69Q        TCGA-QT-A7U0        TCGA-RM-A68T        TCGA-RM-A68W 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-RT-A6Y9        TCGA-RT-A6YA        TCGA-RT-A6YC        TCGA-RW-A67V 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-RW-A67X        TCGA-RW-A680        TCGA-RW-A681        TCGA-RW-A685 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-RW-A688        TCGA-RW-A689        TCGA-RW-A68A        TCGA-RW-A68B 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-RW-A68C        TCGA-RW-A68D        TCGA-RW-A68F        TCGA-RW-A68G 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-RW-A8AZ        TCGA-RX-A8JQ        TCGA-S7-A7WL        TCGA-S7-A7WM 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-S7-A7WN        TCGA-S7-A7WP        TCGA-S7-A7WQ        TCGA-S7-A7WR 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-S7-A7WU        TCGA-S7-A7WV        TCGA-S7-A7WW        TCGA-S7-A7WX 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-S7-A7X0        TCGA-S7-A7X1        TCGA-S7-A7X2        TCGA-SA-A6C2 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-SP-A6QJ        TCGA-SR-A6MQ        TCGA-SR-A6MX        TCGA-SR-A6MY 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-TT-A6YN        TCGA-W2-A7HC        TCGA-W2-A7HF        TCGA-WB-A80Q 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-WB-A814        TCGA-WB-A815        TCGA-WB-A817        TCGA-WB-A818 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-WB-A819        TCGA-WB-A81G        TCGA-WB-A81M        TCGA-WB-A81P 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-WB-A81S        TCGA-WB-A81T        TCGA-WB-A81V        TCGA-WB-A81W 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  5Q GAIN MUTATED        2      1      1      3
  5Q GAIN WILD-TYPE     30     64     43     18
D7V5, multiclass
        clus
vv       5Q GAIN MUTATED 5Q GAIN WILD-TYPE
  CLUS_1               2                30
  CLUS_2               1                64
  CLUS_3               1                43
  CLUS_4               3                18
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  5Q GAIN MUTATED        2      1      2      2
  5Q GAIN WILD-TYPE     32     63     41     19
D7V6, multiclass
        clus
vv       5Q GAIN MUTATED 5Q GAIN WILD-TYPE
  CLUS_1               2                32
  CLUS_2               1                63
  CLUS_3               2                41
  CLUS_4               2                19
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  5Q GAIN MUTATED        4      2      1
  5Q GAIN WILD-TYPE     59     42     54
D7V7, multiclass
        clus
vv       5Q GAIN MUTATED 5Q GAIN WILD-TYPE
  CLUS_1               4                59
  CLUS_2               2                42
  CLUS_3               1                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
  5Q GAIN MUTATED        4      1      0      2
  5Q GAIN WILD-TYPE     62     53     18     22
D7V8, multiclass
        clus
vv       5Q GAIN MUTATED 5Q GAIN WILD-TYPE
  CLUS_1               4                62
  CLUS_2               1                53
  CLUS_3               0                18
  CLUS_4               2                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 CLUS_4 CLUS_5
  5Q GAIN MUTATED        2      2      0      2      1
  5Q GAIN WILD-TYPE     31     48     16     31     28
D7V9, multiclass
        clus
vv       5Q GAIN MUTATED 5Q GAIN WILD-TYPE
  CLUS_1               2                31
  CLUS_2               2                48
  CLUS_3               0                16
  CLUS_4               2                31
  CLUS_5               1                28
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  5Q GAIN MUTATED        2      1      1      0      1      0      2
  5Q GAIN WILD-TYPE     16     40     26     15     22     18     17
D7V10, multiclass
        clus
vv       5Q GAIN MUTATED 5Q GAIN WILD-TYPE
  CLUS_1               2                16
  CLUS_2               1                40
  CLUS_3               1                26
  CLUS_4               0                15
  CLUS_5               1                22
  CLUS_6               0                18
  CLUS_7               2                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"

Clustering(8) Variable = 6P GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  6P GAIN MUTATED        1      4      1      6      2
  6P GAIN WILD-TYPE     36     36      9     44     23
D8V1, multiclass
        clus
vv       6P GAIN MUTATED 6P GAIN WILD-TYPE
  CLUS_1               1                36
  CLUS_2               4                36
  CLUS_3               1                 9
  CLUS_4               6                44
  CLUS_5               2                23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  6P GAIN MUTATED        2      6      6
  6P GAIN WILD-TYPE     38     71     39
D8V2, multiclass
        clus
vv       6P GAIN MUTATED 6P GAIN WILD-TYPE
  CLUS_1               2                38
  CLUS_2               6                71
  CLUS_3               6                39
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  6P GAIN MUTATED        1      2      5      0
  6P GAIN WILD-TYPE     15     18     18     18
D8V3, multiclass
        clus
vv       6P GAIN MUTATED 6P GAIN WILD-TYPE
  CLUS_1               1                15
  CLUS_2               2                18
  CLUS_3               5                18
  CLUS_4               0                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
  6P GAIN MUTATED        1      3      4
  6P GAIN WILD-TYPE     30     15     24
D8V4, multiclass
        clus
vv       6P GAIN MUTATED 6P GAIN WILD-TYPE
  CLUS_1               1                30
  CLUS_2               3                15
  CLUS_3               4                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
  6P GAIN MUTATED        2      7      5      0
  6P GAIN WILD-TYPE     30     58     39     21
D8V5, multiclass
        clus
vv       6P GAIN MUTATED 6P GAIN WILD-TYPE
  CLUS_1               2                30
  CLUS_2               7                58
  CLUS_3               5                39
  CLUS_4               0                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 CLUS_4
  6P GAIN MUTATED        0      7      6      1
  6P GAIN WILD-TYPE     34     57     37     20
D8V6, multiclass
        clus
vv       6P GAIN MUTATED 6P GAIN WILD-TYPE
  CLUS_1               0                34
  CLUS_2               7                57
  CLUS_3               6                37
  CLUS_4               1                20
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  6P GAIN MUTATED        6      1      7
  6P GAIN WILD-TYPE     57     43     48
D8V7, multiclass
        clus
vv       6P GAIN MUTATED 6P GAIN WILD-TYPE
  CLUS_1               6                57
  CLUS_2               1                43
  CLUS_3               7                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
  6P GAIN MUTATED        6      7      1      0
  6P GAIN WILD-TYPE     60     47     17     24
D8V8, multiclass
        clus
vv       6P GAIN MUTATED 6P GAIN WILD-TYPE
  CLUS_1               6                60
  CLUS_2               7                47
  CLUS_3               1                17
  CLUS_4               0                24
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  6P GAIN MUTATED        2      6      1      4      1
  6P GAIN WILD-TYPE     31     44     15     29     28
D8V9, multiclass
        clus
vv       6P GAIN MUTATED 6P GAIN WILD-TYPE
  CLUS_1               2                31
  CLUS_2               6                44
  CLUS_3               1                15
  CLUS_4               4                29
  CLUS_5               1                28
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  6P GAIN MUTATED        1      4      1      3      4      1      0
  6P GAIN WILD-TYPE     17     37     26     12     19     17     19
D8V10, multiclass
        clus
vv       6P GAIN MUTATED 6P GAIN WILD-TYPE
  CLUS_1               1                17
  CLUS_2               4                37
  CLUS_3               1                26
  CLUS_4               3                12
  CLUS_5               4                19
  CLUS_6               1                17
  CLUS_7               0                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"

Clustering(9) Variable = 6Q GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  6Q GAIN MUTATED        0      3      1      4      0
  6Q GAIN WILD-TYPE     37     37      9     46     25
D9V1, multiclass
        clus
vv       6Q GAIN MUTATED 6Q GAIN WILD-TYPE
  CLUS_1               0                37
  CLUS_2               3                37
  CLUS_3               1                 9
  CLUS_4               4                46
  CLUS_5               0                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
  6Q GAIN MUTATED        1      2      5
  6Q GAIN WILD-TYPE     39     75     40
D9V2, multiclass
        clus
vv       6Q GAIN MUTATED 6Q GAIN WILD-TYPE
  CLUS_1               1                39
  CLUS_2               2                75
  CLUS_3               5                40
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  6Q GAIN MUTATED        1      1      1      0
  6Q GAIN WILD-TYPE     15     19     22     18
D9V3, multiclass
        clus
vv       6Q GAIN MUTATED 6Q GAIN WILD-TYPE
  CLUS_1               1                15
  CLUS_2               1                19
  CLUS_3               1                22
  CLUS_4               0                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
  6Q GAIN MUTATED        0      2      1
  6Q GAIN WILD-TYPE     31     16     27
D9V4, multiclass
        clus
vv       6Q GAIN MUTATED 6Q GAIN WILD-TYPE
  CLUS_1               0                31
  CLUS_2               2                16
  CLUS_3               1                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
  6Q GAIN MUTATED        1      2      5      0
  6Q GAIN WILD-TYPE     31     63     39     21
D9V5, multiclass
        clus
vv       6Q GAIN MUTATED 6Q GAIN WILD-TYPE
  CLUS_1               1                31
  CLUS_2               2                63
  CLUS_3               5                39
  CLUS_4               0                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 CLUS_4
  6Q GAIN MUTATED        0      2      5      1
  6Q GAIN WILD-TYPE     34     62     38     20
D9V6, multiclass
        clus
vv       6Q GAIN MUTATED 6Q GAIN WILD-TYPE
  CLUS_1               0                34
  CLUS_2               2                62
  CLUS_3               5                38
  CLUS_4               1                20
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  6Q GAIN MUTATED        5      1      2
  6Q GAIN WILD-TYPE     58     43     53
D9V7, multiclass
        clus
vv       6Q GAIN MUTATED 6Q GAIN WILD-TYPE
  CLUS_1               5                58
  CLUS_2               1                43
  CLUS_3               2                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
  6Q GAIN MUTATED        5      2      1      0
  6Q GAIN WILD-TYPE     61     52     17     24
D9V8, multiclass
        clus
vv       6Q GAIN MUTATED 6Q GAIN WILD-TYPE
  CLUS_1               5                61
  CLUS_2               2                52
  CLUS_3               1                17
  CLUS_4               0                24
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  6Q GAIN MUTATED        2      2      0      4      0
  6Q GAIN WILD-TYPE     31     48     16     29     29
D9V9, multiclass
        clus
vv       6Q GAIN MUTATED 6Q GAIN WILD-TYPE
  CLUS_1               2                31
  CLUS_2               2                48
  CLUS_3               0                16
  CLUS_4               4                29
  CLUS_5               0                29
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  6Q GAIN MUTATED        1      1      0      1      4      1      0
  6Q GAIN WILD-TYPE     17     40     27     14     19     17     19
D9V10, multiclass
        clus
vv       6Q GAIN MUTATED 6Q GAIN WILD-TYPE
  CLUS_1               1                17
  CLUS_2               1                40
  CLUS_3               0                27
  CLUS_4               1                14
  CLUS_5               4                19
  CLUS_6               1                17
  CLUS_7               0                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"

Clustering(10) Variable = 7P GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  7P GAIN MUTATED        5     11      1      7      3
  7P GAIN WILD-TYPE     32     29      9     43     22
D10V1, multiclass
        clus
vv       7P GAIN MUTATED 7P GAIN WILD-TYPE
  CLUS_1               5                32
  CLUS_2              11                29
  CLUS_3               1                 9
  CLUS_4               7                43
  CLUS_5               3                22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table 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        7      9     11
  7P GAIN WILD-TYPE     33     68     34
D10V2, multiclass
        clus
vv       7P GAIN MUTATED 7P GAIN WILD-TYPE
  CLUS_1               7                33
  CLUS_2               9                68
  CLUS_3              11                34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  7P GAIN MUTATED        3      3      5      2
  7P GAIN WILD-TYPE     13     17     18     16
D10V3, multiclass
        clus
vv       7P GAIN MUTATED 7P GAIN WILD-TYPE
  CLUS_1               3                13
  CLUS_2               3                17
  CLUS_3               5                18
  CLUS_4               2                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
  7P GAIN MUTATED        3      2      8
  7P GAIN WILD-TYPE     28     16     20
D10V4, multiclass
        clus
vv       7P GAIN MUTATED 7P GAIN WILD-TYPE
  CLUS_1               3                28
  CLUS_2               2                16
  CLUS_3               8                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
  7P GAIN MUTATED        3      8     12      4
  7P GAIN WILD-TYPE     29     57     32     17
D10V5, multiclass
        clus
vv       7P GAIN MUTATED 7P GAIN WILD-TYPE
  CLUS_1               3                29
  CLUS_2               8                57
  CLUS_3              12                32
  CLUS_4               4                17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  7P GAIN MUTATED        7      7      8      5
  7P GAIN WILD-TYPE     27     57     35     16
D10V6, multiclass
        clus
vv       7P GAIN MUTATED 7P GAIN WILD-TYPE
  CLUS_1               7                27
  CLUS_2               7                57
  CLUS_3               8                35
  CLUS_4               5                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
  7P GAIN MUTATED       12      9      6
  7P GAIN WILD-TYPE     51     35     49
D10V7, multiclass
        clus
vv       7P GAIN MUTATED 7P GAIN WILD-TYPE
  CLUS_1              12                51
  CLUS_2               9                35
  CLUS_3               6                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
  7P GAIN MUTATED       11      6      7      3
  7P GAIN WILD-TYPE     55     48     11     21
D10V8, multiclass
        clus
vv       7P GAIN MUTATED 7P GAIN WILD-TYPE
  CLUS_1              11                55
  CLUS_2               6                48
  CLUS_3               7                11
  CLUS_4               3                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 CLUS_4 CLUS_5
  7P GAIN MUTATED        9      5      3      7      3
  7P GAIN WILD-TYPE     24     45     13     26     26
D10V9, multiclass
        clus
vv       7P GAIN MUTATED 7P GAIN WILD-TYPE
  CLUS_1               9                24
  CLUS_2               5                45
  CLUS_3               3                13
  CLUS_4               7                26
  CLUS_5               3                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
  7P GAIN MUTATED        3      3      2      3      6      7      3
  7P GAIN WILD-TYPE     15     38     25     12     17     11     16
D10V10, multiclass
        clus
vv       7P GAIN MUTATED 7P GAIN WILD-TYPE
  CLUS_1               3                15
  CLUS_2               3                38
  CLUS_3               2                25
  CLUS_4               3                12
  CLUS_5               6                17
  CLUS_6               7                11
  CLUS_7               3                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"

Clustering(11) Variable = 7Q GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  7Q GAIN MUTATED        3      9      0      7      2
  7Q GAIN WILD-TYPE     34     31     10     43     23
D11V1, multiclass
        clus
vv       7Q GAIN MUTATED 7Q GAIN WILD-TYPE
  CLUS_1               3                34
  CLUS_2               9                31
  CLUS_3               0                10
  CLUS_4               7                43
  CLUS_5               2                23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  7Q GAIN MUTATED        7      5      9
  7Q GAIN WILD-TYPE     33     72     36
D11V2, multiclass
        clus
vv       7Q GAIN MUTATED 7Q GAIN WILD-TYPE
  CLUS_1               7                33
  CLUS_2               5                72
  CLUS_3               9                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
  7Q GAIN MUTATED        3      2      3      2
  7Q GAIN WILD-TYPE     13     18     20     16
D11V3, multiclass
        clus
vv       7Q GAIN MUTATED 7Q GAIN WILD-TYPE
  CLUS_1               3                13
  CLUS_2               2                18
  CLUS_3               3                20
  CLUS_4               2                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
  7Q GAIN MUTATED        1      2      7
  7Q GAIN WILD-TYPE     30     16     21
D11V4, multiclass
        clus
vv       7Q GAIN MUTATED 7Q GAIN WILD-TYPE
  CLUS_1               1                30
  CLUS_2               2                16
  CLUS_3               7                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
  7Q GAIN MUTATED        3      5     10      3
  7Q GAIN WILD-TYPE     29     60     34     18
D11V5, multiclass
        clus
vv       7Q GAIN MUTATED 7Q GAIN WILD-TYPE
  CLUS_1               3                29
  CLUS_2               5                60
  CLUS_3              10                34
  CLUS_4               3                18
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  7Q GAIN MUTATED        5      4      8      4
  7Q GAIN WILD-TYPE     29     60     35     17
D11V6, multiclass
        clus
vv       7Q GAIN MUTATED 7Q GAIN WILD-TYPE
  CLUS_1               5                29
  CLUS_2               4                60
  CLUS_3               8                35
  CLUS_4               4                17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  7Q GAIN MUTATED       12      6      3
  7Q GAIN WILD-TYPE     51     38     52
D11V7, multiclass
        clus
vv       7Q GAIN MUTATED 7Q GAIN WILD-TYPE
  CLUS_1              12                51
  CLUS_2               6                38
  CLUS_3               3                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
  7Q GAIN MUTATED       12      3      3      3
  7Q GAIN WILD-TYPE     54     51     15     21
D11V8, multiclass
        clus
vv       7Q GAIN MUTATED 7Q GAIN WILD-TYPE
  CLUS_1              12                54
  CLUS_2               3                51
  CLUS_3               3                15
  CLUS_4               3                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 CLUS_4 CLUS_5
  7Q GAIN MUTATED        5      4      2      7      3
  7Q GAIN WILD-TYPE     28     46     14     26     26
D11V9, multiclass
        clus
vv       7Q GAIN MUTATED 7Q GAIN WILD-TYPE
  CLUS_1               5                28
  CLUS_2               4                46
  CLUS_3               2                14
  CLUS_4               7                26
  CLUS_5               3                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
  7Q GAIN MUTATED        3      3      2      1      6      3      3
  7Q GAIN WILD-TYPE     15     38     25     14     17     15     16
D11V10, multiclass
        clus
vv       7Q GAIN MUTATED 7Q GAIN WILD-TYPE
  CLUS_1               3                15
  CLUS_2               3                38
  CLUS_3               2                25
  CLUS_4               1                14
  CLUS_5               6                17
  CLUS_6               3                15
  CLUS_7               3                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"

Clustering(12) Variable = 8P GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  8P GAIN MUTATED        3      5      0      1      0
  8P GAIN WILD-TYPE     34     35     10     49     25
D12V1, multiclass
        clus
vv       8P GAIN MUTATED 8P GAIN WILD-TYPE
  CLUS_1               3                34
  CLUS_2               5                35
  CLUS_3               0                10
  CLUS_4               1                49
  CLUS_5               0                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
  8P GAIN MUTATED        4      2      3
  8P GAIN WILD-TYPE     36     75     42
D12V2, multiclass
        clus
vv       8P GAIN MUTATED 8P GAIN WILD-TYPE
  CLUS_1               4                36
  CLUS_2               2                75
  CLUS_3               3                42
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  8P GAIN MUTATED        1      1      0      2
  8P GAIN WILD-TYPE     15     19     23     16
D12V3, multiclass
        clus
vv       8P GAIN MUTATED 8P GAIN WILD-TYPE
  CLUS_1               1                15
  CLUS_2               1                19
  CLUS_3               0                23
  CLUS_4               2                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
  8P GAIN MUTATED        2      1      1
  8P GAIN WILD-TYPE     29     17     27
D12V4, multiclass
        clus
vv       8P GAIN MUTATED 8P GAIN WILD-TYPE
  CLUS_1               2                29
  CLUS_2               1                17
  CLUS_3               1                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
  8P GAIN MUTATED        1      1      4      3
  8P GAIN WILD-TYPE     31     64     40     18
D12V5, multiclass
        clus
vv       8P GAIN MUTATED 8P GAIN WILD-TYPE
  CLUS_1               1                31
  CLUS_2               1                64
  CLUS_3               4                40
  CLUS_4               3                18
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  8P GAIN MUTATED        3      0      3      3
  8P GAIN WILD-TYPE     31     64     40     18
D12V6, multiclass
        clus
vv       8P GAIN MUTATED 8P GAIN WILD-TYPE
  CLUS_1               3                31
  CLUS_2               0                64
  CLUS_3               3                40
  CLUS_4               3                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        4      5      0
  8P GAIN WILD-TYPE     59     39     55
D12V7, multiclass
        clus
vv       8P GAIN MUTATED 8P GAIN WILD-TYPE
  CLUS_1               4                59
  CLUS_2               5                39
  CLUS_3               0                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
  8P GAIN MUTATED        4      0      2      3
  8P GAIN WILD-TYPE     62     54     16     21
D12V8, multiclass
        clus
vv       8P GAIN MUTATED 8P GAIN WILD-TYPE
  CLUS_1               4                62
  CLUS_2               0                54
  CLUS_3               2                16
  CLUS_4               3                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 CLUS_4 CLUS_5
  8P GAIN MUTATED        3      1      0      2      3
  8P GAIN WILD-TYPE     30     49     16     31     26
D12V9, multiclass
        clus
vv       8P GAIN MUTATED 8P GAIN WILD-TYPE
  CLUS_1               3                30
  CLUS_2               1                49
  CLUS_3               0                16
  CLUS_4               2                31
  CLUS_5               3                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 GAIN MUTATED        1      0      1      0      2      2      3
  8P GAIN WILD-TYPE     17     41     26     15     21     16     16
D12V10, multiclass
        clus
vv       8P GAIN MUTATED 8P GAIN WILD-TYPE
  CLUS_1               1                17
  CLUS_2               0                41
  CLUS_3               1                26
  CLUS_4               0                15
  CLUS_5               2                21
  CLUS_6               2                16
  CLUS_7               3                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"

Clustering(13) Variable = 8Q GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  8Q GAIN MUTATED        5      5      0      3      0
  8Q GAIN WILD-TYPE     32     35     10     47     25
D13V1, multiclass
        clus
vv       8Q GAIN MUTATED 8Q GAIN WILD-TYPE
  CLUS_1               5                32
  CLUS_2               5                35
  CLUS_3               0                10
  CLUS_4               3                47
  CLUS_5               0                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
  8Q GAIN MUTATED        4      5      4
  8Q GAIN WILD-TYPE     36     72     41
D13V2, multiclass
        clus
vv       8Q GAIN MUTATED 8Q GAIN WILD-TYPE
  CLUS_1               4                36
  CLUS_2               5                72
  CLUS_3               4                41
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  8Q GAIN MUTATED        1      1      1      3
  8Q GAIN WILD-TYPE     15     19     22     15
D13V3, multiclass
        clus
vv       8Q GAIN MUTATED 8Q GAIN WILD-TYPE
  CLUS_1               1                15
  CLUS_2               1                19
  CLUS_3               1                22
  CLUS_4               3                15
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  8Q GAIN MUTATED        3      1      2
  8Q GAIN WILD-TYPE     28     17     26
D13V4, multiclass
        clus
vv       8Q GAIN MUTATED 8Q GAIN WILD-TYPE
  CLUS_1               3                28
  CLUS_2               1                17
  CLUS_3               2                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
  8Q GAIN MUTATED        1      3      5      4
  8Q GAIN WILD-TYPE     31     62     39     17
D13V5, multiclass
        clus
vv       8Q GAIN MUTATED 8Q GAIN WILD-TYPE
  CLUS_1               1                31
  CLUS_2               3                62
  CLUS_3               5                39
  CLUS_4               4                17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  8Q GAIN MUTATED        4      2      3      4
  8Q GAIN WILD-TYPE     30     62     40     17
D13V6, multiclass
        clus
vv       8Q GAIN MUTATED 8Q GAIN WILD-TYPE
  CLUS_1               4                30
  CLUS_2               2                62
  CLUS_3               3                40
  CLUS_4               4                17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  8Q GAIN MUTATED        5      6      2
  8Q GAIN WILD-TYPE     58     38     53
D13V7, multiclass
        clus
vv       8Q GAIN MUTATED 8Q GAIN WILD-TYPE
  CLUS_1               5                58
  CLUS_2               6                38
  CLUS_3               2                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
  8Q GAIN MUTATED        5      2      2      4
  8Q GAIN WILD-TYPE     61     52     16     20
D13V8, multiclass
        clus
vv       8Q GAIN MUTATED 8Q GAIN WILD-TYPE
  CLUS_1               5                61
  CLUS_2               2                52
  CLUS_3               2                16
  CLUS_4               4                20
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  8Q GAIN MUTATED        3      3      1      2      4
  8Q GAIN WILD-TYPE     30     47     15     31     25
D13V9, multiclass
        clus
vv       8Q GAIN MUTATED 8Q GAIN WILD-TYPE
  CLUS_1               3                30
  CLUS_2               3                47
  CLUS_3               1                15
  CLUS_4               2                31
  CLUS_5               4                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
  8Q GAIN MUTATED        1      2      2      0      2      2      4
  8Q GAIN WILD-TYPE     17     39     25     15     21     16     15
D13V10, multiclass
        clus
vv       8Q GAIN MUTATED 8Q GAIN WILD-TYPE
  CLUS_1               1                17
  CLUS_2               2                39
  CLUS_3               2                25
  CLUS_4               0                15
  CLUS_5               2                21
  CLUS_6               2                16
  CLUS_7               4                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"

Clustering(14) Variable = 9P GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  9P GAIN MUTATED        0      1      0      2      1
  9P GAIN WILD-TYPE     37     39     10     48     24
D14V1, multiclass
        clus
vv       9P GAIN MUTATED 9P GAIN WILD-TYPE
  CLUS_1               0                37
  CLUS_2               1                39
  CLUS_3               0                10
  CLUS_4               2                48
  CLUS_5               1                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
  9P GAIN MUTATED        1      1      2
  9P GAIN WILD-TYPE     39     76     43
D14V2, multiclass
        clus
vv       9P GAIN MUTATED 9P GAIN WILD-TYPE
  CLUS_1               1                39
  CLUS_2               1                76
  CLUS_3               2                43
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  9P GAIN MUTATED        0      0      0      0
  9P GAIN WILD-TYPE     16     20     23     18
D14V3, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  9P GAIN MUTATED        0      0      0
  9P GAIN WILD-TYPE     31     18     28
D14V4, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  9P GAIN MUTATED        2      0      2      0
  9P GAIN WILD-TYPE     30     65     42     21
D14V5, multiclass
        clus
vv       9P GAIN MUTATED 9P GAIN WILD-TYPE
  CLUS_1               2                30
  CLUS_2               0                65
  CLUS_3               2                42
  CLUS_4               0                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 CLUS_4
  9P GAIN MUTATED        1      0      2      1
  9P GAIN WILD-TYPE     33     64     41     20
D14V6, multiclass
        clus
vv       9P GAIN MUTATED 9P GAIN WILD-TYPE
  CLUS_1               1                33
  CLUS_2               0                64
  CLUS_3               2                41
  CLUS_4               1                20
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  9P GAIN MUTATED        3      1      0
  9P GAIN WILD-TYPE     60     43     55
D14V7, multiclass
        clus
vv       9P GAIN MUTATED 9P GAIN WILD-TYPE
  CLUS_1               3                60
  CLUS_2               1                43
  CLUS_3               0                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
  9P GAIN MUTATED        3      0      1      0
  9P GAIN WILD-TYPE     63     54     17     24
D14V8, multiclass
        clus
vv       9P GAIN MUTATED 9P GAIN WILD-TYPE
  CLUS_1               3                63
  CLUS_2               0                54
  CLUS_3               1                17
  CLUS_4               0                24
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  9P GAIN MUTATED        1      0      0      2      1
  9P GAIN WILD-TYPE     32     50     16     31     28
D14V9, multiclass
        clus
vv       9P GAIN MUTATED 9P GAIN WILD-TYPE
  CLUS_1               1                32
  CLUS_2               0                50
  CLUS_3               0                16
  CLUS_4               2                31
  CLUS_5               1                28
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  9P GAIN MUTATED        1      0      1      0      1      1      0
  9P GAIN WILD-TYPE     17     41     26     15     22     17     19
D14V10, multiclass
        clus
vv       9P GAIN MUTATED 9P GAIN WILD-TYPE
  CLUS_1               1                17
  CLUS_2               0                41
  CLUS_3               1                26
  CLUS_4               0                15
  CLUS_5               1                22
  CLUS_6               1                17
  CLUS_7               0                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"

Clustering(15) Variable = 9Q GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  9Q GAIN MUTATED        0      1      0      2      0
  9Q GAIN WILD-TYPE     37     39     10     48     25
D15V1, multiclass
        clus
vv       9Q GAIN MUTATED 9Q GAIN WILD-TYPE
  CLUS_1               0                37
  CLUS_2               1                39
  CLUS_3               0                10
  CLUS_4               2                48
  CLUS_5               0                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
  9Q GAIN MUTATED        0      1      2
  9Q GAIN WILD-TYPE     40     76     43
D15V2, multiclass
        clus
vv       9Q GAIN MUTATED 9Q GAIN WILD-TYPE
  CLUS_1               0                40
  CLUS_2               1                76
  CLUS_3               2                43
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  9Q GAIN MUTATED        0      0      0      0
  9Q GAIN WILD-TYPE     16     20     23     18
D15V3, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  9Q GAIN MUTATED        0      0      0
  9Q GAIN WILD-TYPE     31     18     28
D15V4, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  9Q GAIN MUTATED        1      0      2      0
  9Q GAIN WILD-TYPE     31     65     42     21
D15V5, multiclass
        clus
vv       9Q GAIN MUTATED 9Q GAIN WILD-TYPE
  CLUS_1               1                31
  CLUS_2               0                65
  CLUS_3               2                42
  CLUS_4               0                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 CLUS_4
  9Q GAIN MUTATED        1      0      1      1
  9Q GAIN WILD-TYPE     33     64     42     20
D15V6, multiclass
        clus
vv       9Q GAIN MUTATED 9Q GAIN WILD-TYPE
  CLUS_1               1                33
  CLUS_2               0                64
  CLUS_3               1                42
  CLUS_4               1                20
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  9Q GAIN MUTATED        2      1      0
  9Q GAIN WILD-TYPE     61     43     55
D15V7, multiclass
        clus
vv       9Q GAIN MUTATED 9Q GAIN WILD-TYPE
  CLUS_1               2                61
  CLUS_2               1                43
  CLUS_3               0                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
  9Q GAIN MUTATED        2      0      1      0
  9Q GAIN WILD-TYPE     64     54     17     24
D15V8, multiclass
        clus
vv       9Q GAIN MUTATED 9Q GAIN WILD-TYPE
  CLUS_1               2                64
  CLUS_2               0                54
  CLUS_3               1                17
  CLUS_4               0                24
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  9Q GAIN MUTATED        1      0      0      2      0
  9Q GAIN WILD-TYPE     32     50     16     31     29
D15V9, multiclass
        clus
vv       9Q GAIN MUTATED 9Q GAIN WILD-TYPE
  CLUS_1               1                32
  CLUS_2               0                50
  CLUS_3               0                16
  CLUS_4               2                31
  CLUS_5               0                29
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  9Q GAIN MUTATED        1      0      0      0      1      1      0
  9Q GAIN WILD-TYPE     17     41     27     15     22     17     19
D15V10, multiclass
        clus
vv       9Q GAIN MUTATED 9Q GAIN WILD-TYPE
  CLUS_1               1                17
  CLUS_2               0                41
  CLUS_3               0                27
  CLUS_4               0                15
  CLUS_5               1                22
  CLUS_6               1                17
  CLUS_7               0                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"

Clustering(16) Variable = 10P GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  10P GAIN MUTATED        2      2      0      5      3
  10P GAIN WILD-TYPE     35     38     10     45     22
D16V1, multiclass
        clus
vv       10P GAIN MUTATED 10P GAIN WILD-TYPE
  CLUS_1                2                 35
  CLUS_2                2                 38
  CLUS_3                0                 10
  CLUS_4                5                 45
  CLUS_5                3                 22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table 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      7
  10P GAIN WILD-TYPE     39     73     38
D16V2, multiclass
        clus
vv       10P GAIN MUTATED 10P GAIN WILD-TYPE
  CLUS_1                1                 39
  CLUS_2                4                 73
  CLUS_3                7                 38
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  10P GAIN MUTATED        1      1      1      1
  10P GAIN WILD-TYPE     15     19     22     17
D16V3, multiclass
        clus
vv       10P GAIN MUTATED 10P GAIN WILD-TYPE
  CLUS_1                1                 15
  CLUS_2                1                 19
  CLUS_3                1                 22
  CLUS_4                1                 17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  10P GAIN MUTATED        0      2      2
  10P GAIN WILD-TYPE     31     16     26
D16V4, multiclass
        clus
vv       10P GAIN MUTATED 10P GAIN WILD-TYPE
  CLUS_1                0                 31
  CLUS_2                2                 16
  CLUS_3                2                 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
  10P GAIN MUTATED        3      4      3      2
  10P GAIN WILD-TYPE     29     61     41     19
D16V5, multiclass
        clus
vv       10P GAIN MUTATED 10P GAIN WILD-TYPE
  CLUS_1                3                 29
  CLUS_2                4                 61
  CLUS_3                3                 41
  CLUS_4                2                 19
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  10P GAIN MUTATED        3      4      2      3
  10P GAIN WILD-TYPE     31     60     41     18
D16V6, multiclass
        clus
vv       10P GAIN MUTATED 10P GAIN WILD-TYPE
  CLUS_1                3                 31
  CLUS_2                4                 60
  CLUS_3                2                 41
  CLUS_4                3                 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
  10P GAIN MUTATED        5      3      4
  10P GAIN WILD-TYPE     58     41     51
D16V7, multiclass
        clus
vv       10P GAIN MUTATED 10P GAIN WILD-TYPE
  CLUS_1                5                 58
  CLUS_2                3                 41
  CLUS_3                4                 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        4      4      2      2
  10P GAIN WILD-TYPE     62     50     16     22
D16V8, multiclass
        clus
vv       10P GAIN MUTATED 10P GAIN WILD-TYPE
  CLUS_1                4                 62
  CLUS_2                4                 50
  CLUS_3                2                 16
  CLUS_4                2                 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 CLUS_4 CLUS_5
  10P GAIN MUTATED        4      4      1      2      1
  10P GAIN WILD-TYPE     29     46     15     31     28
D16V9, multiclass
        clus
vv       10P GAIN MUTATED 10P GAIN WILD-TYPE
  CLUS_1                4                 29
  CLUS_2                4                 46
  CLUS_3                1                 15
  CLUS_4                2                 31
  CLUS_5                1                 28
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  10P GAIN MUTATED        4      2      0      1      1      2      2
  10P GAIN WILD-TYPE     14     39     27     14     22     16     17
D16V10, multiclass
        clus
vv       10P GAIN MUTATED 10P GAIN WILD-TYPE
  CLUS_1                4                 14
  CLUS_2                2                 39
  CLUS_3                0                 27
  CLUS_4                1                 14
  CLUS_5                1                 22
  CLUS_6                2                 16
  CLUS_7                2                 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"

Clustering(17) Variable = 10Q GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  10Q GAIN MUTATED        3      1      0      3      3
  10Q GAIN WILD-TYPE     34     39     10     47     22
D17V1, multiclass
        clus
vv       10Q GAIN MUTATED 10Q GAIN WILD-TYPE
  CLUS_1                3                 34
  CLUS_2                1                 39
  CLUS_3                0                 10
  CLUS_4                3                 47
  CLUS_5                3                 22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table 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      4      5
  10Q GAIN WILD-TYPE     39     73     40
D17V2, multiclass
        clus
vv       10Q GAIN MUTATED 10Q GAIN WILD-TYPE
  CLUS_1                1                 39
  CLUS_2                4                 73
  CLUS_3                5                 40
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  10Q GAIN MUTATED        1      1      1      1
  10Q GAIN WILD-TYPE     15     19     22     17
D17V3, multiclass
        clus
vv       10Q GAIN MUTATED 10Q GAIN WILD-TYPE
  CLUS_1                1                 15
  CLUS_2                1                 19
  CLUS_3                1                 22
  CLUS_4                1                 17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  10Q GAIN MUTATED        0      2      2
  10Q GAIN WILD-TYPE     31     16     26
D17V4, multiclass
        clus
vv       10Q GAIN MUTATED 10Q GAIN WILD-TYPE
  CLUS_1                0                 31
  CLUS_2                2                 16
  CLUS_3                2                 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
  10Q GAIN MUTATED        2      5      1      2
  10Q GAIN WILD-TYPE     30     60     43     19
D17V5, multiclass
        clus
vv       10Q GAIN MUTATED 10Q GAIN WILD-TYPE
  CLUS_1                2                 30
  CLUS_2                5                 60
  CLUS_3                1                 43
  CLUS_4                2                 19
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  10Q GAIN MUTATED        2      5      1      2
  10Q GAIN WILD-TYPE     32     59     42     19
D17V6, multiclass
        clus
vv       10Q GAIN MUTATED 10Q GAIN WILD-TYPE
  CLUS_1                2                 32
  CLUS_2                5                 59
  CLUS_3                1                 42
  CLUS_4                2                 19
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  10Q GAIN MUTATED        3      2      5
  10Q GAIN WILD-TYPE     60     42     50
D17V7, multiclass
        clus
vv       10Q GAIN MUTATED 10Q GAIN WILD-TYPE
  CLUS_1                3                 60
  CLUS_2                2                 42
  CLUS_3                5                 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
  10Q GAIN MUTATED        3      5      0      2
  10Q GAIN WILD-TYPE     63     49     18     22
D17V8, multiclass
        clus
vv       10Q GAIN MUTATED 10Q GAIN WILD-TYPE
  CLUS_1                3                 63
  CLUS_2                5                 49
  CLUS_3                0                 18
  CLUS_4                2                 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 CLUS_4 CLUS_5
  10Q GAIN MUTATED        1      5      1      2      1
  10Q GAIN WILD-TYPE     32     45     15     31     28
D17V9, multiclass
        clus
vv       10Q GAIN MUTATED 10Q GAIN WILD-TYPE
  CLUS_1                1                 32
  CLUS_2                5                 45
  CLUS_3                1                 15
  CLUS_4                2                 31
  CLUS_5                1                 28
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  10Q GAIN MUTATED        3      2      0      2      1      0      2
  10Q GAIN WILD-TYPE     15     39     27     13     22     18     17
D17V10, multiclass
        clus
vv       10Q GAIN MUTATED 10Q GAIN WILD-TYPE
  CLUS_1                3                 15
  CLUS_2                2                 39
  CLUS_3                0                 27
  CLUS_4                2                 13
  CLUS_5                1                 22
  CLUS_6                0                 18
  CLUS_7                2                 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"

Clustering(18) Variable = 11P GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  11P GAIN MUTATED        1      0      2      2      0
  11P GAIN WILD-TYPE     36     40      8     48     25
D18V1, multiclass
        clus
vv       11P GAIN MUTATED 11P GAIN WILD-TYPE
  CLUS_1                1                 36
  CLUS_2                0                 40
  CLUS_3                2                  8
  CLUS_4                2                 48
  CLUS_5                0                 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
  11P GAIN MUTATED        0      4      1
  11P GAIN WILD-TYPE     40     73     44
D18V2, multiclass
        clus
vv       11P GAIN MUTATED 11P GAIN WILD-TYPE
  CLUS_1                0                 40
  CLUS_2                4                 73
  CLUS_3                1                 44
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  11P GAIN MUTATED        0      0      2      1
  11P GAIN WILD-TYPE     16     20     21     17
D18V3, multiclass
        clus
vv       11P GAIN MUTATED 11P GAIN WILD-TYPE
  CLUS_1                0                 16
  CLUS_2                0                 20
  CLUS_3                2                 21
  CLUS_4                1                 17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  11P GAIN MUTATED        1      1      1
  11P GAIN WILD-TYPE     30     17     27
D18V4, multiclass
        clus
vv       11P GAIN MUTATED 11P GAIN WILD-TYPE
  CLUS_1                1                 30
  CLUS_2                1                 17
  CLUS_3                1                 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
  11P GAIN MUTATED        0      4      1      0
  11P GAIN WILD-TYPE     32     61     43     21
D18V5, multiclass
        clus
vv       11P GAIN MUTATED 11P GAIN WILD-TYPE
  CLUS_1                0                 32
  CLUS_2                4                 61
  CLUS_3                1                 43
  CLUS_4                0                 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 CLUS_4
  11P GAIN MUTATED        1      4      0      0
  11P GAIN WILD-TYPE     33     60     43     21
D18V6, multiclass
        clus
vv       11P GAIN MUTATED 11P GAIN WILD-TYPE
  CLUS_1                1                 33
  CLUS_2                4                 60
  CLUS_3                0                 43
  CLUS_4                0                 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
  11P GAIN MUTATED        1      1      3
  11P GAIN WILD-TYPE     62     43     52
D18V7, multiclass
        clus
vv       11P GAIN MUTATED 11P GAIN WILD-TYPE
  CLUS_1                1                 62
  CLUS_2                1                 43
  CLUS_3                3                 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
  11P GAIN MUTATED        1      3      0      1
  11P GAIN WILD-TYPE     65     51     18     23
D18V8, multiclass
        clus
vv       11P GAIN MUTATED 11P GAIN WILD-TYPE
  CLUS_1                1                 65
  CLUS_2                3                 51
  CLUS_3                0                 18
  CLUS_4                1                 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 CLUS_4 CLUS_5
  11P GAIN MUTATED        0      3      2      0      0
  11P GAIN WILD-TYPE     33     47     14     33     29
D18V9, multiclass
        clus
vv       11P GAIN MUTATED 11P GAIN WILD-TYPE
  CLUS_1                0                 33
  CLUS_2                3                 47
  CLUS_3                2                 14
  CLUS_4                0                 33
  CLUS_5                0                 29
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  11P GAIN MUTATED        0      2      1      2      0      0      0
  11P GAIN WILD-TYPE     18     39     26     13     23     18     19
D18V10, multiclass
        clus
vv       11P GAIN MUTATED 11P GAIN WILD-TYPE
  CLUS_1                0                 18
  CLUS_2                2                 39
  CLUS_3                1                 26
  CLUS_4                2                 13
  CLUS_5                0                 23
  CLUS_6                0                 18
  CLUS_7                0                 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"

Clustering(19) Variable = 12P GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  12P GAIN MUTATED        1      4      0      6      0
  12P GAIN WILD-TYPE     36     36     10     44     25
D19V1, multiclass
        clus
vv       12P GAIN MUTATED 12P GAIN WILD-TYPE
  CLUS_1                1                 36
  CLUS_2                4                 36
  CLUS_3                0                 10
  CLUS_4                6                 44
  CLUS_5                0                 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
  12P GAIN MUTATED        3      1      7
  12P GAIN WILD-TYPE     37     76     38
D19V2, multiclass
        clus
vv       12P GAIN MUTATED 12P GAIN WILD-TYPE
  CLUS_1                3                 37
  CLUS_2                1                 76
  CLUS_3                7                 38
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  12P GAIN MUTATED        1      2      0      1
  12P GAIN WILD-TYPE     15     18     23     17
D19V3, multiclass
        clus
vv       12P GAIN MUTATED 12P GAIN WILD-TYPE
  CLUS_1                1                 15
  CLUS_2                2                 18
  CLUS_3                0                 23
  CLUS_4                1                 17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  12P GAIN MUTATED        0      2      2
  12P GAIN WILD-TYPE     31     16     26
D19V4, multiclass
        clus
vv       12P GAIN MUTATED 12P GAIN WILD-TYPE
  CLUS_1                0                 31
  CLUS_2                2                 16
  CLUS_3                2                 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
  12P GAIN MUTATED        2      3      5      1
  12P GAIN WILD-TYPE     30     62     39     20
D19V5, multiclass
        clus
vv       12P GAIN MUTATED 12P GAIN WILD-TYPE
  CLUS_1                2                 30
  CLUS_2                3                 62
  CLUS_3                5                 39
  CLUS_4                1                 20
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  12P GAIN MUTATED        3      2      5      1
  12P GAIN WILD-TYPE     31     62     38     20
D19V6, multiclass
        clus
vv       12P GAIN MUTATED 12P GAIN WILD-TYPE
  CLUS_1                3                 31
  CLUS_2                2                 62
  CLUS_3                5                 38
  CLUS_4                1                 20
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  12P GAIN MUTATED        9      1      1
  12P GAIN WILD-TYPE     54     43     54
D19V7, multiclass
        clus
vv       12P GAIN MUTATED 12P GAIN WILD-TYPE
  CLUS_1                9                 54
  CLUS_2                1                 43
  CLUS_3                1                 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
  12P GAIN MUTATED        8      2      0      1
  12P GAIN WILD-TYPE     58     52     18     23
D19V8, multiclass
        clus
vv       12P GAIN MUTATED 12P GAIN WILD-TYPE
  CLUS_1                8                 58
  CLUS_2                2                 52
  CLUS_3                0                 18
  CLUS_4                1                 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 CLUS_4 CLUS_5
  12P GAIN MUTATED        2      2      0      7      0
  12P GAIN WILD-TYPE     31     48     16     26     29
D19V9, multiclass
        clus
vv       12P GAIN MUTATED 12P GAIN WILD-TYPE
  CLUS_1                2                 31
  CLUS_2                2                 48
  CLUS_3                0                 16
  CLUS_4                7                 26
  CLUS_5                0                 29
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  12P GAIN MUTATED        3      1      1      0      5      0      1
  12P GAIN WILD-TYPE     15     40     26     15     18     18     18
D19V10, multiclass
        clus
vv       12P GAIN MUTATED 12P GAIN WILD-TYPE
  CLUS_1                3                 15
  CLUS_2                1                 40
  CLUS_3                1                 26
  CLUS_4                0                 15
  CLUS_5                5                 18
  CLUS_6                0                 18
  CLUS_7                1                 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"

Clustering(20) Variable = 12Q GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  12Q GAIN MUTATED        2      4      0      8      0
  12Q GAIN WILD-TYPE     35     36     10     42     25
D20V1, multiclass
        clus
vv       12Q GAIN MUTATED 12Q GAIN WILD-TYPE
  CLUS_1                2                 35
  CLUS_2                4                 36
  CLUS_3                0                 10
  CLUS_4                8                 42
  CLUS_5                0                 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
  12Q GAIN MUTATED        3      4      7
  12Q GAIN WILD-TYPE     37     73     38
D20V2, multiclass
        clus
vv       12Q GAIN MUTATED 12Q GAIN WILD-TYPE
  CLUS_1                3                 37
  CLUS_2                4                 73
  CLUS_3                7                 38
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  12Q GAIN MUTATED        1      2      1      2
  12Q GAIN WILD-TYPE     15     18     22     16
D20V3, multiclass
        clus
vv       12Q GAIN MUTATED 12Q GAIN WILD-TYPE
  CLUS_1                1                 15
  CLUS_2                2                 18
  CLUS_3                1                 22
  CLUS_4                2                 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
  12Q GAIN MUTATED        1      2      3
  12Q GAIN WILD-TYPE     30     16     25
D20V4, multiclass
        clus
vv       12Q GAIN MUTATED 12Q GAIN WILD-TYPE
  CLUS_1                1                 30
  CLUS_2                2                 16
  CLUS_3                3                 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
  12Q GAIN MUTATED        2      5      6      1
  12Q GAIN WILD-TYPE     30     60     38     20
D20V5, multiclass
        clus
vv       12Q GAIN MUTATED 12Q GAIN WILD-TYPE
  CLUS_1                2                 30
  CLUS_2                5                 60
  CLUS_3                6                 38
  CLUS_4                1                 20
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  12Q GAIN MUTATED        4      4      5      1
  12Q GAIN WILD-TYPE     30     60     38     20
D20V6, multiclass
        clus
vv       12Q GAIN MUTATED 12Q GAIN WILD-TYPE
  CLUS_1                4                 30
  CLUS_2                4                 60
  CLUS_3                5                 38
  CLUS_4                1                 20
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  12Q GAIN MUTATED       10      1      3
  12Q GAIN WILD-TYPE     53     43     52
D20V7, multiclass
        clus
vv       12Q GAIN MUTATED 12Q GAIN WILD-TYPE
  CLUS_1               10                 53
  CLUS_2                1                 43
  CLUS_3                3                 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 GAIN MUTATED        9      4      0      1
  12Q GAIN WILD-TYPE     57     50     18     23
D20V8, multiclass
        clus
vv       12Q GAIN MUTATED 12Q GAIN WILD-TYPE
  CLUS_1                9                 57
  CLUS_2                4                 50
  CLUS_3                0                 18
  CLUS_4                1                 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 CLUS_4 CLUS_5
  12Q GAIN MUTATED        2      4      1      7      0
  12Q GAIN WILD-TYPE     31     46     15     26     29
D20V9, multiclass
        clus
vv       12Q GAIN MUTATED 12Q GAIN WILD-TYPE
  CLUS_1                2                 31
  CLUS_2                4                 46
  CLUS_3                1                 15
  CLUS_4                7                 26
  CLUS_5                0                 29
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  12Q GAIN MUTATED        3      3      2      0      5      0      1
  12Q GAIN WILD-TYPE     15     38     25     15     18     18     18
D20V10, multiclass
        clus
vv       12Q GAIN MUTATED 12Q GAIN WILD-TYPE
  CLUS_1                3                 15
  CLUS_2                3                 38
  CLUS_3                2                 25
  CLUS_4                0                 15
  CLUS_5                5                 18
  CLUS_6                0                 18
  CLUS_7                1                 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"

Clustering(21) Variable = 13Q GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  13Q GAIN MUTATED        0      6      0      3      0
  13Q GAIN WILD-TYPE     37     34     10     47     25
D21V1, multiclass
        clus
vv       13Q GAIN MUTATED 13Q GAIN WILD-TYPE
  CLUS_1                0                 37
  CLUS_2                6                 34
  CLUS_3                0                 10
  CLUS_4                3                 47
  CLUS_5                0                 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
  13Q GAIN MUTATED        4      1      4
  13Q GAIN WILD-TYPE     36     76     41
D21V2, multiclass
        clus
vv       13Q GAIN MUTATED 13Q GAIN WILD-TYPE
  CLUS_1                4                 36
  CLUS_2                1                 76
  CLUS_3                4                 41
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  13Q GAIN MUTATED        2      2      0      1
  13Q GAIN WILD-TYPE     14     18     23     17
D21V3, multiclass
        clus
vv       13Q GAIN MUTATED 13Q GAIN WILD-TYPE
  CLUS_1                2                 14
  CLUS_2                2                 18
  CLUS_3                0                 23
  CLUS_4                1                 17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  13Q GAIN MUTATED        1      1      3
  13Q GAIN WILD-TYPE     30     17     25
D21V4, multiclass
        clus
vv       13Q GAIN MUTATED 13Q GAIN WILD-TYPE
  CLUS_1                1                 30
  CLUS_2                1                 17
  CLUS_3                3                 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
  13Q GAIN MUTATED        2      0      6      1
  13Q GAIN WILD-TYPE     30     65     38     20
D21V5, multiclass
        clus
vv       13Q GAIN MUTATED 13Q GAIN WILD-TYPE
  CLUS_1                2                 30
  CLUS_2                0                 65
  CLUS_3                6                 38
  CLUS_4                1                 20
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  13Q GAIN MUTATED        2      0      6      1
  13Q GAIN WILD-TYPE     32     64     37     20
D21V6, multiclass
        clus
vv       13Q GAIN MUTATED 13Q GAIN WILD-TYPE
  CLUS_1                2                 32
  CLUS_2                0                 64
  CLUS_3                6                 37
  CLUS_4                1                 20
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  13Q GAIN MUTATED        7      2      0
  13Q GAIN WILD-TYPE     56     42     55
D21V7, multiclass
        clus
vv       13Q GAIN MUTATED 13Q GAIN WILD-TYPE
  CLUS_1                7                 56
  CLUS_2                2                 42
  CLUS_3                0                 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
  13Q GAIN MUTATED        7      0      1      1
  13Q GAIN WILD-TYPE     59     54     17     23
D21V8, multiclass
        clus
vv       13Q GAIN MUTATED 13Q GAIN WILD-TYPE
  CLUS_1                7                 59
  CLUS_2                0                 54
  CLUS_3                1                 17
  CLUS_4                1                 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 CLUS_4 CLUS_5
  13Q GAIN MUTATED        2      0      0      6      1
  13Q GAIN WILD-TYPE     31     50     16     27     28
D21V9, multiclass
        clus
vv       13Q GAIN MUTATED 13Q GAIN WILD-TYPE
  CLUS_1                2                 31
  CLUS_2                0                 50
  CLUS_3                0                 16
  CLUS_4                6                 27
  CLUS_5                1                 28
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  13Q GAIN MUTATED        2      0      0      0      5      1      1
  13Q GAIN WILD-TYPE     16     41     27     15     18     17     18
D21V10, multiclass
        clus
vv       13Q GAIN MUTATED 13Q GAIN WILD-TYPE
  CLUS_1                2                 16
  CLUS_2                0                 41
  CLUS_3                0                 27
  CLUS_4                0                 15
  CLUS_5                5                 18
  CLUS_6                1                 17
  CLUS_7                1                 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"

Clustering(22) Variable = 14Q GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  14Q GAIN MUTATED        0      1      0      3      0
  14Q GAIN WILD-TYPE     37     39     10     47     25
D22V1, multiclass
        clus
vv       14Q GAIN MUTATED 14Q GAIN WILD-TYPE
  CLUS_1                0                 37
  CLUS_2                1                 39
  CLUS_3                0                 10
  CLUS_4                3                 47
  CLUS_5                0                 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
  14Q GAIN MUTATED        1      1      2
  14Q GAIN WILD-TYPE     39     76     43
D22V2, multiclass
        clus
vv       14Q GAIN MUTATED 14Q GAIN WILD-TYPE
  CLUS_1                1                 39
  CLUS_2                1                 76
  CLUS_3                2                 43
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  14Q GAIN MUTATED        0      0      0      1
  14Q GAIN WILD-TYPE     16     20     23     17
D22V3, multiclass
[1] "Remove cluster labels:" "14Q GAIN MUTATED"      
clus
  14Q GAIN MUTATED 14Q GAIN WILD-TYPE 
                 1                 76 
        TCGA-P8-A5KC         TCGA-P8-A5KD         TCGA-P8-A6RX 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-P8-A6RY         TCGA-PR-A5PF         TCGA-PR-A5PG 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-PR-A5PH         TCGA-QR-A6GO         TCGA-QR-A6GT 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-QR-A6GU         TCGA-QR-A6GZ         TCGA-QR-A6H2 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-QR-A70W         TCGA-QT-A5XJ         TCGA-QT-A5XK 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-QT-A5XL         TCGA-QT-A5XM         TCGA-QT-A5XN 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-QT-A5XO         TCGA-QT-A5XP         TCGA-QT-A69Q 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-QT-A7U0         TCGA-RM-A68T         TCGA-RM-A68W 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-RT-A6Y9         TCGA-RT-A6YA         TCGA-RT-A6YC 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-RW-A67V         TCGA-RW-A67X         TCGA-RW-A680 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-RW-A685         TCGA-RW-A688         TCGA-RW-A689 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-RW-A68A         TCGA-RW-A68B         TCGA-RW-A68C 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-RW-A68D         TCGA-RW-A68F         TCGA-RW-A68G 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-RW-A8AZ         TCGA-RX-A8JQ         TCGA-S7-A7WL 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-S7-A7WM         TCGA-S7-A7WN         TCGA-S7-A7WP 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-S7-A7WQ         TCGA-S7-A7WR         TCGA-S7-A7WU 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-S7-A7WV         TCGA-S7-A7WW         TCGA-S7-A7WX 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-S7-A7X0         TCGA-S7-A7X1         TCGA-S7-A7X2 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-SA-A6C2         TCGA-SP-A6QJ         TCGA-SR-A6MQ 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-SR-A6MX         TCGA-SR-A6MY         TCGA-SR-A6MZ 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-TT-A6YN         TCGA-W2-A7HC         TCGA-W2-A7HF 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-WB-A80Q         TCGA-WB-A814         TCGA-WB-A815 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-WB-A817         TCGA-WB-A818         TCGA-WB-A819 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-WB-A81G         TCGA-WB-A81M         TCGA-WB-A81P 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-WB-A81S         TCGA-WB-A81T         TCGA-WB-A81V 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-WB-A81W 
"14Q GAIN WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  14Q GAIN MUTATED        0      0      1
  14Q GAIN WILD-TYPE     31     18     27
D22V4, multiclass
[1] "Remove cluster labels:" "14Q GAIN MUTATED"      
clus
  14Q GAIN MUTATED 14Q GAIN WILD-TYPE 
                 1                 76 
        TCGA-P8-A5KC         TCGA-P8-A5KD         TCGA-P8-A6RX 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-P8-A6RY         TCGA-PR-A5PF         TCGA-PR-A5PG 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-PR-A5PH         TCGA-QR-A6GO         TCGA-QR-A6GT 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-QR-A6GU         TCGA-QR-A6GZ         TCGA-QR-A6H2 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-QR-A70W         TCGA-QT-A5XJ         TCGA-QT-A5XK 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-QT-A5XL         TCGA-QT-A5XM         TCGA-QT-A5XN 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-QT-A5XO         TCGA-QT-A5XP         TCGA-QT-A69Q 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-QT-A7U0         TCGA-RM-A68T         TCGA-RM-A68W 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-RT-A6Y9         TCGA-RT-A6YA         TCGA-RT-A6YC 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-RW-A67V         TCGA-RW-A67X         TCGA-RW-A680 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-RW-A685         TCGA-RW-A688         TCGA-RW-A689 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-RW-A68A         TCGA-RW-A68B         TCGA-RW-A68C 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-RW-A68D         TCGA-RW-A68F         TCGA-RW-A68G 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-RW-A8AZ         TCGA-RX-A8JQ         TCGA-S7-A7WL 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-S7-A7WM         TCGA-S7-A7WN         TCGA-S7-A7WP 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-S7-A7WQ         TCGA-S7-A7WR         TCGA-S7-A7WU 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-S7-A7WV         TCGA-S7-A7WW         TCGA-S7-A7WX 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-S7-A7X0         TCGA-S7-A7X1         TCGA-S7-A7X2 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-SA-A6C2         TCGA-SP-A6QJ         TCGA-SR-A6MQ 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-SR-A6MX         TCGA-SR-A6MY         TCGA-SR-A6MZ 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-TT-A6YN         TCGA-W2-A7HC         TCGA-W2-A7HF 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-WB-A80Q         TCGA-WB-A814         TCGA-WB-A815 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-WB-A817         TCGA-WB-A818         TCGA-WB-A819 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-WB-A81G         TCGA-WB-A81M         TCGA-WB-A81P 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-WB-A81S         TCGA-WB-A81T         TCGA-WB-A81V 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-WB-A81W 
"14Q GAIN WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  14Q GAIN MUTATED        1      2      1      0
  14Q GAIN WILD-TYPE     31     63     43     21
D22V5, multiclass
        clus
vv       14Q GAIN MUTATED 14Q GAIN WILD-TYPE
  CLUS_1                1                 31
  CLUS_2                2                 63
  CLUS_3                1                 43
  CLUS_4                0                 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 CLUS_4
  14Q GAIN MUTATED        2      1      1      0
  14Q GAIN WILD-TYPE     32     63     42     21
D22V6, multiclass
        clus
vv       14Q GAIN MUTATED 14Q GAIN WILD-TYPE
  CLUS_1                2                 32
  CLUS_2                1                 63
  CLUS_3                1                 42
  CLUS_4                0                 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
  14Q GAIN MUTATED        3      1      0
  14Q GAIN WILD-TYPE     60     43     55
D22V7, multiclass
        clus
vv       14Q GAIN MUTATED 14Q GAIN WILD-TYPE
  CLUS_1                3                 60
  CLUS_2                1                 43
  CLUS_3                0                 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
  14Q GAIN MUTATED        3      1      0      0
  14Q GAIN WILD-TYPE     63     53     18     24
D22V8, multiclass
        clus
vv       14Q GAIN MUTATED 14Q GAIN WILD-TYPE
  CLUS_1                3                 63
  CLUS_2                1                 53
  CLUS_3                0                 18
  CLUS_4                0                 24
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  14Q GAIN MUTATED        1      1      0      2      0
  14Q GAIN WILD-TYPE     32     49     16     31     29
D22V9, multiclass
        clus
vv       14Q GAIN MUTATED 14Q GAIN WILD-TYPE
  CLUS_1                1                 32
  CLUS_2                1                 49
  CLUS_3                0                 16
  CLUS_4                2                 31
  CLUS_5                0                 29
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  14Q GAIN MUTATED        2      1      0      0      1      0      0
  14Q GAIN WILD-TYPE     16     40     27     15     22     18     19
D22V10, multiclass
        clus
vv       14Q GAIN MUTATED 14Q GAIN WILD-TYPE
  CLUS_1                2                 16
  CLUS_2                1                 40
  CLUS_3                0                 27
  CLUS_4                0                 15
  CLUS_5                1                 22
  CLUS_6                0                 18
  CLUS_7                0                 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"

Clustering(23) Variable = 15Q GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  15Q GAIN MUTATED        1      5      0      8      0
  15Q GAIN WILD-TYPE     36     35     10     42     25
D23V1, multiclass
        clus
vv       15Q GAIN MUTATED 15Q GAIN WILD-TYPE
  CLUS_1                1                 36
  CLUS_2                5                 35
  CLUS_3                0                 10
  CLUS_4                8                 42
  CLUS_5                0                 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
  15Q GAIN MUTATED        3      4      7
  15Q GAIN WILD-TYPE     37     73     38
D23V2, multiclass
        clus
vv       15Q GAIN MUTATED 15Q GAIN WILD-TYPE
  CLUS_1                3                 37
  CLUS_2                4                 73
  CLUS_3                7                 38
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  15Q GAIN MUTATED        0      1      1      2
  15Q GAIN WILD-TYPE     16     19     22     16
D23V3, multiclass
        clus
vv       15Q GAIN MUTATED 15Q GAIN WILD-TYPE
  CLUS_1                0                 16
  CLUS_2                1                 19
  CLUS_3                1                 22
  CLUS_4                2                 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 GAIN MUTATED        1      0      3
  15Q GAIN WILD-TYPE     30     18     25
D23V4, multiclass
        clus
vv       15Q GAIN MUTATED 15Q GAIN WILD-TYPE
  CLUS_1                1                 30
  CLUS_2                0                 18
  CLUS_3                3                 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
  15Q GAIN MUTATED        1      5      7      1
  15Q GAIN WILD-TYPE     31     60     37     20
D23V5, multiclass
        clus
vv       15Q GAIN MUTATED 15Q GAIN WILD-TYPE
  CLUS_1                1                 31
  CLUS_2                5                 60
  CLUS_3                7                 37
  CLUS_4                1                 20
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  15Q GAIN MUTATED        3      4      5      2
  15Q GAIN WILD-TYPE     31     60     38     19
D23V6, multiclass
        clus
vv       15Q GAIN MUTATED 15Q GAIN WILD-TYPE
  CLUS_1                3                 31
  CLUS_2                4                 60
  CLUS_3                5                 38
  CLUS_4                2                 19
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  15Q GAIN MUTATED        8      2      4
  15Q GAIN WILD-TYPE     55     42     51
D23V7, multiclass
        clus
vv       15Q GAIN MUTATED 15Q GAIN WILD-TYPE
  CLUS_1                8                 55
  CLUS_2                2                 42
  CLUS_3                4                 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
  15Q GAIN MUTATED        7      4      2      1
  15Q GAIN WILD-TYPE     59     50     16     23
D23V8, multiclass
        clus
vv       15Q GAIN MUTATED 15Q GAIN WILD-TYPE
  CLUS_1                7                 59
  CLUS_2                4                 50
  CLUS_3                2                 16
  CLUS_4                1                 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 CLUS_4 CLUS_5
  15Q GAIN MUTATED        4      4      0      5      1
  15Q GAIN WILD-TYPE     29     46     16     28     28
D23V9, multiclass
        clus
vv       15Q GAIN MUTATED 15Q GAIN WILD-TYPE
  CLUS_1                4                 29
  CLUS_2                4                 46
  CLUS_3                0                 16
  CLUS_4                5                 28
  CLUS_5                1                 28
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  15Q GAIN MUTATED        2      4      1      0      4      2      1
  15Q GAIN WILD-TYPE     16     37     26     15     19     16     18
D23V10, multiclass
        clus
vv       15Q GAIN MUTATED 15Q GAIN WILD-TYPE
  CLUS_1                2                 16
  CLUS_2                4                 37
  CLUS_3                1                 26
  CLUS_4                0                 15
  CLUS_5                4                 19
  CLUS_6                2                 16
  CLUS_7                1                 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"

Clustering(24) Variable = 16P GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  16P GAIN MUTATED        1      1      0      4      0
  16P GAIN WILD-TYPE     36     39     10     46     25
D24V1, multiclass
        clus
vv       16P GAIN MUTATED 16P GAIN WILD-TYPE
  CLUS_1                1                 36
  CLUS_2                1                 39
  CLUS_3                0                 10
  CLUS_4                4                 46
  CLUS_5                0                 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
  16P GAIN MUTATED        1      2      3
  16P GAIN WILD-TYPE     39     75     42
D24V2, multiclass
        clus
vv       16P GAIN MUTATED 16P GAIN WILD-TYPE
  CLUS_1                1                 39
  CLUS_2                2                 75
  CLUS_3                3                 42
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  16P GAIN MUTATED        1      0      0      1
  16P GAIN WILD-TYPE     15     20     23     17
D24V3, multiclass
[1] "Remove cluster labels:" "16P GAIN MUTATED"      
clus
  16P GAIN MUTATED 16P GAIN WILD-TYPE 
                 2                 75 
        TCGA-P8-A5KC         TCGA-P8-A5KD         TCGA-P8-A6RX 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-P8-A6RY         TCGA-PR-A5PF         TCGA-PR-A5PG 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-PR-A5PH         TCGA-QR-A6GO         TCGA-QR-A6GT 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-QR-A6GU         TCGA-QR-A6GZ         TCGA-QR-A6H2 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-QR-A70W         TCGA-QT-A5XJ         TCGA-QT-A5XK 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-QT-A5XL         TCGA-QT-A5XM         TCGA-QT-A5XN 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-QT-A5XO         TCGA-QT-A5XP         TCGA-QT-A69Q 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-QT-A7U0         TCGA-RM-A68T         TCGA-RM-A68W 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-RT-A6Y9         TCGA-RT-A6YA         TCGA-RT-A6YC 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-RW-A67V         TCGA-RW-A67X         TCGA-RW-A680 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-RW-A685         TCGA-RW-A688         TCGA-RW-A689 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-RW-A68A         TCGA-RW-A68B         TCGA-RW-A68C 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-RW-A68D         TCGA-RW-A68F         TCGA-RW-A68G 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-RW-A8AZ         TCGA-S7-A7WL         TCGA-S7-A7WM 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-S7-A7WN         TCGA-S7-A7WP         TCGA-S7-A7WQ 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-S7-A7WR         TCGA-S7-A7WU         TCGA-S7-A7WV 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-S7-A7WW         TCGA-S7-A7WX         TCGA-S7-A7X0 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-S7-A7X1         TCGA-S7-A7X2         TCGA-SA-A6C2 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-SP-A6QJ         TCGA-SR-A6MQ         TCGA-SR-A6MX 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-SR-A6MY         TCGA-SR-A6MZ         TCGA-TT-A6YN 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-W2-A7HC         TCGA-W2-A7HF         TCGA-WB-A80Q 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-WB-A814         TCGA-WB-A815         TCGA-WB-A817 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-WB-A818         TCGA-WB-A819         TCGA-WB-A81G 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-WB-A81M         TCGA-WB-A81P         TCGA-WB-A81S 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-WB-A81T         TCGA-WB-A81V         TCGA-WB-A81W 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  16P GAIN MUTATED        0      1      1
  16P GAIN WILD-TYPE     31     17     27
D24V4, multiclass
[1] "Remove cluster labels:" "16P GAIN MUTATED"      
clus
  16P GAIN MUTATED 16P GAIN WILD-TYPE 
                 2                 75 
        TCGA-P8-A5KC         TCGA-P8-A5KD         TCGA-P8-A6RX 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-P8-A6RY         TCGA-PR-A5PF         TCGA-PR-A5PG 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-PR-A5PH         TCGA-QR-A6GO         TCGA-QR-A6GT 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-QR-A6GU         TCGA-QR-A6GZ         TCGA-QR-A6H2 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-QR-A70W         TCGA-QT-A5XJ         TCGA-QT-A5XK 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-QT-A5XL         TCGA-QT-A5XM         TCGA-QT-A5XN 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-QT-A5XO         TCGA-QT-A5XP         TCGA-QT-A69Q 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-QT-A7U0         TCGA-RM-A68T         TCGA-RM-A68W 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-RT-A6Y9         TCGA-RT-A6YA         TCGA-RT-A6YC 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-RW-A67V         TCGA-RW-A67X         TCGA-RW-A680 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-RW-A685         TCGA-RW-A688         TCGA-RW-A689 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-RW-A68A         TCGA-RW-A68B         TCGA-RW-A68C 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-RW-A68D         TCGA-RW-A68F         TCGA-RW-A68G 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-RW-A8AZ         TCGA-S7-A7WL         TCGA-S7-A7WM 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-S7-A7WN         TCGA-S7-A7WP         TCGA-S7-A7WQ 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-S7-A7WR         TCGA-S7-A7WU         TCGA-S7-A7WV 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-S7-A7WW         TCGA-S7-A7WX         TCGA-S7-A7X0 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-S7-A7X1         TCGA-S7-A7X2         TCGA-SA-A6C2 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-SP-A6QJ         TCGA-SR-A6MQ         TCGA-SR-A6MX 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-SR-A6MY         TCGA-SR-A6MZ         TCGA-TT-A6YN 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-W2-A7HC         TCGA-W2-A7HF         TCGA-WB-A80Q 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-WB-A814         TCGA-WB-A815         TCGA-WB-A817 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-WB-A818         TCGA-WB-A819         TCGA-WB-A81G 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-WB-A81M         TCGA-WB-A81P         TCGA-WB-A81S 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-WB-A81T         TCGA-WB-A81V         TCGA-WB-A81W 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  16P GAIN MUTATED        1      4      1      0
  16P GAIN WILD-TYPE     31     61     43     21
D24V5, multiclass
        clus
vv       16P GAIN MUTATED 16P GAIN WILD-TYPE
  CLUS_1                1                 31
  CLUS_2                4                 61
  CLUS_3                1                 43
  CLUS_4                0                 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 CLUS_4
  16P GAIN MUTATED        2      3      1      0
  16P GAIN WILD-TYPE     32     61     42     21
D24V6, multiclass
        clus
vv       16P GAIN MUTATED 16P GAIN WILD-TYPE
  CLUS_1                2                 32
  CLUS_2                3                 61
  CLUS_3                1                 42
  CLUS_4                0                 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
  16P GAIN MUTATED        4      1      1
  16P GAIN WILD-TYPE     59     43     54
D24V7, multiclass
        clus
vv       16P GAIN MUTATED 16P GAIN WILD-TYPE
  CLUS_1                4                 59
  CLUS_2                1                 43
  CLUS_3                1                 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
  16P GAIN MUTATED        3      2      1      0
  16P GAIN WILD-TYPE     63     52     17     24
D24V8, multiclass
        clus
vv       16P GAIN MUTATED 16P GAIN WILD-TYPE
  CLUS_1                3                 63
  CLUS_2                2                 52
  CLUS_3                1                 17
  CLUS_4                0                 24
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  16P GAIN MUTATED        3      2      0      1      0
  16P GAIN WILD-TYPE     30     48     16     32     29
D24V9, multiclass
        clus
vv       16P GAIN MUTATED 16P GAIN WILD-TYPE
  CLUS_1                3                 30
  CLUS_2                2                 48
  CLUS_3                0                 16
  CLUS_4                1                 32
  CLUS_5                0                 29
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  16P GAIN MUTATED        2      2      0      0      1      1      0
  16P GAIN WILD-TYPE     16     39     27     15     22     17     19
D24V10, multiclass
        clus
vv       16P GAIN MUTATED 16P GAIN WILD-TYPE
  CLUS_1                2                 16
  CLUS_2                2                 39
  CLUS_3                0                 27
  CLUS_4                0                 15
  CLUS_5                1                 22
  CLUS_6                1                 17
  CLUS_7                0                 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"

Clustering(25) Variable = 16Q GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  16Q GAIN MUTATED        1      0      0      5      0
  16Q GAIN WILD-TYPE     36     40     10     45     25
D25V1, multiclass
        clus
vv       16Q GAIN MUTATED 16Q GAIN WILD-TYPE
  CLUS_1                1                 36
  CLUS_2                0                 40
  CLUS_3                0                 10
  CLUS_4                5                 45
  CLUS_5                0                 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
  16Q GAIN MUTATED        1      3      2
  16Q GAIN WILD-TYPE     39     74     43
D25V2, multiclass
        clus
vv       16Q GAIN MUTATED 16Q GAIN WILD-TYPE
  CLUS_1                1                 39
  CLUS_2                3                 74
  CLUS_3                2                 43
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  16Q GAIN MUTATED        1      0      0      1
  16Q GAIN WILD-TYPE     15     20     23     17
D25V3, multiclass
[1] "Remove cluster labels:" "16Q GAIN MUTATED"      
clus
  16Q GAIN MUTATED 16Q GAIN WILD-TYPE 
                 2                 75 
        TCGA-P8-A5KC         TCGA-P8-A5KD         TCGA-P8-A6RX 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-P8-A6RY         TCGA-PR-A5PF         TCGA-PR-A5PG 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-PR-A5PH         TCGA-QR-A6GO         TCGA-QR-A6GT 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-QR-A6GU         TCGA-QR-A6GZ         TCGA-QR-A6H2 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-QR-A70W         TCGA-QT-A5XJ         TCGA-QT-A5XK 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-QT-A5XL         TCGA-QT-A5XM         TCGA-QT-A5XN 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-QT-A5XO         TCGA-QT-A5XP         TCGA-QT-A69Q 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-QT-A7U0         TCGA-RM-A68T         TCGA-RM-A68W 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-RT-A6Y9         TCGA-RT-A6YA         TCGA-RT-A6YC 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-RW-A67V         TCGA-RW-A67X         TCGA-RW-A680 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-RW-A685         TCGA-RW-A688         TCGA-RW-A689 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-RW-A68A         TCGA-RW-A68B         TCGA-RW-A68C 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-RW-A68D         TCGA-RW-A68F         TCGA-RW-A68G 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-RW-A8AZ         TCGA-S7-A7WL         TCGA-S7-A7WM 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-S7-A7WN         TCGA-S7-A7WP         TCGA-S7-A7WQ 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-S7-A7WR         TCGA-S7-A7WU         TCGA-S7-A7WV 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-S7-A7WW         TCGA-S7-A7WX         TCGA-S7-A7X0 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-S7-A7X1         TCGA-S7-A7X2         TCGA-SA-A6C2 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-SP-A6QJ         TCGA-SR-A6MQ         TCGA-SR-A6MX 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-SR-A6MY         TCGA-SR-A6MZ         TCGA-TT-A6YN 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-W2-A7HC         TCGA-W2-A7HF         TCGA-WB-A80Q 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-WB-A814         TCGA-WB-A815         TCGA-WB-A817 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-WB-A818         TCGA-WB-A819         TCGA-WB-A81G 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-WB-A81M         TCGA-WB-A81P         TCGA-WB-A81S 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-WB-A81T         TCGA-WB-A81V         TCGA-WB-A81W 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  16Q GAIN MUTATED        0      1      1
  16Q GAIN WILD-TYPE     31     17     27
D25V4, multiclass
[1] "Remove cluster labels:" "16Q GAIN MUTATED"      
clus
  16Q GAIN MUTATED 16Q GAIN WILD-TYPE 
                 2                 75 
        TCGA-P8-A5KC         TCGA-P8-A5KD         TCGA-P8-A6RX 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-P8-A6RY         TCGA-PR-A5PF         TCGA-PR-A5PG 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-PR-A5PH         TCGA-QR-A6GO         TCGA-QR-A6GT 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-QR-A6GU         TCGA-QR-A6GZ         TCGA-QR-A6H2 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-QR-A70W         TCGA-QT-A5XJ         TCGA-QT-A5XK 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-QT-A5XL         TCGA-QT-A5XM         TCGA-QT-A5XN 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-QT-A5XO         TCGA-QT-A5XP         TCGA-QT-A69Q 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-QT-A7U0         TCGA-RM-A68T         TCGA-RM-A68W 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-RT-A6Y9         TCGA-RT-A6YA         TCGA-RT-A6YC 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-RW-A67V         TCGA-RW-A67X         TCGA-RW-A680 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-RW-A685         TCGA-RW-A688         TCGA-RW-A689 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-RW-A68A         TCGA-RW-A68B         TCGA-RW-A68C 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-RW-A68D         TCGA-RW-A68F         TCGA-RW-A68G 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-RW-A8AZ         TCGA-S7-A7WL         TCGA-S7-A7WM 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-S7-A7WN         TCGA-S7-A7WP         TCGA-S7-A7WQ 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-S7-A7WR         TCGA-S7-A7WU         TCGA-S7-A7WV 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-S7-A7WW         TCGA-S7-A7WX         TCGA-S7-A7X0 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-S7-A7X1         TCGA-S7-A7X2         TCGA-SA-A6C2 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-SP-A6QJ         TCGA-SR-A6MQ         TCGA-SR-A6MX 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-SR-A6MY         TCGA-SR-A6MZ         TCGA-TT-A6YN 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-W2-A7HC         TCGA-W2-A7HF         TCGA-WB-A80Q 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-WB-A814         TCGA-WB-A815         TCGA-WB-A817 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-WB-A818         TCGA-WB-A819         TCGA-WB-A81G 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-WB-A81M         TCGA-WB-A81P         TCGA-WB-A81S 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-WB-A81T         TCGA-WB-A81V         TCGA-WB-A81W 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  16Q GAIN MUTATED        1      5      0      0
  16Q GAIN WILD-TYPE     31     60     44     21
D25V5, multiclass
        clus
vv       16Q GAIN MUTATED 16Q GAIN WILD-TYPE
  CLUS_1                1                 31
  CLUS_2                5                 60
  CLUS_3                0                 44
  CLUS_4                0                 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 CLUS_4
  16Q GAIN MUTATED        1      4      1      0
  16Q GAIN WILD-TYPE     33     60     42     21
D25V6, multiclass
        clus
vv       16Q GAIN MUTATED 16Q GAIN WILD-TYPE
  CLUS_1                1                 33
  CLUS_2                4                 60
  CLUS_3                1                 42
  CLUS_4                0                 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
  16Q GAIN MUTATED        3      2      1
  16Q GAIN WILD-TYPE     60     42     54
D25V7, multiclass
        clus
vv       16Q GAIN MUTATED 16Q GAIN WILD-TYPE
  CLUS_1                3                 60
  CLUS_2                2                 42
  CLUS_3                1                 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
  16Q GAIN MUTATED        3      3      0      0
  16Q GAIN WILD-TYPE     63     51     18     24
D25V8, multiclass
        clus
vv       16Q GAIN MUTATED 16Q GAIN WILD-TYPE
  CLUS_1                3                 63
  CLUS_2                3                 51
  CLUS_3                0                 18
  CLUS_4                0                 24
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  16Q GAIN MUTATED        2      3      0      1      0
  16Q GAIN WILD-TYPE     31     47     16     32     29
D25V9, multiclass
        clus
vv       16Q GAIN MUTATED 16Q GAIN WILD-TYPE
  CLUS_1                2                 31
  CLUS_2                3                 47
  CLUS_3                0                 16
  CLUS_4                1                 32
  CLUS_5                0                 29
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  16Q GAIN MUTATED        2      3      0      0      1      0      0
  16Q GAIN WILD-TYPE     16     38     27     15     22     18     19
D25V10, multiclass
        clus
vv       16Q GAIN MUTATED 16Q GAIN WILD-TYPE
  CLUS_1                2                 16
  CLUS_2                3                 38
  CLUS_3                0                 27
  CLUS_4                0                 15
  CLUS_5                1                 22
  CLUS_6                0                 18
  CLUS_7                0                 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"

Clustering(26) Variable = 17Q GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  17Q GAIN MUTATED        3      1      0      2      0
  17Q GAIN WILD-TYPE     34     39     10     48     25
D26V1, multiclass
        clus
vv       17Q GAIN MUTATED 17Q GAIN WILD-TYPE
  CLUS_1                3                 34
  CLUS_2                1                 39
  CLUS_3                0                 10
  CLUS_4                2                 48
  CLUS_5                0                 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
  17Q GAIN MUTATED        3      3      0
  17Q GAIN WILD-TYPE     37     74     45
D26V2, multiclass
        clus
vv       17Q GAIN MUTATED 17Q GAIN WILD-TYPE
  CLUS_1                3                 37
  CLUS_2                3                 74
  CLUS_3                0                 45
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  17Q GAIN MUTATED        1      0      0      1
  17Q GAIN WILD-TYPE     15     20     23     17
D26V3, multiclass
[1] "Remove cluster labels:" "17Q GAIN MUTATED"      
clus
  17Q GAIN MUTATED 17Q GAIN WILD-TYPE 
                 2                 75 
        TCGA-P8-A5KC         TCGA-P8-A5KD         TCGA-P8-A6RX 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-P8-A6RY         TCGA-PR-A5PF         TCGA-PR-A5PG 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-PR-A5PH         TCGA-QR-A6GO         TCGA-QR-A6GT 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-QR-A6GU         TCGA-QR-A6GZ         TCGA-QR-A6H2 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-QR-A70W         TCGA-QT-A5XJ         TCGA-QT-A5XK 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-QT-A5XL         TCGA-QT-A5XM         TCGA-QT-A5XN 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-QT-A5XO         TCGA-QT-A5XP         TCGA-QT-A69Q 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-QT-A7U0         TCGA-RM-A68T         TCGA-RM-A68W 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-RT-A6Y9         TCGA-RT-A6YA         TCGA-RT-A6YC 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-RW-A67V         TCGA-RW-A67X         TCGA-RW-A680 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-RW-A685         TCGA-RW-A688         TCGA-RW-A689 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-RW-A68A         TCGA-RW-A68B         TCGA-RW-A68C 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-RW-A68D         TCGA-RW-A68F         TCGA-RW-A68G 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-RW-A8AZ         TCGA-RX-A8JQ         TCGA-S7-A7WL 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-S7-A7WM         TCGA-S7-A7WN         TCGA-S7-A7WP 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-S7-A7WQ         TCGA-S7-A7WR         TCGA-S7-A7WU 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-S7-A7WV         TCGA-S7-A7WW         TCGA-S7-A7WX 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-S7-A7X0         TCGA-S7-A7X1         TCGA-S7-A7X2 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-SA-A6C2         TCGA-SP-A6QJ         TCGA-SR-A6MQ 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-SR-A6MX         TCGA-SR-A6MY         TCGA-SR-A6MZ 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-TT-A6YN         TCGA-W2-A7HC         TCGA-W2-A7HF 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-WB-A80Q         TCGA-WB-A814         TCGA-WB-A815 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-WB-A817         TCGA-WB-A818         TCGA-WB-A819 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-WB-A81G         TCGA-WB-A81M         TCGA-WB-A81P 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-WB-A81S         TCGA-WB-A81T         TCGA-WB-A81V 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  17Q GAIN MUTATED        0      1      1
  17Q GAIN WILD-TYPE     31     17     27
D26V4, multiclass
[1] "Remove cluster labels:" "17Q GAIN MUTATED"      
clus
  17Q GAIN MUTATED 17Q GAIN WILD-TYPE 
                 2                 75 
        TCGA-P8-A5KC         TCGA-P8-A5KD         TCGA-P8-A6RX 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-P8-A6RY         TCGA-PR-A5PF         TCGA-PR-A5PG 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-PR-A5PH         TCGA-QR-A6GO         TCGA-QR-A6GT 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-QR-A6GU         TCGA-QR-A6GZ         TCGA-QR-A6H2 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-QR-A70W         TCGA-QT-A5XJ         TCGA-QT-A5XK 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-QT-A5XL         TCGA-QT-A5XM         TCGA-QT-A5XN 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-QT-A5XO         TCGA-QT-A5XP         TCGA-QT-A69Q 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-QT-A7U0         TCGA-RM-A68T         TCGA-RM-A68W 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-RT-A6Y9         TCGA-RT-A6YA         TCGA-RT-A6YC 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-RW-A67V         TCGA-RW-A67X         TCGA-RW-A680 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-RW-A685         TCGA-RW-A688         TCGA-RW-A689 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-RW-A68A         TCGA-RW-A68B         TCGA-RW-A68C 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-RW-A68D         TCGA-RW-A68F         TCGA-RW-A68G 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-RW-A8AZ         TCGA-RX-A8JQ         TCGA-S7-A7WL 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-S7-A7WM         TCGA-S7-A7WN         TCGA-S7-A7WP 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-S7-A7WQ         TCGA-S7-A7WR         TCGA-S7-A7WU 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-S7-A7WV         TCGA-S7-A7WW         TCGA-S7-A7WX 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-S7-A7X0         TCGA-S7-A7X1         TCGA-S7-A7X2 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-SA-A6C2         TCGA-SP-A6QJ         TCGA-SR-A6MQ 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-SR-A6MX         TCGA-SR-A6MY         TCGA-SR-A6MZ 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-TT-A6YN         TCGA-W2-A7HC         TCGA-W2-A7HF 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-WB-A80Q         TCGA-WB-A814         TCGA-WB-A815 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-WB-A817         TCGA-WB-A818         TCGA-WB-A819 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-WB-A81G         TCGA-WB-A81M         TCGA-WB-A81P 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-WB-A81S         TCGA-WB-A81T         TCGA-WB-A81V 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  17Q GAIN MUTATED        1      5      0      0
  17Q GAIN WILD-TYPE     31     60     44     21
D26V5, multiclass
        clus
vv       17Q GAIN MUTATED 17Q GAIN WILD-TYPE
  CLUS_1                1                 31
  CLUS_2                5                 60
  CLUS_3                0                 44
  CLUS_4                0                 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 CLUS_4
  17Q GAIN MUTATED        1      4      1      0
  17Q GAIN WILD-TYPE     33     60     42     21
D26V6, multiclass
        clus
vv       17Q GAIN MUTATED 17Q GAIN WILD-TYPE
  CLUS_1                1                 33
  CLUS_2                4                 60
  CLUS_3                1                 42
  CLUS_4                0                 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
  17Q GAIN MUTATED        3      0      3
  17Q GAIN WILD-TYPE     60     44     52
D26V7, multiclass
        clus
vv       17Q GAIN MUTATED 17Q GAIN WILD-TYPE
  CLUS_1                3                 60
  CLUS_2                0                 44
  CLUS_3                3                 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
  17Q GAIN MUTATED        3      3      0      0
  17Q GAIN WILD-TYPE     63     51     18     24
D26V8, multiclass
        clus
vv       17Q GAIN MUTATED 17Q GAIN WILD-TYPE
  CLUS_1                3                 63
  CLUS_2                3                 51
  CLUS_3                0                 18
  CLUS_4                0                 24
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  17Q GAIN MUTATED        1      4      0      0      1
  17Q GAIN WILD-TYPE     32     46     16     33     28
D26V9, multiclass
        clus
vv       17Q GAIN MUTATED 17Q GAIN WILD-TYPE
  CLUS_1                1                 32
  CLUS_2                4                 46
  CLUS_3                0                 16
  CLUS_4                0                 33
  CLUS_5                1                 28
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  17Q GAIN MUTATED        1      3      1      1      0      0      0
  17Q GAIN WILD-TYPE     17     38     26     14     23     18     19
D26V10, multiclass
        clus
vv       17Q GAIN MUTATED 17Q GAIN WILD-TYPE
  CLUS_1                1                 17
  CLUS_2                3                 38
  CLUS_3                1                 26
  CLUS_4                1                 14
  CLUS_5                0                 23
  CLUS_6                0                 18
  CLUS_7                0                 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"

Clustering(27) Variable = 18P GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  18P GAIN MUTATED        0      4      1      3      0
  18P GAIN WILD-TYPE     37     36      9     47     25
D27V1, multiclass
        clus
vv       18P GAIN MUTATED 18P GAIN WILD-TYPE
  CLUS_1                0                 37
  CLUS_2                4                 36
  CLUS_3                1                  9
  CLUS_4                3                 47
  CLUS_5                0                 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
  18P GAIN MUTATED        3      3      2
  18P GAIN WILD-TYPE     37     74     43
D27V2, multiclass
        clus
vv       18P GAIN MUTATED 18P GAIN WILD-TYPE
  CLUS_1                3                 37
  CLUS_2                3                 74
  CLUS_3                2                 43
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  18P GAIN MUTATED        2      0      1      1
  18P GAIN WILD-TYPE     14     20     22     17
D27V3, multiclass
        clus
vv       18P GAIN MUTATED 18P GAIN WILD-TYPE
  CLUS_1                2                 14
  CLUS_2                0                 20
  CLUS_3                1                 22
  CLUS_4                1                 17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  18P GAIN MUTATED        0      2      2
  18P GAIN WILD-TYPE     31     16     26
D27V4, multiclass
        clus
vv       18P GAIN MUTATED 18P GAIN WILD-TYPE
  CLUS_1                0                 31
  CLUS_2                2                 16
  CLUS_3                2                 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
  18P GAIN MUTATED        1      3      4      0
  18P GAIN WILD-TYPE     31     62     40     21
D27V5, multiclass
        clus
vv       18P GAIN MUTATED 18P GAIN WILD-TYPE
  CLUS_1                1                 31
  CLUS_2                3                 62
  CLUS_3                4                 40
  CLUS_4                0                 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 CLUS_4
  18P GAIN MUTATED        3      2      2      1
  18P GAIN WILD-TYPE     31     62     41     20
D27V6, multiclass
        clus
vv       18P GAIN MUTATED 18P GAIN WILD-TYPE
  CLUS_1                3                 31
  CLUS_2                2                 62
  CLUS_3                2                 41
  CLUS_4                1                 20
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  18P GAIN MUTATED        5      1      2
  18P GAIN WILD-TYPE     58     43     53
D27V7, multiclass
        clus
vv       18P GAIN MUTATED 18P GAIN WILD-TYPE
  CLUS_1                5                 58
  CLUS_2                1                 43
  CLUS_3                2                 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
  18P GAIN MUTATED        5      2      1      0
  18P GAIN WILD-TYPE     61     52     17     24
D27V8, multiclass
        clus
vv       18P GAIN MUTATED 18P GAIN WILD-TYPE
  CLUS_1                5                 61
  CLUS_2                2                 52
  CLUS_3                1                 17
  CLUS_4                0                 24
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  18P GAIN MUTATED        3      1      0      4      0
  18P GAIN WILD-TYPE     30     49     16     29     29
D27V9, multiclass
        clus
vv       18P GAIN MUTATED 18P GAIN WILD-TYPE
  CLUS_1                3                 30
  CLUS_2                1                 49
  CLUS_3                0                 16
  CLUS_4                4                 29
  CLUS_5                0                 29
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  18P GAIN MUTATED        2      2      1      0      2      1      0
  18P GAIN WILD-TYPE     16     39     26     15     21     17     19
D27V10, multiclass
        clus
vv       18P GAIN MUTATED 18P GAIN WILD-TYPE
  CLUS_1                2                 16
  CLUS_2                2                 39
  CLUS_3                1                 26
  CLUS_4                0                 15
  CLUS_5                2                 21
  CLUS_6                1                 17
  CLUS_7                0                 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"

Clustering(28) Variable = 18Q GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  18Q GAIN MUTATED        1      4      1      4      0
  18Q GAIN WILD-TYPE     36     36      9     46     25
D28V1, multiclass
        clus
vv       18Q GAIN MUTATED 18Q GAIN WILD-TYPE
  CLUS_1                1                 36
  CLUS_2                4                 36
  CLUS_3                1                  9
  CLUS_4                4                 46
  CLUS_5                0                 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
  18Q GAIN MUTATED        3      5      2
  18Q GAIN WILD-TYPE     37     72     43
D28V2, multiclass
        clus
vv       18Q GAIN MUTATED 18Q GAIN WILD-TYPE
  CLUS_1                3                 37
  CLUS_2                5                 72
  CLUS_3                2                 43
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  18Q GAIN MUTATED        2      0      2      1
  18Q GAIN WILD-TYPE     14     20     21     17
D28V3, multiclass
        clus
vv       18Q GAIN MUTATED 18Q GAIN WILD-TYPE
  CLUS_1                2                 14
  CLUS_2                0                 20
  CLUS_3                2                 21
  CLUS_4                1                 17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  18Q GAIN MUTATED        0      3      2
  18Q GAIN WILD-TYPE     31     15     26
D28V4, multiclass
        clus
vv       18Q GAIN MUTATED 18Q GAIN WILD-TYPE
  CLUS_1                0                 31
  CLUS_2                3                 15
  CLUS_3                2                 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
  18Q GAIN MUTATED        1      4      5      0
  18Q GAIN WILD-TYPE     31     61     39     21
D28V5, multiclass
        clus
vv       18Q GAIN MUTATED 18Q GAIN WILD-TYPE
  CLUS_1                1                 31
  CLUS_2                4                 61
  CLUS_3                5                 39
  CLUS_4                0                 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 CLUS_4
  18Q GAIN MUTATED        4      3      2      1
  18Q GAIN WILD-TYPE     30     61     41     20
D28V6, multiclass
        clus
vv       18Q GAIN MUTATED 18Q GAIN WILD-TYPE
  CLUS_1                4                 30
  CLUS_2                3                 61
  CLUS_3                2                 41
  CLUS_4                1                 20
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  18Q GAIN MUTATED        5      2      3
  18Q GAIN WILD-TYPE     58     42     52
D28V7, multiclass
        clus
vv       18Q GAIN MUTATED 18Q GAIN WILD-TYPE
  CLUS_1                5                 58
  CLUS_2                2                 42
  CLUS_3                3                 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
  18Q GAIN MUTATED        5      3      2      0
  18Q GAIN WILD-TYPE     61     51     16     24
D28V8, multiclass
        clus
vv       18Q GAIN MUTATED 18Q GAIN WILD-TYPE
  CLUS_1                5                 61
  CLUS_2                3                 51
  CLUS_3                2                 16
  CLUS_4                0                 24
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  18Q GAIN MUTATED        4      2      0      4      0
  18Q GAIN WILD-TYPE     29     48     16     29     29
D28V9, multiclass
        clus
vv       18Q GAIN MUTATED 18Q GAIN WILD-TYPE
  CLUS_1                4                 29
  CLUS_2                2                 48
  CLUS_3                0                 16
  CLUS_4                4                 29
  CLUS_5                0                 29
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  18Q GAIN MUTATED        2      2      1      1      2      2      0
  18Q GAIN WILD-TYPE     16     39     26     14     21     16     19
D28V10, multiclass
        clus
vv       18Q GAIN MUTATED 18Q GAIN WILD-TYPE
  CLUS_1                2                 16
  CLUS_2                2                 39
  CLUS_3                1                 26
  CLUS_4                1                 14
  CLUS_5                2                 21
  CLUS_6                2                 16
  CLUS_7                0                 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"

Clustering(29) Variable = 19P GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  19P GAIN MUTATED        3      6      0     10      1
  19P GAIN WILD-TYPE     34     34     10     40     24
D29V1, multiclass
        clus
vv       19P GAIN MUTATED 19P GAIN WILD-TYPE
  CLUS_1                3                 34
  CLUS_2                6                 34
  CLUS_3                0                 10
  CLUS_4               10                 40
  CLUS_5                1                 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
  19P GAIN MUTATED        5      6      9
  19P GAIN WILD-TYPE     35     71     36
D29V2, multiclass
        clus
vv       19P GAIN MUTATED 19P GAIN WILD-TYPE
  CLUS_1                5                 35
  CLUS_2                6                 71
  CLUS_3                9                 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
  19P GAIN MUTATED        2      1      2      2
  19P GAIN WILD-TYPE     14     19     21     16
D29V3, multiclass
        clus
vv       19P GAIN MUTATED 19P GAIN WILD-TYPE
  CLUS_1                2                 14
  CLUS_2                1                 19
  CLUS_3                2                 21
  CLUS_4                2                 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
  19P GAIN MUTATED        2      2      3
  19P GAIN WILD-TYPE     29     16     25
D29V4, multiclass
        clus
vv       19P GAIN MUTATED 19P GAIN WILD-TYPE
  CLUS_1                2                 29
  CLUS_2                2                 16
  CLUS_3                3                 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
  19P GAIN MUTATED        3      7      7      3
  19P GAIN WILD-TYPE     29     58     37     18
D29V5, multiclass
        clus
vv       19P GAIN MUTATED 19P GAIN WILD-TYPE
  CLUS_1                3                 29
  CLUS_2                7                 58
  CLUS_3                7                 37
  CLUS_4                3                 18
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  19P GAIN MUTATED        4      6      6      4
  19P GAIN WILD-TYPE     30     58     37     17
D29V6, multiclass
        clus
vv       19P GAIN MUTATED 19P GAIN WILD-TYPE
  CLUS_1                4                 30
  CLUS_2                6                 58
  CLUS_3                6                 37
  CLUS_4                4                 17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  19P GAIN MUTATED       10      6      4
  19P GAIN WILD-TYPE     53     38     51
D29V7, multiclass
        clus
vv       19P GAIN MUTATED 19P GAIN WILD-TYPE
  CLUS_1               10                 53
  CLUS_2                6                 38
  CLUS_3                4                 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
  19P GAIN MUTATED        8      6      3      3
  19P GAIN WILD-TYPE     58     48     15     21
D29V8, multiclass
        clus
vv       19P GAIN MUTATED 19P GAIN WILD-TYPE
  CLUS_1                8                 58
  CLUS_2                6                 48
  CLUS_3                3                 15
  CLUS_4                3                 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 CLUS_4 CLUS_5
  19P GAIN MUTATED        6      4      0      5      5
  19P GAIN WILD-TYPE     27     46     16     28     24
D29V9, multiclass
        clus
vv       19P GAIN MUTATED 19P GAIN WILD-TYPE
  CLUS_1                6                 27
  CLUS_2                4                 46
  CLUS_3                0                 16
  CLUS_4                5                 28
  CLUS_5                5                 24
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  19P GAIN MUTATED        3      6      1      0      4      3      3
  19P GAIN WILD-TYPE     15     35     26     15     19     15     16
D29V10, multiclass
        clus
vv       19P GAIN MUTATED 19P GAIN WILD-TYPE
  CLUS_1                3                 15
  CLUS_2                6                 35
  CLUS_3                1                 26
  CLUS_4                0                 15
  CLUS_5                4                 19
  CLUS_6                3                 15
  CLUS_7                3                 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"

Clustering(30) Variable = 19Q GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  19Q GAIN MUTATED        1      5      0      8      0
  19Q GAIN WILD-TYPE     36     35     10     42     25
D30V1, multiclass
        clus
vv       19Q GAIN MUTATED 19Q GAIN WILD-TYPE
  CLUS_1                1                 36
  CLUS_2                5                 35
  CLUS_3                0                 10
  CLUS_4                8                 42
  CLUS_5                0                 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
  19Q GAIN MUTATED        3      3      8
  19Q GAIN WILD-TYPE     37     74     37
D30V2, multiclass
        clus
vv       19Q GAIN MUTATED 19Q GAIN WILD-TYPE
  CLUS_1                3                 37
  CLUS_2                3                 74
  CLUS_3                8                 37
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  19Q GAIN MUTATED        2      0      0      2
  19Q GAIN WILD-TYPE     14     20     23     16
D30V3, multiclass
        clus
vv       19Q GAIN MUTATED 19Q GAIN WILD-TYPE
  CLUS_1                2                 14
  CLUS_2                0                 20
  CLUS_3                0                 23
  CLUS_4                2                 16
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  19Q GAIN MUTATED        1      2      1
  19Q GAIN WILD-TYPE     30     16     27
D30V4, multiclass
        clus
vv       19Q GAIN MUTATED 19Q GAIN WILD-TYPE
  CLUS_1                1                 30
  CLUS_2                2                 16
  CLUS_3                1                 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
  19Q GAIN MUTATED        2      4      5      3
  19Q GAIN WILD-TYPE     30     61     39     18
D30V5, multiclass
        clus
vv       19Q GAIN MUTATED 19Q GAIN WILD-TYPE
  CLUS_1                2                 30
  CLUS_2                4                 61
  CLUS_3                5                 39
  CLUS_4                3                 18
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  19Q GAIN MUTATED        3      3      4      4
  19Q GAIN WILD-TYPE     31     61     39     17
D30V6, multiclass
        clus
vv       19Q GAIN MUTATED 19Q GAIN WILD-TYPE
  CLUS_1                3                 31
  CLUS_2                3                 61
  CLUS_3                4                 39
  CLUS_4                4                 17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  19Q GAIN MUTATED        7      4      3
  19Q GAIN WILD-TYPE     56     40     52
D30V7, multiclass
        clus
vv       19Q GAIN MUTATED 19Q GAIN WILD-TYPE
  CLUS_1                7                 56
  CLUS_2                4                 40
  CLUS_3                3                 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
  19Q GAIN MUTATED        6      3      2      3
  19Q GAIN WILD-TYPE     60     51     16     21
D30V8, multiclass
        clus
vv       19Q GAIN MUTATED 19Q GAIN WILD-TYPE
  CLUS_1                6                 60
  CLUS_2                3                 51
  CLUS_3                2                 16
  CLUS_4                3                 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 CLUS_4 CLUS_5
  19Q GAIN MUTATED        4      3      0      4      3
  19Q GAIN WILD-TYPE     29     47     16     29     26
D30V9, multiclass
        clus
vv       19Q GAIN MUTATED 19Q GAIN WILD-TYPE
  CLUS_1                4                 29
  CLUS_2                3                 47
  CLUS_3                0                 16
  CLUS_4                4                 29
  CLUS_5                3                 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
  19Q GAIN MUTATED        3      3      0      0      3      2      3
  19Q GAIN WILD-TYPE     15     38     27     15     20     16     16
D30V10, multiclass
        clus
vv       19Q GAIN MUTATED 19Q GAIN WILD-TYPE
  CLUS_1                3                 15
  CLUS_2                3                 38
  CLUS_3                0                 27
  CLUS_4                0                 15
  CLUS_5                3                 20
  CLUS_6                2                 16
  CLUS_7                3                 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"

Clustering(31) Variable = 20P GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  20P GAIN MUTATED        1      5      0      5      1
  20P GAIN WILD-TYPE     36     35     10     45     24
D31V1, multiclass
        clus
vv       20P GAIN MUTATED 20P GAIN WILD-TYPE
  CLUS_1                1                 36
  CLUS_2                5                 35
  CLUS_3                0                 10
  CLUS_4                5                 45
  CLUS_5                1                 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        4      5      3
  20P GAIN WILD-TYPE     36     72     42
D31V2, multiclass
        clus
vv       20P GAIN MUTATED 20P GAIN WILD-TYPE
  CLUS_1                4                 36
  CLUS_2                5                 72
  CLUS_3                3                 42
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  20P GAIN MUTATED        2      1      0      2
  20P GAIN WILD-TYPE     14     19     23     16
D31V3, multiclass
        clus
vv       20P GAIN MUTATED 20P GAIN WILD-TYPE
  CLUS_1                2                 14
  CLUS_2                1                 19
  CLUS_3                0                 23
  CLUS_4                2                 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
  20P GAIN MUTATED        2      2      1
  20P GAIN WILD-TYPE     29     16     27
D31V4, multiclass
        clus
vv       20P GAIN MUTATED 20P GAIN WILD-TYPE
  CLUS_1                2                 29
  CLUS_2                2                 16
  CLUS_3                1                 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
  20P GAIN MUTATED        2      4      6      0
  20P GAIN WILD-TYPE     30     61     38     21
D31V5, multiclass
        clus
vv       20P GAIN MUTATED 20P GAIN WILD-TYPE
  CLUS_1                2                 30
  CLUS_2                4                 61
  CLUS_3                6                 38
  CLUS_4                0                 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 CLUS_4
  20P GAIN MUTATED        5      3      3      1
  20P GAIN WILD-TYPE     29     61     40     20
D31V6, multiclass
        clus
vv       20P GAIN MUTATED 20P GAIN WILD-TYPE
  CLUS_1                5                 29
  CLUS_2                3                 61
  CLUS_3                3                 40
  CLUS_4                1                 20
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  20P GAIN MUTATED        8      1      3
  20P GAIN WILD-TYPE     55     43     52
D31V7, multiclass
        clus
vv       20P GAIN MUTATED 20P GAIN WILD-TYPE
  CLUS_1                8                 55
  CLUS_2                1                 43
  CLUS_3                3                 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
  20P GAIN MUTATED        7      2      2      1
  20P GAIN WILD-TYPE     59     52     16     23
D31V8, multiclass
        clus
vv       20P GAIN MUTATED 20P GAIN WILD-TYPE
  CLUS_1                7                 59
  CLUS_2                2                 52
  CLUS_3                2                 16
  CLUS_4                1                 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 CLUS_4 CLUS_5
  20P GAIN MUTATED        3      3      1      4      1
  20P GAIN WILD-TYPE     30     47     15     29     28
D31V9, multiclass
        clus
vv       20P GAIN MUTATED 20P GAIN WILD-TYPE
  CLUS_1                3                 30
  CLUS_2                3                 47
  CLUS_3                1                 15
  CLUS_4                4                 29
  CLUS_5                1                 28
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  20P GAIN MUTATED        2      3      3      0      2      2      0
  20P GAIN WILD-TYPE     16     38     24     15     21     16     19
D31V10, multiclass
        clus
vv       20P GAIN MUTATED 20P GAIN WILD-TYPE
  CLUS_1                2                 16
  CLUS_2                3                 38
  CLUS_3                3                 24
  CLUS_4                0                 15
  CLUS_5                2                 21
  CLUS_6                2                 16
  CLUS_7                0                 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"

Clustering(32) Variable = 20Q GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  20Q GAIN MUTATED        1      4      0      4      1
  20Q GAIN WILD-TYPE     36     36     10     46     24
D32V1, multiclass
        clus
vv       20Q GAIN MUTATED 20Q GAIN WILD-TYPE
  CLUS_1                1                 36
  CLUS_2                4                 36
  CLUS_3                0                 10
  CLUS_4                4                 46
  CLUS_5                1                 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
  20Q GAIN MUTATED        3      3      4
  20Q GAIN WILD-TYPE     37     74     41
D32V2, multiclass
        clus
vv       20Q GAIN MUTATED 20Q GAIN WILD-TYPE
  CLUS_1                3                 37
  CLUS_2                3                 74
  CLUS_3                4                 41
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  20Q GAIN MUTATED        1      0      0      2
  20Q GAIN WILD-TYPE     15     20     23     16
D32V3, multiclass
        clus
vv       20Q GAIN MUTATED 20Q GAIN WILD-TYPE
  CLUS_1                1                 15
  CLUS_2                0                 20
  CLUS_3                0                 23
  CLUS_4                2                 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
  20Q GAIN MUTATED        1      1      1
  20Q GAIN WILD-TYPE     30     17     27
D32V4, multiclass
        clus
vv       20Q GAIN MUTATED 20Q GAIN WILD-TYPE
  CLUS_1                1                 30
  CLUS_2                1                 17
  CLUS_3                1                 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
  20Q GAIN MUTATED        2      2      6      0
  20Q GAIN WILD-TYPE     30     63     38     21
D32V5, multiclass
        clus
vv       20Q GAIN MUTATED 20Q GAIN WILD-TYPE
  CLUS_1                2                 30
  CLUS_2                2                 63
  CLUS_3                6                 38
  CLUS_4                0                 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 CLUS_4
  20Q GAIN MUTATED        5      1      3      1
  20Q GAIN WILD-TYPE     29     63     40     20
D32V6, multiclass
        clus
vv       20Q GAIN MUTATED 20Q GAIN WILD-TYPE
  CLUS_1                5                 29
  CLUS_2                1                 63
  CLUS_3                3                 40
  CLUS_4                1                 20
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  20Q GAIN MUTATED        8      1      1
  20Q GAIN WILD-TYPE     55     43     54
D32V7, multiclass
        clus
vv       20Q GAIN MUTATED 20Q GAIN WILD-TYPE
  CLUS_1                8                 55
  CLUS_2                1                 43
  CLUS_3                1                 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
  20Q GAIN MUTATED        7      1      2      0
  20Q GAIN WILD-TYPE     59     53     16     24
D32V8, multiclass
        clus
vv       20Q GAIN MUTATED 20Q GAIN WILD-TYPE
  CLUS_1                7                 59
  CLUS_2                1                 53
  CLUS_3                2                 16
  CLUS_4                0                 24
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  20Q GAIN MUTATED        4      1      1      4      0
  20Q GAIN WILD-TYPE     29     49     15     29     29
D32V9, multiclass
        clus
vv       20Q GAIN MUTATED 20Q GAIN WILD-TYPE
  CLUS_1                4                 29
  CLUS_2                1                 49
  CLUS_3                1                 15
  CLUS_4                4                 29
  CLUS_5                0                 29
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  20Q GAIN MUTATED        3      1      2      0      2      2      0
  20Q GAIN WILD-TYPE     15     40     25     15     21     16     19
D32V10, multiclass
        clus
vv       20Q GAIN MUTATED 20Q GAIN WILD-TYPE
  CLUS_1                3                 15
  CLUS_2                1                 40
  CLUS_3                2                 25
  CLUS_4                0                 15
  CLUS_5                2                 21
  CLUS_6                2                 16
  CLUS_7                0                 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"

Clustering(33) Variable = 21Q GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  21Q GAIN MUTATED        0      1      0      2      0
  21Q GAIN WILD-TYPE     37     39     10     48     25
D33V1, multiclass
        clus
vv       21Q GAIN MUTATED 21Q GAIN WILD-TYPE
  CLUS_1                0                 37
  CLUS_2                1                 39
  CLUS_3                0                 10
  CLUS_4                2                 48
  CLUS_5                0                 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
  21Q GAIN MUTATED        1      0      2
  21Q GAIN WILD-TYPE     39     77     43
D33V2, multiclass
        clus
vv       21Q GAIN MUTATED 21Q GAIN WILD-TYPE
  CLUS_1                1                 39
  CLUS_2                0                 77
  CLUS_3                2                 43
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  21Q GAIN MUTATED        1      1      0      0
  21Q GAIN WILD-TYPE     15     19     23     18
D33V3, multiclass
[1] "Remove cluster labels:" "21Q GAIN MUTATED"      
clus
  21Q GAIN MUTATED 21Q GAIN WILD-TYPE 
                 2                 75 
        TCGA-P8-A5KC         TCGA-P8-A5KD         TCGA-P8-A6RX 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-P8-A6RY         TCGA-PR-A5PF         TCGA-PR-A5PG 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-PR-A5PH         TCGA-QR-A6GO         TCGA-QR-A6GT 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-QR-A6GU         TCGA-QR-A6H2         TCGA-QR-A70W 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-QT-A5XJ         TCGA-QT-A5XK         TCGA-QT-A5XL 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-QT-A5XM         TCGA-QT-A5XN         TCGA-QT-A5XO 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-QT-A5XP         TCGA-QT-A69Q         TCGA-QT-A7U0 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-RM-A68T         TCGA-RM-A68W         TCGA-RT-A6Y9 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-RT-A6YA         TCGA-RT-A6YC         TCGA-RW-A67V 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-RW-A67X         TCGA-RW-A680         TCGA-RW-A681 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-RW-A685         TCGA-RW-A688         TCGA-RW-A689 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-RW-A68A         TCGA-RW-A68B         TCGA-RW-A68C 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-RW-A68D         TCGA-RW-A68F         TCGA-RW-A68G 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-RW-A8AZ         TCGA-RX-A8JQ         TCGA-S7-A7WL 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-S7-A7WM         TCGA-S7-A7WN         TCGA-S7-A7WP 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-S7-A7WQ         TCGA-S7-A7WR         TCGA-S7-A7WU 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-S7-A7WV         TCGA-S7-A7WW         TCGA-S7-A7WX 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-S7-A7X0         TCGA-S7-A7X2         TCGA-SA-A6C2 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-SP-A6QJ         TCGA-SR-A6MQ         TCGA-SR-A6MX 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-SR-A6MY         TCGA-SR-A6MZ         TCGA-TT-A6YN 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-W2-A7HC         TCGA-W2-A7HF         TCGA-WB-A80Q 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-WB-A814         TCGA-WB-A815         TCGA-WB-A817 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-WB-A818         TCGA-WB-A819         TCGA-WB-A81G 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-WB-A81M         TCGA-WB-A81P         TCGA-WB-A81S 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-WB-A81T         TCGA-WB-A81V         TCGA-WB-A81W 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  21Q GAIN MUTATED        0      1      1
  21Q GAIN WILD-TYPE     31     17     27
D33V4, multiclass
[1] "Remove cluster labels:" "21Q GAIN MUTATED"      
clus
  21Q GAIN MUTATED 21Q GAIN WILD-TYPE 
                 2                 75 
        TCGA-P8-A5KC         TCGA-P8-A5KD         TCGA-P8-A6RX 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-P8-A6RY         TCGA-PR-A5PF         TCGA-PR-A5PG 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-PR-A5PH         TCGA-QR-A6GO         TCGA-QR-A6GT 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-QR-A6GU         TCGA-QR-A6H2         TCGA-QR-A70W 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-QT-A5XJ         TCGA-QT-A5XK         TCGA-QT-A5XL 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-QT-A5XM         TCGA-QT-A5XN         TCGA-QT-A5XO 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-QT-A5XP         TCGA-QT-A69Q         TCGA-QT-A7U0 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-RM-A68T         TCGA-RM-A68W         TCGA-RT-A6Y9 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-RT-A6YA         TCGA-RT-A6YC         TCGA-RW-A67V 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-RW-A67X         TCGA-RW-A680         TCGA-RW-A681 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-RW-A685         TCGA-RW-A688         TCGA-RW-A689 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-RW-A68A         TCGA-RW-A68B         TCGA-RW-A68C 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-RW-A68D         TCGA-RW-A68F         TCGA-RW-A68G 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-RW-A8AZ         TCGA-RX-A8JQ         TCGA-S7-A7WL 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-S7-A7WM         TCGA-S7-A7WN         TCGA-S7-A7WP 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-S7-A7WQ         TCGA-S7-A7WR         TCGA-S7-A7WU 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-S7-A7WV         TCGA-S7-A7WW         TCGA-S7-A7WX 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-S7-A7X0         TCGA-S7-A7X2         TCGA-SA-A6C2 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-SP-A6QJ         TCGA-SR-A6MQ         TCGA-SR-A6MX 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-SR-A6MY         TCGA-SR-A6MZ         TCGA-TT-A6YN 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-W2-A7HC         TCGA-W2-A7HF         TCGA-WB-A80Q 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-WB-A814         TCGA-WB-A815         TCGA-WB-A817 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-WB-A818         TCGA-WB-A819         TCGA-WB-A81G 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-WB-A81M         TCGA-WB-A81P         TCGA-WB-A81S 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-WB-A81T         TCGA-WB-A81V         TCGA-WB-A81W 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  21Q GAIN MUTATED        1      0      2      0
  21Q GAIN WILD-TYPE     31     65     42     21
D33V5, multiclass
        clus
vv       21Q GAIN MUTATED 21Q GAIN WILD-TYPE
  CLUS_1                1                 31
  CLUS_2                0                 65
  CLUS_3                2                 42
  CLUS_4                0                 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 CLUS_4
  21Q GAIN MUTATED        0      0      3      0
  21Q GAIN WILD-TYPE     34     64     40     21
D33V6, multiclass
        clus
vv       21Q GAIN MUTATED 21Q GAIN WILD-TYPE
  CLUS_1                0                 34
  CLUS_2                0                 64
  CLUS_3                3                 40
  CLUS_4                0                 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
  21Q GAIN MUTATED        3      0      0
  21Q GAIN WILD-TYPE     60     44     55
D33V7, multiclass
        clus
vv       21Q GAIN MUTATED 21Q GAIN WILD-TYPE
  CLUS_1                3                 60
  CLUS_2                0                 44
  CLUS_3                0                 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
  21Q GAIN MUTATED        3      0      0      0
  21Q GAIN WILD-TYPE     63     54     18     24
D33V8, multiclass
        clus
vv       21Q GAIN MUTATED 21Q GAIN WILD-TYPE
  CLUS_1                3                 63
  CLUS_2                0                 54
  CLUS_3                0                 18
  CLUS_4                0                 24
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  21Q GAIN MUTATED        1      0      0      2      0
  21Q GAIN WILD-TYPE     32     50     16     31     29
D33V9, multiclass
        clus
vv       21Q GAIN MUTATED 21Q GAIN WILD-TYPE
  CLUS_1                1                 32
  CLUS_2                0                 50
  CLUS_3                0                 16
  CLUS_4                2                 31
  CLUS_5                0                 29
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  21Q GAIN MUTATED        1      0      0      0      2      0      0
  21Q GAIN WILD-TYPE     17     41     27     15     21     18     19
D33V10, multiclass
        clus
vv       21Q GAIN MUTATED 21Q GAIN WILD-TYPE
  CLUS_1                1                 17
  CLUS_2                0                 41
  CLUS_3                0                 27
  CLUS_4                0                 15
  CLUS_5                2                 21
  CLUS_6                0                 18
  CLUS_7                0                 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"

Clustering(34) Variable = 22Q GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  22Q GAIN MUTATED        0      2      0      1      0
  22Q GAIN WILD-TYPE     37     38     10     49     25
D34V1, multiclass
        clus
vv       22Q GAIN MUTATED 22Q GAIN WILD-TYPE
  CLUS_1                0                 37
  CLUS_2                2                 38
  CLUS_3                0                 10
  CLUS_4                1                 49
  CLUS_5                0                 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
  22Q GAIN MUTATED        1      0      2
  22Q GAIN WILD-TYPE     39     77     43
D34V2, multiclass
        clus
vv       22Q GAIN MUTATED 22Q GAIN WILD-TYPE
  CLUS_1                1                 39
  CLUS_2                0                 77
  CLUS_3                2                 43
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  22Q GAIN MUTATED        0      0      0      0
  22Q GAIN WILD-TYPE     16     20     23     18
D34V3, multiclass
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  22Q GAIN MUTATED        0      0      0
  22Q GAIN WILD-TYPE     31     18     28
D34V4, multiclass
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  22Q GAIN MUTATED        1      0      2      0
  22Q GAIN WILD-TYPE     31     65     42     21
D34V5, multiclass
        clus
vv       22Q GAIN MUTATED 22Q GAIN WILD-TYPE
  CLUS_1                1                 31
  CLUS_2                0                 65
  CLUS_3                2                 42
  CLUS_4                0                 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 CLUS_4
  22Q GAIN MUTATED        2      0      1      0
  22Q GAIN WILD-TYPE     32     64     42     21
D34V6, multiclass
        clus
vv       22Q GAIN MUTATED 22Q GAIN WILD-TYPE
  CLUS_1                2                 32
  CLUS_2                0                 64
  CLUS_3                1                 42
  CLUS_4                0                 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
  22Q GAIN MUTATED        3      0      0
  22Q GAIN WILD-TYPE     60     44     55
D34V7, multiclass
        clus
vv       22Q GAIN MUTATED 22Q GAIN WILD-TYPE
  CLUS_1                3                 60
  CLUS_2                0                 44
  CLUS_3                0                 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
  22Q GAIN MUTATED        3      0      0      0
  22Q GAIN WILD-TYPE     63     54     18     24
D34V8, multiclass
        clus
vv       22Q GAIN MUTATED 22Q GAIN WILD-TYPE
  CLUS_1                3                 63
  CLUS_2                0                 54
  CLUS_3                0                 18
  CLUS_4                0                 24
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  22Q GAIN MUTATED        0      0      0      3      0
  22Q GAIN WILD-TYPE     33     50     16     30     29
D34V9, multiclass
        clus
vv       22Q GAIN MUTATED 22Q GAIN WILD-TYPE
  CLUS_1                0                 33
  CLUS_2                0                 50
  CLUS_3                0                 16
  CLUS_4                3                 30
  CLUS_5                0                 29
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  22Q GAIN MUTATED        1      0      1      0      1      0      0
  22Q GAIN WILD-TYPE     17     41     26     15     22     18     19
D34V10, multiclass
        clus
vv       22Q GAIN MUTATED 22Q GAIN WILD-TYPE
  CLUS_1                1                 17
  CLUS_2                0                 41
  CLUS_3                1                 26
  CLUS_4                0                 15
  CLUS_5                1                 22
  CLUS_6                0                 18
  CLUS_7                0                 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"

Clustering(35) Variable = XP GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  XP GAIN MUTATED        0      1      1      4      0
  XP GAIN WILD-TYPE     37     39      9     46     25
D35V1, multiclass
        clus
vv       XP GAIN MUTATED XP GAIN WILD-TYPE
  CLUS_1               0                37
  CLUS_2               1                39
  CLUS_3               1                 9
  CLUS_4               4                46
  CLUS_5               0                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
  XP GAIN MUTATED        1      1      4
  XP GAIN WILD-TYPE     39     76     41
D35V2, multiclass
        clus
vv       XP GAIN MUTATED XP GAIN WILD-TYPE
  CLUS_1               1                39
  CLUS_2               1                76
  CLUS_3               4                41
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  XP GAIN MUTATED        0      0      0      1
  XP GAIN WILD-TYPE     16     20     23     17
D35V3, multiclass
[1] "Remove cluster labels:" "XP GAIN MUTATED"       
clus
  XP GAIN MUTATED XP GAIN WILD-TYPE 
                1                76 
       TCGA-P8-A5KC        TCGA-P8-A5KD        TCGA-P8-A6RX        TCGA-P8-A6RY 
"XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" 
       TCGA-PR-A5PF        TCGA-PR-A5PG        TCGA-PR-A5PH        TCGA-QR-A6GO 
"XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" 
       TCGA-QR-A6GT        TCGA-QR-A6GU        TCGA-QR-A6GZ        TCGA-QR-A6H2 
"XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" 
       TCGA-QR-A70W        TCGA-QT-A5XJ        TCGA-QT-A5XK        TCGA-QT-A5XL 
"XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" 
       TCGA-QT-A5XM        TCGA-QT-A5XN        TCGA-QT-A5XO        TCGA-QT-A5XP 
"XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" 
       TCGA-QT-A69Q        TCGA-QT-A7U0        TCGA-RM-A68T        TCGA-RM-A68W 
"XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" 
       TCGA-RT-A6Y9        TCGA-RT-A6YA        TCGA-RT-A6YC        TCGA-RW-A67V 
"XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" 
       TCGA-RW-A67X        TCGA-RW-A680        TCGA-RW-A685        TCGA-RW-A688 
"XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" 
       TCGA-RW-A689        TCGA-RW-A68A        TCGA-RW-A68B        TCGA-RW-A68C 
"XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" 
       TCGA-RW-A68D        TCGA-RW-A68F        TCGA-RW-A68G        TCGA-RW-A8AZ 
"XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" 
       TCGA-RX-A8JQ        TCGA-S7-A7WL        TCGA-S7-A7WM        TCGA-S7-A7WN 
"XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" 
       TCGA-S7-A7WP        TCGA-S7-A7WQ        TCGA-S7-A7WR        TCGA-S7-A7WU 
"XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" 
       TCGA-S7-A7WV        TCGA-S7-A7WW        TCGA-S7-A7WX        TCGA-S7-A7X0 
"XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" 
       TCGA-S7-A7X1        TCGA-S7-A7X2        TCGA-SA-A6C2        TCGA-SP-A6QJ 
"XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" 
       TCGA-SR-A6MQ        TCGA-SR-A6MX        TCGA-SR-A6MY        TCGA-SR-A6MZ 
"XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" 
       TCGA-TT-A6YN        TCGA-W2-A7HC        TCGA-W2-A7HF        TCGA-WB-A80Q 
"XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" 
       TCGA-WB-A814        TCGA-WB-A815        TCGA-WB-A817        TCGA-WB-A818 
"XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" 
       TCGA-WB-A819        TCGA-WB-A81G        TCGA-WB-A81M        TCGA-WB-A81P 
"XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" 
       TCGA-WB-A81S        TCGA-WB-A81T        TCGA-WB-A81V        TCGA-WB-A81W 
"XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  XP GAIN MUTATED        0      0      1
  XP GAIN WILD-TYPE     31     18     27
D35V4, multiclass
[1] "Remove cluster labels:" "XP GAIN MUTATED"       
clus
  XP GAIN MUTATED XP GAIN WILD-TYPE 
                1                76 
       TCGA-P8-A5KC        TCGA-P8-A5KD        TCGA-P8-A6RX        TCGA-P8-A6RY 
"XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" 
       TCGA-PR-A5PF        TCGA-PR-A5PG        TCGA-PR-A5PH        TCGA-QR-A6GO 
"XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" 
       TCGA-QR-A6GT        TCGA-QR-A6GU        TCGA-QR-A6GZ        TCGA-QR-A6H2 
"XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" 
       TCGA-QR-A70W        TCGA-QT-A5XJ        TCGA-QT-A5XK        TCGA-QT-A5XL 
"XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" 
       TCGA-QT-A5XM        TCGA-QT-A5XN        TCGA-QT-A5XO        TCGA-QT-A5XP 
"XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" 
       TCGA-QT-A69Q        TCGA-QT-A7U0        TCGA-RM-A68T        TCGA-RM-A68W 
"XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" 
       TCGA-RT-A6Y9        TCGA-RT-A6YA        TCGA-RT-A6YC        TCGA-RW-A67V 
"XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" 
       TCGA-RW-A67X        TCGA-RW-A680        TCGA-RW-A685        TCGA-RW-A688 
"XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" 
       TCGA-RW-A689        TCGA-RW-A68A        TCGA-RW-A68B        TCGA-RW-A68C 
"XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" 
       TCGA-RW-A68D        TCGA-RW-A68F        TCGA-RW-A68G        TCGA-RW-A8AZ 
"XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" 
       TCGA-RX-A8JQ        TCGA-S7-A7WL        TCGA-S7-A7WM        TCGA-S7-A7WN 
"XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" 
       TCGA-S7-A7WP        TCGA-S7-A7WQ        TCGA-S7-A7WR        TCGA-S7-A7WU 
"XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" 
       TCGA-S7-A7WV        TCGA-S7-A7WW        TCGA-S7-A7WX        TCGA-S7-A7X0 
"XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" 
       TCGA-S7-A7X1        TCGA-S7-A7X2        TCGA-SA-A6C2        TCGA-SP-A6QJ 
"XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" 
       TCGA-SR-A6MQ        TCGA-SR-A6MX        TCGA-SR-A6MY        TCGA-SR-A6MZ 
"XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" 
       TCGA-TT-A6YN        TCGA-W2-A7HC        TCGA-W2-A7HF        TCGA-WB-A80Q 
"XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" 
       TCGA-WB-A814        TCGA-WB-A815        TCGA-WB-A817        TCGA-WB-A818 
"XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" 
       TCGA-WB-A819        TCGA-WB-A81G        TCGA-WB-A81M        TCGA-WB-A81P 
"XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" 
       TCGA-WB-A81S        TCGA-WB-A81T        TCGA-WB-A81V        TCGA-WB-A81W 
"XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  XP GAIN MUTATED        2      1      3      0
  XP GAIN WILD-TYPE     30     64     41     21
D35V5, multiclass
        clus
vv       XP GAIN MUTATED XP GAIN WILD-TYPE
  CLUS_1               2                30
  CLUS_2               1                64
  CLUS_3               3                41
  CLUS_4               0                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 CLUS_4
  XP GAIN MUTATED        4      0      1      1
  XP GAIN WILD-TYPE     30     64     42     20
D35V6, multiclass
        clus
vv       XP GAIN MUTATED XP GAIN WILD-TYPE
  CLUS_1               4                30
  CLUS_2               0                64
  CLUS_3               1                42
  CLUS_4               1                20
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  XP GAIN MUTATED        4      2      0
  XP GAIN WILD-TYPE     59     42     55
D35V7, multiclass
        clus
vv       XP GAIN MUTATED XP GAIN WILD-TYPE
  CLUS_1               4                59
  CLUS_2               2                42
  CLUS_3               0                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
  XP GAIN MUTATED        4      0      2      0
  XP GAIN WILD-TYPE     62     54     16     24
D35V8, multiclass
        clus
vv       XP GAIN MUTATED XP GAIN WILD-TYPE
  CLUS_1               4                62
  CLUS_2               0                54
  CLUS_3               2                16
  CLUS_4               0                24
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  XP GAIN MUTATED        4      0      1      1      0
  XP GAIN WILD-TYPE     29     50     15     32     29
D35V9, multiclass
        clus
vv       XP GAIN MUTATED XP GAIN WILD-TYPE
  CLUS_1               4                29
  CLUS_2               0                50
  CLUS_3               1                15
  CLUS_4               1                32
  CLUS_5               0                29
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  XP GAIN MUTATED        3      0      1      0      0      2      0
  XP GAIN WILD-TYPE     15     41     26     15     23     16     19
D35V10, multiclass
        clus
vv       XP GAIN MUTATED XP GAIN WILD-TYPE
  CLUS_1               3                15
  CLUS_2               0                41
  CLUS_3               1                26
  CLUS_4               0                15
  CLUS_5               0                23
  CLUS_6               2                16
  CLUS_7               0                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"

Clustering(36) Variable = XQ GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  XQ GAIN MUTATED        0      1      0      4      0
  XQ GAIN WILD-TYPE     37     39     10     46     25
D36V1, multiclass
        clus
vv       XQ GAIN MUTATED XQ GAIN WILD-TYPE
  CLUS_1               0                37
  CLUS_2               1                39
  CLUS_3               0                10
  CLUS_4               4                46
  CLUS_5               0                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
  XQ GAIN MUTATED        1      1      3
  XQ GAIN WILD-TYPE     39     76     42
D36V2, multiclass
        clus
vv       XQ GAIN MUTATED XQ GAIN WILD-TYPE
  CLUS_1               1                39
  CLUS_2               1                76
  CLUS_3               3                42
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  XQ GAIN MUTATED        0      0      0      1
  XQ GAIN WILD-TYPE     16     20     23     17
D36V3, multiclass
[1] "Remove cluster labels:" "XQ GAIN MUTATED"       
clus
  XQ GAIN MUTATED XQ GAIN WILD-TYPE 
                1                76 
       TCGA-P8-A5KC        TCGA-P8-A5KD        TCGA-P8-A6RX        TCGA-P8-A6RY 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-PR-A5PF        TCGA-PR-A5PG        TCGA-PR-A5PH        TCGA-QR-A6GO 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-QR-A6GT        TCGA-QR-A6GU        TCGA-QR-A6GZ        TCGA-QR-A6H2 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-QR-A70W        TCGA-QT-A5XJ        TCGA-QT-A5XK        TCGA-QT-A5XL 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-QT-A5XM        TCGA-QT-A5XN        TCGA-QT-A5XO        TCGA-QT-A5XP 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-QT-A69Q        TCGA-QT-A7U0        TCGA-RM-A68T        TCGA-RM-A68W 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-RT-A6Y9        TCGA-RT-A6YA        TCGA-RT-A6YC        TCGA-RW-A67V 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-RW-A67X        TCGA-RW-A680        TCGA-RW-A685        TCGA-RW-A688 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-RW-A689        TCGA-RW-A68A        TCGA-RW-A68B        TCGA-RW-A68C 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-RW-A68D        TCGA-RW-A68F        TCGA-RW-A68G        TCGA-RW-A8AZ 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-RX-A8JQ        TCGA-S7-A7WL        TCGA-S7-A7WM        TCGA-S7-A7WN 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-S7-A7WP        TCGA-S7-A7WQ        TCGA-S7-A7WR        TCGA-S7-A7WU 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-S7-A7WV        TCGA-S7-A7WW        TCGA-S7-A7WX        TCGA-S7-A7X0 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-S7-A7X1        TCGA-S7-A7X2        TCGA-SA-A6C2        TCGA-SP-A6QJ 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-SR-A6MQ        TCGA-SR-A6MX        TCGA-SR-A6MY        TCGA-SR-A6MZ 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-TT-A6YN        TCGA-W2-A7HC        TCGA-W2-A7HF        TCGA-WB-A80Q 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-WB-A814        TCGA-WB-A815        TCGA-WB-A817        TCGA-WB-A818 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-WB-A819        TCGA-WB-A81G        TCGA-WB-A81M        TCGA-WB-A81P 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-WB-A81S        TCGA-WB-A81T        TCGA-WB-A81V        TCGA-WB-A81W 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  XQ GAIN MUTATED        0      0      1
  XQ GAIN WILD-TYPE     31     18     27
D36V4, multiclass
[1] "Remove cluster labels:" "XQ GAIN MUTATED"       
clus
  XQ GAIN MUTATED XQ GAIN WILD-TYPE 
                1                76 
       TCGA-P8-A5KC        TCGA-P8-A5KD        TCGA-P8-A6RX        TCGA-P8-A6RY 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-PR-A5PF        TCGA-PR-A5PG        TCGA-PR-A5PH        TCGA-QR-A6GO 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-QR-A6GT        TCGA-QR-A6GU        TCGA-QR-A6GZ        TCGA-QR-A6H2 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-QR-A70W        TCGA-QT-A5XJ        TCGA-QT-A5XK        TCGA-QT-A5XL 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-QT-A5XM        TCGA-QT-A5XN        TCGA-QT-A5XO        TCGA-QT-A5XP 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-QT-A69Q        TCGA-QT-A7U0        TCGA-RM-A68T        TCGA-RM-A68W 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-RT-A6Y9        TCGA-RT-A6YA        TCGA-RT-A6YC        TCGA-RW-A67V 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-RW-A67X        TCGA-RW-A680        TCGA-RW-A685        TCGA-RW-A688 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-RW-A689        TCGA-RW-A68A        TCGA-RW-A68B        TCGA-RW-A68C 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-RW-A68D        TCGA-RW-A68F        TCGA-RW-A68G        TCGA-RW-A8AZ 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-RX-A8JQ        TCGA-S7-A7WL        TCGA-S7-A7WM        TCGA-S7-A7WN 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-S7-A7WP        TCGA-S7-A7WQ        TCGA-S7-A7WR        TCGA-S7-A7WU 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-S7-A7WV        TCGA-S7-A7WW        TCGA-S7-A7WX        TCGA-S7-A7X0 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-S7-A7X1        TCGA-S7-A7X2        TCGA-SA-A6C2        TCGA-SP-A6QJ 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-SR-A6MQ        TCGA-SR-A6MX        TCGA-SR-A6MY        TCGA-SR-A6MZ 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-TT-A6YN        TCGA-W2-A7HC        TCGA-W2-A7HF        TCGA-WB-A80Q 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-WB-A814        TCGA-WB-A815        TCGA-WB-A817        TCGA-WB-A818 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-WB-A819        TCGA-WB-A81G        TCGA-WB-A81M        TCGA-WB-A81P 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
       TCGA-WB-A81S        TCGA-WB-A81T        TCGA-WB-A81V        TCGA-WB-A81W 
"XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" "XQ GAIN WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  XQ GAIN MUTATED        2      1      2      0
  XQ GAIN WILD-TYPE     30     64     42     21
D36V5, multiclass
        clus
vv       XQ GAIN MUTATED XQ GAIN WILD-TYPE
  CLUS_1               2                30
  CLUS_2               1                64
  CLUS_3               2                42
  CLUS_4               0                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 CLUS_4
  XQ GAIN MUTATED        3      0      1      1
  XQ GAIN WILD-TYPE     31     64     42     20
D36V6, multiclass
        clus
vv       XQ GAIN MUTATED XQ GAIN WILD-TYPE
  CLUS_1               3                31
  CLUS_2               0                64
  CLUS_3               1                42
  CLUS_4               1                20
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  XQ GAIN MUTATED        4      1      0
  XQ GAIN WILD-TYPE     59     43     55
D36V7, multiclass
        clus
vv       XQ GAIN MUTATED XQ GAIN WILD-TYPE
  CLUS_1               4                59
  CLUS_2               1                43
  CLUS_3               0                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
  XQ GAIN MUTATED        3      0      2      0
  XQ GAIN WILD-TYPE     63     54     16     24
D36V8, multiclass
        clus
vv       XQ GAIN MUTATED XQ GAIN WILD-TYPE
  CLUS_1               3                63
  CLUS_2               0                54
  CLUS_3               2                16
  CLUS_4               0                24
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  XQ GAIN MUTATED        4      0      0      1      0
  XQ GAIN WILD-TYPE     29     50     16     32     29
D36V9, multiclass
        clus
vv       XQ GAIN MUTATED XQ GAIN WILD-TYPE
  CLUS_1               4                29
  CLUS_2               0                50
  CLUS_3               0                16
  CLUS_4               1                32
  CLUS_5               0                29
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  XQ GAIN MUTATED        3      0      0      0      0      2      0
  XQ GAIN WILD-TYPE     15     41     27     15     23     16     19
D36V10, multiclass
        clus
vv       XQ GAIN MUTATED XQ GAIN WILD-TYPE
  CLUS_1               3                15
  CLUS_2               0                41
  CLUS_3               0                27
  CLUS_4               0                15
  CLUS_5               0                23
  CLUS_6               2                16
  CLUS_7               0                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"

Clustering(37) Variable = 1P LOSS MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  1P LOSS MUTATED       27     12      6     30     22
  1P LOSS WILD-TYPE     10     28      4     20      3
D37V1, multiclass
        clus
vv       1P LOSS MUTATED 1P LOSS WILD-TYPE
  CLUS_1              27                10
  CLUS_2              12                28
  CLUS_3               6                 4
  CLUS_4              30                20
  CLUS_5              22                 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
  1P LOSS MUTATED       17     56     24
  1P LOSS WILD-TYPE     23     21     21
D37V2, multiclass
        clus
vv       1P LOSS MUTATED 1P LOSS WILD-TYPE
  CLUS_1              17                23
  CLUS_2              56                21
  CLUS_3              24                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
  1P LOSS MUTATED       11      8     16      8
  1P LOSS WILD-TYPE      5     12      7     10
D37V3, multiclass
        clus
vv       1P LOSS MUTATED 1P LOSS WILD-TYPE
  CLUS_1              11                 5
  CLUS_2               8                12
  CLUS_3              16                 7
  CLUS_4               8                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
  1P LOSS MUTATED       10     17     16
  1P LOSS WILD-TYPE     21      1     12
D37V4, multiclass
        clus
vv       1P LOSS MUTATED 1P LOSS WILD-TYPE
  CLUS_1              10                21
  CLUS_2              17                 1
  CLUS_3              16                12
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  1P LOSS MUTATED       20     48     19     10
  1P LOSS WILD-TYPE     12     17     25     11
D37V5, multiclass
        clus
vv       1P LOSS MUTATED 1P LOSS WILD-TYPE
  CLUS_1              20                12
  CLUS_2              48                17
  CLUS_3              19                25
  CLUS_4              10                11
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  1P LOSS MUTATED       15     49     23     10
  1P LOSS WILD-TYPE     19     15     20     11
D37V6, multiclass
        clus
vv       1P LOSS MUTATED 1P LOSS WILD-TYPE
  CLUS_1              15                19
  CLUS_2              49                15
  CLUS_3              23                20
  CLUS_4              10                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
  1P LOSS MUTATED       28     25     44
  1P LOSS WILD-TYPE     35     19     11
D37V7, multiclass
        clus
vv       1P LOSS MUTATED 1P LOSS WILD-TYPE
  CLUS_1              28                35
  CLUS_2              25                19
  CLUS_3              44                11
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  1P LOSS MUTATED       31     40     11     15
  1P LOSS WILD-TYPE     35     14      7      9
D37V8, multiclass
        clus
vv       1P LOSS MUTATED 1P LOSS WILD-TYPE
  CLUS_1              31                35
  CLUS_2              40                14
  CLUS_3              11                 7
  CLUS_4              15                 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       16     41     11     13     16
  1P LOSS WILD-TYPE     17      9      5     20     13
D37V9, multiclass
        clus
vv       1P LOSS MUTATED 1P LOSS WILD-TYPE
  CLUS_1              16                17
  CLUS_2              41                 9
  CLUS_3              11                 5
  CLUS_4              13                20
  CLUS_5              16                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 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  1P LOSS MUTATED        7     33     16     12      8     11     10
  1P LOSS WILD-TYPE     11      8     11      3     15      7      9
D37V10, multiclass
        clus
vv       1P LOSS MUTATED 1P LOSS WILD-TYPE
  CLUS_1               7                11
  CLUS_2              33                 8
  CLUS_3              16                11
  CLUS_4              12                 3
  CLUS_5               8                15
  CLUS_6              11                 7
  CLUS_7              10                 9
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(38) Variable = 1Q LOSS MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  1Q LOSS MUTATED        5      8      0      6      6
  1Q LOSS WILD-TYPE     32     32     10     44     19
D38V1, multiclass
        clus
vv       1Q LOSS MUTATED 1Q LOSS WILD-TYPE
  CLUS_1               5                32
  CLUS_2               8                32
  CLUS_3               0                10
  CLUS_4               6                44
  CLUS_5               6                19
[1] 5 2
[1] TRUE
[1] "dimension of contingency table 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     10      7
  1Q LOSS WILD-TYPE     32     67     38
D38V2, multiclass
        clus
vv       1Q LOSS MUTATED 1Q LOSS WILD-TYPE
  CLUS_1               8                32
  CLUS_2              10                67
  CLUS_3               7                38
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  1Q LOSS MUTATED        2      3      3      2
  1Q LOSS WILD-TYPE     14     17     20     16
D38V3, multiclass
        clus
vv       1Q LOSS MUTATED 1Q LOSS WILD-TYPE
  CLUS_1               2                14
  CLUS_2               3                17
  CLUS_3               3                20
  CLUS_4               2                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
  1Q LOSS MUTATED        1      2      7
  1Q LOSS WILD-TYPE     30     16     21
D38V4, multiclass
        clus
vv       1Q LOSS MUTATED 1Q LOSS WILD-TYPE
  CLUS_1               1                30
  CLUS_2               2                16
  CLUS_3               7                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
  1Q LOSS MUTATED        9      6      7      3
  1Q LOSS WILD-TYPE     23     59     37     18
D38V5, multiclass
        clus
vv       1Q LOSS MUTATED 1Q LOSS WILD-TYPE
  CLUS_1               9                23
  CLUS_2               6                59
  CLUS_3               7                37
  CLUS_4               3                18
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  1Q LOSS MUTATED        6      8      9      2
  1Q LOSS WILD-TYPE     28     56     34     19
D38V6, multiclass
        clus
vv       1Q LOSS MUTATED 1Q LOSS WILD-TYPE
  CLUS_1               6                28
  CLUS_2               8                56
  CLUS_3               9                34
  CLUS_4               2                19
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  1Q LOSS MUTATED       12      7      6
  1Q LOSS WILD-TYPE     51     37     49
D38V7, multiclass
        clus
vv       1Q LOSS MUTATED 1Q LOSS WILD-TYPE
  CLUS_1              12                51
  CLUS_2               7                37
  CLUS_3               6                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       14      4      3      4
  1Q LOSS WILD-TYPE     52     50     15     20
D38V8, multiclass
        clus
vv       1Q LOSS MUTATED 1Q LOSS WILD-TYPE
  CLUS_1              14                52
  CLUS_2               4                50
  CLUS_3               3                15
  CLUS_4               4                20
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  1Q LOSS MUTATED        4      8      0      9      4
  1Q LOSS WILD-TYPE     29     42     16     24     25
D38V9, multiclass
        clus
vv       1Q LOSS MUTATED 1Q LOSS WILD-TYPE
  CLUS_1               4                29
  CLUS_2               8                42
  CLUS_3               0                16
  CLUS_4               9                24
  CLUS_5               4                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
  1Q LOSS MUTATED        5      4      6      1      4      3      2
  1Q LOSS WILD-TYPE     13     37     21     14     19     15     17
D38V10, multiclass
        clus
vv       1Q LOSS MUTATED 1Q LOSS WILD-TYPE
  CLUS_1               5                13
  CLUS_2               4                37
  CLUS_3               6                21
  CLUS_4               1                14
  CLUS_5               4                19
  CLUS_6               3                15
  CLUS_7               2                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"

Clustering(39) Variable = 2P LOSS MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  2P LOSS MUTATED        2      6      0      2      0
  2P LOSS WILD-TYPE     35     34     10     48     25
D39V1, multiclass
        clus
vv       2P LOSS MUTATED 2P LOSS WILD-TYPE
  CLUS_1               2                35
  CLUS_2               6                34
  CLUS_3               0                10
  CLUS_4               2                48
  CLUS_5               0                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
  2P LOSS MUTATED        0      8      2
  2P LOSS WILD-TYPE     40     69     43
D39V2, multiclass
        clus
vv       2P LOSS MUTATED 2P LOSS WILD-TYPE
  CLUS_1               0                40
  CLUS_2               8                69
  CLUS_3               2                43
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  2P LOSS MUTATED        2      2      1      1
  2P LOSS WILD-TYPE     14     18     22     17
D39V3, multiclass
        clus
vv       2P LOSS MUTATED 2P LOSS WILD-TYPE
  CLUS_1               2                14
  CLUS_2               2                18
  CLUS_3               1                22
  CLUS_4               1                17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  2P LOSS MUTATED        3      0      3
  2P LOSS WILD-TYPE     28     18     25
D39V4, multiclass
        clus
vv       2P LOSS MUTATED 2P LOSS WILD-TYPE
  CLUS_1               3                28
  CLUS_2               0                18
  CLUS_3               3                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
  2P LOSS MUTATED        0      1      7      2
  2P LOSS WILD-TYPE     32     64     37     19
D39V5, multiclass
        clus
vv       2P LOSS MUTATED 2P LOSS WILD-TYPE
  CLUS_1               0                32
  CLUS_2               1                64
  CLUS_3               7                37
  CLUS_4               2                19
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  2P LOSS MUTATED        5      2      2      1
  2P LOSS WILD-TYPE     29     62     41     20
D39V6, multiclass
        clus
vv       2P LOSS MUTATED 2P LOSS WILD-TYPE
  CLUS_1               5                29
  CLUS_2               2                62
  CLUS_3               2                41
  CLUS_4               1                20
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  2P LOSS MUTATED        3      5      2
  2P LOSS WILD-TYPE     60     39     53
D39V7, multiclass
        clus
vv       2P LOSS MUTATED 2P LOSS WILD-TYPE
  CLUS_1               3                60
  CLUS_2               5                39
  CLUS_3               2                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
  2P LOSS MUTATED        3      0      5      2
  2P LOSS WILD-TYPE     63     54     13     22
D39V8, multiclass
        clus
vv       2P LOSS MUTATED 2P LOSS WILD-TYPE
  CLUS_1               3                63
  CLUS_2               0                54
  CLUS_3               5                13
  CLUS_4               2                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 CLUS_4 CLUS_5
  2P LOSS MUTATED        5      2      0      2      1
  2P LOSS WILD-TYPE     28     48     16     31     28
D39V9, multiclass
        clus
vv       2P LOSS MUTATED 2P LOSS WILD-TYPE
  CLUS_1               5                28
  CLUS_2               2                48
  CLUS_3               0                16
  CLUS_4               2                31
  CLUS_5               1                28
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  2P LOSS MUTATED        1      1      0      0      2      5      1
  2P LOSS WILD-TYPE     17     40     27     15     21     13     18
D39V10, multiclass
        clus
vv       2P LOSS MUTATED 2P LOSS WILD-TYPE
  CLUS_1               1                17
  CLUS_2               1                40
  CLUS_3               0                27
  CLUS_4               0                15
  CLUS_5               2                21
  CLUS_6               5                13
  CLUS_7               1                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"

Clustering(40) Variable = 2Q LOSS MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  2Q LOSS MUTATED        2      4      0      5      2
  2Q LOSS WILD-TYPE     35     36     10     45     23
D40V1, multiclass
        clus
vv       2Q LOSS MUTATED 2Q LOSS WILD-TYPE
  CLUS_1               2                35
  CLUS_2               4                36
  CLUS_3               0                10
  CLUS_4               5                45
  CLUS_5               2                23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  2Q LOSS MUTATED        5      6      2
  2Q LOSS WILD-TYPE     35     71     43
D40V2, multiclass
        clus
vv       2Q LOSS MUTATED 2Q LOSS WILD-TYPE
  CLUS_1               5                35
  CLUS_2               6                71
  CLUS_3               2                43
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  2Q LOSS MUTATED        1      3      1      1
  2Q LOSS WILD-TYPE     15     17     22     17
D40V3, multiclass
        clus
vv       2Q LOSS MUTATED 2Q LOSS WILD-TYPE
  CLUS_1               1                15
  CLUS_2               3                17
  CLUS_3               1                22
  CLUS_4               1                17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  2Q LOSS MUTATED        3      0      3
  2Q LOSS WILD-TYPE     28     18     25
D40V4, multiclass
        clus
vv       2Q LOSS MUTATED 2Q LOSS WILD-TYPE
  CLUS_1               3                28
  CLUS_2               0                18
  CLUS_3               3                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
  2Q LOSS MUTATED        4      3      5      1
  2Q LOSS WILD-TYPE     28     62     39     20
D40V5, multiclass
        clus
vv       2Q LOSS MUTATED 2Q LOSS WILD-TYPE
  CLUS_1               4                28
  CLUS_2               3                62
  CLUS_3               5                39
  CLUS_4               1                20
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  2Q LOSS MUTATED        2      4      7      0
  2Q LOSS WILD-TYPE     32     60     36     21
D40V6, multiclass
        clus
vv       2Q LOSS MUTATED 2Q LOSS WILD-TYPE
  CLUS_1               2                32
  CLUS_2               4                60
  CLUS_3               7                36
  CLUS_4               0                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
  2Q LOSS MUTATED        6      4      3
  2Q LOSS WILD-TYPE     57     40     52
D40V7, multiclass
        clus
vv       2Q LOSS MUTATED 2Q LOSS WILD-TYPE
  CLUS_1               6                57
  CLUS_2               4                40
  CLUS_3               3                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
  2Q LOSS MUTATED        9      1      1      2
  2Q LOSS WILD-TYPE     57     53     17     22
D40V8, multiclass
        clus
vv       2Q LOSS MUTATED 2Q LOSS WILD-TYPE
  CLUS_1               9                57
  CLUS_2               1                53
  CLUS_3               1                17
  CLUS_4               2                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 CLUS_4 CLUS_5
  2Q LOSS MUTATED        1      4      0      3      5
  2Q LOSS WILD-TYPE     32     46     16     30     24
D40V9, multiclass
        clus
vv       2Q LOSS MUTATED 2Q LOSS WILD-TYPE
  CLUS_1               1                32
  CLUS_2               4                46
  CLUS_3               0                16
  CLUS_4               3                30
  CLUS_5               5                24
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  2Q LOSS MUTATED        2      1      4      2      2      1      1
  2Q LOSS WILD-TYPE     16     40     23     13     21     17     18
D40V10, multiclass
        clus
vv       2Q LOSS MUTATED 2Q LOSS WILD-TYPE
  CLUS_1               2                16
  CLUS_2               1                40
  CLUS_3               4                23
  CLUS_4               2                13
  CLUS_5               2                21
  CLUS_6               1                17
  CLUS_7               1                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"

Clustering(41) Variable = 3P LOSS MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  3P LOSS MUTATED       11     13      1     28      7
  3P LOSS WILD-TYPE     26     27      9     22     18
D41V1, multiclass
        clus
vv       3P LOSS MUTATED 3P LOSS WILD-TYPE
  CLUS_1              11                26
  CLUS_2              13                27
  CLUS_3               1                 9
  CLUS_4              28                22
  CLUS_5               7                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
  3P LOSS MUTATED       19     23     18
  3P LOSS WILD-TYPE     21     54     27
D41V2, multiclass
        clus
vv       3P LOSS MUTATED 3P LOSS WILD-TYPE
  CLUS_1              19                21
  CLUS_2              23                54
  CLUS_3              18                27
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  3P LOSS MUTATED        4     11      9      5
  3P LOSS WILD-TYPE     12      9     14     13
D41V3, multiclass
        clus
vv       3P LOSS MUTATED 3P LOSS WILD-TYPE
  CLUS_1               4                12
  CLUS_2              11                 9
  CLUS_3               9                14
  CLUS_4               5                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
  3P LOSS MUTATED       10      6     13
  3P LOSS WILD-TYPE     21     12     15
D41V4, multiclass
        clus
vv       3P LOSS MUTATED 3P LOSS WILD-TYPE
  CLUS_1              10                21
  CLUS_2               6                12
  CLUS_3              13                15
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  3P LOSS MUTATED       16     16     25      3
  3P LOSS WILD-TYPE     16     49     19     18
D41V5, multiclass
        clus
vv       3P LOSS MUTATED 3P LOSS WILD-TYPE
  CLUS_1              16                16
  CLUS_2              16                49
  CLUS_3              25                19
  CLUS_4               3                18
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  3P LOSS MUTATED        9     18     30      3
  3P LOSS WILD-TYPE     25     46     13     18
D41V6, multiclass
        clus
vv       3P LOSS MUTATED 3P LOSS WILD-TYPE
  CLUS_1               9                25
  CLUS_2              18                46
  CLUS_3              30                13
  CLUS_4               3                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
  3P LOSS MUTATED       34      8     18
  3P LOSS WILD-TYPE     29     36     37
D41V7, multiclass
        clus
vv       3P LOSS MUTATED 3P LOSS WILD-TYPE
  CLUS_1              34                29
  CLUS_2               8                36
  CLUS_3              18                37
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  3P LOSS MUTATED       35     16      5      4
  3P LOSS WILD-TYPE     31     38     13     20
D41V8, multiclass
        clus
vv       3P LOSS MUTATED 3P LOSS WILD-TYPE
  CLUS_1              35                31
  CLUS_2              16                38
  CLUS_3               5                13
  CLUS_4               4                20
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  3P LOSS MUTATED       10     16      3     23      8
  3P LOSS WILD-TYPE     23     34     13     10     21
D41V9, multiclass
        clus
vv       3P LOSS MUTATED 3P LOSS WILD-TYPE
  CLUS_1              10                23
  CLUS_2              16                34
  CLUS_3               3                13
  CLUS_4              23                10
  CLUS_5               8                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
  3P LOSS MUTATED        4     15     13      1     19      5      3
  3P LOSS WILD-TYPE     14     26     14     14      4     13     16
D41V10, multiclass
        clus
vv       3P LOSS MUTATED 3P LOSS WILD-TYPE
  CLUS_1               4                14
  CLUS_2              15                26
  CLUS_3              13                14
  CLUS_4               1                14
  CLUS_5              19                 4
  CLUS_6               5                13
  CLUS_7               3                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"

Clustering(42) Variable = 3Q LOSS MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  3Q LOSS MUTATED        9     12      6     40     20
  3Q LOSS WILD-TYPE     28     28      4     10      5
D42V1, multiclass
        clus
vv       3Q LOSS MUTATED 3Q LOSS WILD-TYPE
  CLUS_1               9                28
  CLUS_2              12                28
  CLUS_3               6                 4
  CLUS_4              40                10
  CLUS_5              20                 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"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  3Q LOSS MUTATED       21     42     24
  3Q LOSS WILD-TYPE     19     35     21
D42V2, multiclass
        clus
vv       3Q LOSS MUTATED 3Q LOSS WILD-TYPE
  CLUS_1              21                19
  CLUS_2              42                35
  CLUS_3              24                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
  3Q LOSS MUTATED        8     13     15      5
  3Q LOSS WILD-TYPE      8      7      8     13
D42V3, multiclass
        clus
vv       3Q LOSS MUTATED 3Q LOSS WILD-TYPE
  CLUS_1               8                 8
  CLUS_2              13                 7
  CLUS_3              15                 8
  CLUS_4               5                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
  3Q LOSS MUTATED       11     13     17
  3Q LOSS WILD-TYPE     20      5     11
D42V4, multiclass
        clus
vv       3Q LOSS MUTATED 3Q LOSS WILD-TYPE
  CLUS_1              11                20
  CLUS_2              13                 5
  CLUS_3              17                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
  3Q LOSS MUTATED       20     39     22      6
  3Q LOSS WILD-TYPE     12     26     22     15
D42V5, multiclass
        clus
vv       3Q LOSS MUTATED 3Q LOSS WILD-TYPE
  CLUS_1              20                12
  CLUS_2              39                26
  CLUS_3              22                22
  CLUS_4               6                15
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  3Q LOSS MUTATED        6     41     33      7
  3Q LOSS WILD-TYPE     28     23     10     14
D42V6, multiclass
        clus
vv       3Q LOSS MUTATED 3Q LOSS WILD-TYPE
  CLUS_1               6                28
  CLUS_2              41                23
  CLUS_3              33                10
  CLUS_4               7                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
  3Q LOSS MUTATED       38     13     36
  3Q LOSS WILD-TYPE     25     31     19
D42V7, multiclass
        clus
vv       3Q LOSS MUTATED 3Q LOSS WILD-TYPE
  CLUS_1              38                25
  CLUS_2              13                31
  CLUS_3              36                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
  3Q LOSS MUTATED       39     33      5     10
  3Q LOSS WILD-TYPE     27     21     13     14
D42V8, multiclass
        clus
vv       3Q LOSS MUTATED 3Q LOSS WILD-TYPE
  CLUS_1              39                27
  CLUS_2              33                21
  CLUS_3               5                13
  CLUS_4              10                14
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  3Q LOSS MUTATED       10     33      6     23     15
  3Q LOSS WILD-TYPE     23     17     10     10     14
D42V9, multiclass
        clus
vv       3Q LOSS MUTATED 3Q LOSS WILD-TYPE
  CLUS_1              10                23
  CLUS_2              33                17
  CLUS_3               6                10
  CLUS_4              23                10
  CLUS_5              15                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
  3Q LOSS MUTATED        5     28     16      7     19      5      7
  3Q LOSS WILD-TYPE     13     13     11      8      4     13     12
D42V10, multiclass
        clus
vv       3Q LOSS MUTATED 3Q LOSS WILD-TYPE
  CLUS_1               5                13
  CLUS_2              28                13
  CLUS_3              16                11
  CLUS_4               7                 8
  CLUS_5              19                 4
  CLUS_6               5                13
  CLUS_7               7                12
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(43) Variable = 4P LOSS MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  4P LOSS MUTATED        0      8      0      3      0
  4P LOSS WILD-TYPE     37     32     10     47     25
D43V1, multiclass
        clus
vv       4P LOSS MUTATED 4P LOSS WILD-TYPE
  CLUS_1               0                37
  CLUS_2               8                32
  CLUS_3               0                10
  CLUS_4               3                47
  CLUS_5               0                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
  4P LOSS MUTATED        1      4      6
  4P LOSS WILD-TYPE     39     73     39
D43V2, multiclass
        clus
vv       4P LOSS MUTATED 4P LOSS WILD-TYPE
  CLUS_1               1                39
  CLUS_2               4                73
  CLUS_3               6                39
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  4P LOSS MUTATED        1      2      1      0
  4P LOSS WILD-TYPE     15     18     22     18
D43V3, multiclass
        clus
vv       4P LOSS MUTATED 4P LOSS WILD-TYPE
  CLUS_1               1                15
  CLUS_2               2                18
  CLUS_3               1                22
  CLUS_4               0                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
  4P LOSS MUTATED        1      0      3
  4P LOSS WILD-TYPE     30     18     25
D43V4, multiclass
        clus
vv       4P LOSS MUTATED 4P LOSS WILD-TYPE
  CLUS_1               1                30
  CLUS_2               0                18
  CLUS_3               3                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
  4P LOSS MUTATED        0      3      8      0
  4P LOSS WILD-TYPE     32     62     36     21
D43V5, multiclass
        clus
vv       4P LOSS MUTATED 4P LOSS WILD-TYPE
  CLUS_1               0                32
  CLUS_2               3                62
  CLUS_3               8                36
  CLUS_4               0                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 CLUS_4
  4P LOSS MUTATED        2      3      6      0
  4P LOSS WILD-TYPE     32     61     37     21
D43V6, multiclass
        clus
vv       4P LOSS MUTATED 4P LOSS WILD-TYPE
  CLUS_1               2                32
  CLUS_2               3                61
  CLUS_3               6                37
  CLUS_4               0                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
  4P LOSS MUTATED        7      2      2
  4P LOSS WILD-TYPE     56     42     53
D43V7, multiclass
        clus
vv       4P LOSS MUTATED 4P LOSS WILD-TYPE
  CLUS_1               7                56
  CLUS_2               2                42
  CLUS_3               2                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 LOSS MUTATED        7      3      1      0
  4P LOSS WILD-TYPE     59     51     17     24
D43V8, multiclass
        clus
vv       4P LOSS MUTATED 4P LOSS WILD-TYPE
  CLUS_1               7                59
  CLUS_2               3                51
  CLUS_3               1                17
  CLUS_4               0                24
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  4P LOSS MUTATED        2      1      1      6      1
  4P LOSS WILD-TYPE     31     49     15     27     28
D43V9, multiclass
        clus
vv       4P LOSS MUTATED 4P LOSS WILD-TYPE
  CLUS_1               2                31
  CLUS_2               1                49
  CLUS_3               1                15
  CLUS_4               6                27
  CLUS_5               1                28
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  4P LOSS MUTATED        0      2      1      1      6      1      0
  4P LOSS WILD-TYPE     18     39     26     14     17     17     19
D43V10, multiclass
        clus
vv       4P LOSS MUTATED 4P LOSS WILD-TYPE
  CLUS_1               0                18
  CLUS_2               2                39
  CLUS_3               1                26
  CLUS_4               1                14
  CLUS_5               6                17
  CLUS_6               1                17
  CLUS_7               0                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"

Clustering(44) Variable = 4Q LOSS MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  4Q LOSS MUTATED        0      6      0      3      1
  4Q LOSS WILD-TYPE     37     34     10     47     24
D44V1, multiclass
        clus
vv       4Q LOSS MUTATED 4Q LOSS WILD-TYPE
  CLUS_1               0                37
  CLUS_2               6                34
  CLUS_3               0                10
  CLUS_4               3                47
  CLUS_5               1                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
  4Q LOSS MUTATED        1      4      5
  4Q LOSS WILD-TYPE     39     73     40
D44V2, multiclass
        clus
vv       4Q LOSS MUTATED 4Q LOSS WILD-TYPE
  CLUS_1               1                39
  CLUS_2               4                73
  CLUS_3               5                40
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  4Q LOSS MUTATED        1      2      1      0
  4Q LOSS WILD-TYPE     15     18     22     18
D44V3, multiclass
        clus
vv       4Q LOSS MUTATED 4Q LOSS WILD-TYPE
  CLUS_1               1                15
  CLUS_2               2                18
  CLUS_3               1                22
  CLUS_4               0                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
  4Q LOSS MUTATED        1      0      3
  4Q LOSS WILD-TYPE     30     18     25
D44V4, multiclass
        clus
vv       4Q LOSS MUTATED 4Q LOSS WILD-TYPE
  CLUS_1               1                30
  CLUS_2               0                18
  CLUS_3               3                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
  4Q LOSS MUTATED        0      3      7      0
  4Q LOSS WILD-TYPE     32     62     37     21
D44V5, multiclass
        clus
vv       4Q LOSS MUTATED 4Q LOSS WILD-TYPE
  CLUS_1               0                32
  CLUS_2               3                62
  CLUS_3               7                37
  CLUS_4               0                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 CLUS_4
  4Q LOSS MUTATED        2      3      5      0
  4Q LOSS WILD-TYPE     32     61     38     21
D44V6, multiclass
        clus
vv       4Q LOSS MUTATED 4Q LOSS WILD-TYPE
  CLUS_1               2                32
  CLUS_2               3                61
  CLUS_3               5                38
  CLUS_4               0                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        6      1      3
  4Q LOSS WILD-TYPE     57     43     52
D44V7, multiclass
        clus
vv       4Q LOSS MUTATED 4Q LOSS WILD-TYPE
  CLUS_1               6                57
  CLUS_2               1                43
  CLUS_3               3                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
  4Q LOSS MUTATED        6      3      1      0
  4Q LOSS WILD-TYPE     60     51     17     24
D44V8, multiclass
        clus
vv       4Q LOSS MUTATED 4Q LOSS WILD-TYPE
  CLUS_1               6                60
  CLUS_2               3                51
  CLUS_3               1                17
  CLUS_4               0                24
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  4Q LOSS MUTATED        2      2      0      5      1
  4Q LOSS WILD-TYPE     31     48     16     28     28
D44V9, multiclass
        clus
vv       4Q LOSS MUTATED 4Q LOSS WILD-TYPE
  CLUS_1               2                31
  CLUS_2               2                48
  CLUS_3               0                16
  CLUS_4               5                28
  CLUS_5               1                28
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  4Q LOSS MUTATED        0      3      1      0      5      1      0
  4Q LOSS WILD-TYPE     18     38     26     15     18     17     19
D44V10, multiclass
        clus
vv       4Q LOSS MUTATED 4Q LOSS WILD-TYPE
  CLUS_1               0                18
  CLUS_2               3                38
  CLUS_3               1                26
  CLUS_4               0                15
  CLUS_5               5                18
  CLUS_6               1                17
  CLUS_7               0                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"

Clustering(45) Variable = 5P LOSS MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  5P LOSS MUTATED        0      2      0      2      1
  5P LOSS WILD-TYPE     37     38     10     48     24
D45V1, multiclass
        clus
vv       5P LOSS MUTATED 5P LOSS WILD-TYPE
  CLUS_1               0                37
  CLUS_2               2                38
  CLUS_3               0                10
  CLUS_4               2                48
  CLUS_5               1                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
  5P LOSS MUTATED        2      1      2
  5P LOSS WILD-TYPE     38     76     43
D45V2, multiclass
        clus
vv       5P LOSS MUTATED 5P LOSS WILD-TYPE
  CLUS_1               2                38
  CLUS_2               1                76
  CLUS_3               2                43
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  5P LOSS MUTATED        1      1      0      0
  5P LOSS WILD-TYPE     15     19     23     18
D45V3, multiclass
[1] "Remove cluster labels:" "5P LOSS MUTATED"       
clus
  5P LOSS MUTATED 5P LOSS WILD-TYPE 
                2                75 
       TCGA-P8-A5KC        TCGA-P8-A5KD        TCGA-P8-A6RX        TCGA-P8-A6RY 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-PR-A5PF        TCGA-PR-A5PG        TCGA-PR-A5PH        TCGA-QR-A6GO 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-QR-A6GT        TCGA-QR-A6GU        TCGA-QR-A6GZ        TCGA-QR-A6H2 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-QR-A70W        TCGA-QT-A5XJ        TCGA-QT-A5XK        TCGA-QT-A5XL 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-QT-A5XM        TCGA-QT-A5XN        TCGA-QT-A5XO        TCGA-QT-A5XP 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-QT-A7U0        TCGA-RM-A68T        TCGA-RM-A68W        TCGA-RT-A6Y9 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-RT-A6YA        TCGA-RT-A6YC        TCGA-RW-A67V        TCGA-RW-A67X 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-RW-A680        TCGA-RW-A681        TCGA-RW-A685        TCGA-RW-A688 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-RW-A689        TCGA-RW-A68A        TCGA-RW-A68B        TCGA-RW-A68D 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-RW-A68F        TCGA-RW-A68G        TCGA-RW-A8AZ        TCGA-RX-A8JQ 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-S7-A7WL        TCGA-S7-A7WM        TCGA-S7-A7WN        TCGA-S7-A7WP 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-S7-A7WQ        TCGA-S7-A7WR        TCGA-S7-A7WU        TCGA-S7-A7WV 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-S7-A7WW        TCGA-S7-A7WX        TCGA-S7-A7X0        TCGA-S7-A7X1 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-S7-A7X2        TCGA-SA-A6C2        TCGA-SP-A6QJ        TCGA-SR-A6MQ 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-SR-A6MX        TCGA-SR-A6MY        TCGA-SR-A6MZ        TCGA-TT-A6YN 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-W2-A7HC        TCGA-W2-A7HF        TCGA-WB-A80Q        TCGA-WB-A814 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-WB-A815        TCGA-WB-A817        TCGA-WB-A818        TCGA-WB-A819 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-WB-A81G        TCGA-WB-A81M        TCGA-WB-A81P        TCGA-WB-A81S 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-WB-A81T        TCGA-WB-A81V        TCGA-WB-A81W 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  5P LOSS MUTATED        1      0      1
  5P LOSS WILD-TYPE     30     18     27
D45V4, multiclass
[1] "Remove cluster labels:" "5P LOSS MUTATED"       
clus
  5P LOSS MUTATED 5P LOSS WILD-TYPE 
                2                75 
       TCGA-P8-A5KC        TCGA-P8-A5KD        TCGA-P8-A6RX        TCGA-P8-A6RY 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-PR-A5PF        TCGA-PR-A5PG        TCGA-PR-A5PH        TCGA-QR-A6GO 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-QR-A6GT        TCGA-QR-A6GU        TCGA-QR-A6GZ        TCGA-QR-A6H2 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-QR-A70W        TCGA-QT-A5XJ        TCGA-QT-A5XK        TCGA-QT-A5XL 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-QT-A5XM        TCGA-QT-A5XN        TCGA-QT-A5XO        TCGA-QT-A5XP 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-QT-A7U0        TCGA-RM-A68T        TCGA-RM-A68W        TCGA-RT-A6Y9 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-RT-A6YA        TCGA-RT-A6YC        TCGA-RW-A67V        TCGA-RW-A67X 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-RW-A680        TCGA-RW-A681        TCGA-RW-A685        TCGA-RW-A688 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-RW-A689        TCGA-RW-A68A        TCGA-RW-A68B        TCGA-RW-A68D 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-RW-A68F        TCGA-RW-A68G        TCGA-RW-A8AZ        TCGA-RX-A8JQ 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-S7-A7WL        TCGA-S7-A7WM        TCGA-S7-A7WN        TCGA-S7-A7WP 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-S7-A7WQ        TCGA-S7-A7WR        TCGA-S7-A7WU        TCGA-S7-A7WV 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-S7-A7WW        TCGA-S7-A7WX        TCGA-S7-A7X0        TCGA-S7-A7X1 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-S7-A7X2        TCGA-SA-A6C2        TCGA-SP-A6QJ        TCGA-SR-A6MQ 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-SR-A6MX        TCGA-SR-A6MY        TCGA-SR-A6MZ        TCGA-TT-A6YN 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-W2-A7HC        TCGA-W2-A7HF        TCGA-WB-A80Q        TCGA-WB-A814 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-WB-A815        TCGA-WB-A817        TCGA-WB-A818        TCGA-WB-A819 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-WB-A81G        TCGA-WB-A81M        TCGA-WB-A81P        TCGA-WB-A81S 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-WB-A81T        TCGA-WB-A81V        TCGA-WB-A81W 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  5P LOSS MUTATED        1      0      4      0
  5P LOSS WILD-TYPE     31     65     40     21
D45V5, multiclass
        clus
vv       5P LOSS MUTATED 5P LOSS WILD-TYPE
  CLUS_1               1                31
  CLUS_2               0                65
  CLUS_3               4                40
  CLUS_4               0                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 CLUS_4
  5P LOSS MUTATED        1      0      4      0
  5P LOSS WILD-TYPE     33     64     39     21
D45V6, multiclass
        clus
vv       5P LOSS MUTATED 5P LOSS WILD-TYPE
  CLUS_1               1                33
  CLUS_2               0                64
  CLUS_3               4                39
  CLUS_4               0                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
  5P LOSS MUTATED        4      1      0
  5P LOSS WILD-TYPE     59     43     55
D45V7, multiclass
        clus
vv       5P LOSS MUTATED 5P LOSS WILD-TYPE
  CLUS_1               4                59
  CLUS_2               1                43
  CLUS_3               0                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
  5P LOSS MUTATED        4      0      1      0
  5P LOSS WILD-TYPE     62     54     17     24
D45V8, multiclass
        clus
vv       5P LOSS MUTATED 5P LOSS WILD-TYPE
  CLUS_1               4                62
  CLUS_2               0                54
  CLUS_3               1                17
  CLUS_4               0                24
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  5P LOSS MUTATED        1      0      0      2      2
  5P LOSS WILD-TYPE     32     50     16     31     27
D45V9, multiclass
        clus
vv       5P LOSS MUTATED 5P LOSS WILD-TYPE
  CLUS_1               1                32
  CLUS_2               0                50
  CLUS_3               0                16
  CLUS_4               2                31
  CLUS_5               2                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
  5P LOSS MUTATED        0      0      1      0      3      1      0
  5P LOSS WILD-TYPE     18     41     26     15     20     17     19
D45V10, multiclass
        clus
vv       5P LOSS MUTATED 5P LOSS WILD-TYPE
  CLUS_1               0                18
  CLUS_2               0                41
  CLUS_3               1                26
  CLUS_4               0                15
  CLUS_5               3                20
  CLUS_6               1                17
  CLUS_7               0                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"

Clustering(46) Variable = 5Q LOSS MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  5Q LOSS MUTATED        0      2      0      4      1
  5Q LOSS WILD-TYPE     37     38     10     46     24
D46V1, multiclass
        clus
vv       5Q LOSS MUTATED 5Q LOSS WILD-TYPE
  CLUS_1               0                37
  CLUS_2               2                38
  CLUS_3               0                10
  CLUS_4               4                46
  CLUS_5               1                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
  5Q LOSS MUTATED        2      4      1
  5Q LOSS WILD-TYPE     38     73     44
D46V2, multiclass
        clus
vv       5Q LOSS MUTATED 5Q LOSS WILD-TYPE
  CLUS_1               2                38
  CLUS_2               4                73
  CLUS_3               1                44
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  5Q LOSS MUTATED        2      1      0      1
  5Q LOSS WILD-TYPE     14     19     23     17
D46V3, multiclass
        clus
vv       5Q LOSS MUTATED 5Q LOSS WILD-TYPE
  CLUS_1               2                14
  CLUS_2               1                19
  CLUS_3               0                23
  CLUS_4               1                17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  5Q LOSS MUTATED        2      1      1
  5Q LOSS WILD-TYPE     29     17     27
D46V4, multiclass
        clus
vv       5Q LOSS MUTATED 5Q LOSS WILD-TYPE
  CLUS_1               2                29
  CLUS_2               1                17
  CLUS_3               1                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
  5Q LOSS MUTATED        2      2      3      0
  5Q LOSS WILD-TYPE     30     63     41     21
D46V5, multiclass
        clus
vv       5Q LOSS MUTATED 5Q LOSS WILD-TYPE
  CLUS_1               2                30
  CLUS_2               2                63
  CLUS_3               3                41
  CLUS_4               0                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 CLUS_4
  5Q LOSS MUTATED        3      2      2      0
  5Q LOSS WILD-TYPE     31     62     41     21
D46V6, multiclass
        clus
vv       5Q LOSS MUTATED 5Q LOSS WILD-TYPE
  CLUS_1               3                31
  CLUS_2               2                62
  CLUS_3               2                41
  CLUS_4               0                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
  5Q LOSS MUTATED        3      1      3
  5Q LOSS WILD-TYPE     60     43     52
D46V7, multiclass
        clus
vv       5Q LOSS MUTATED 5Q LOSS WILD-TYPE
  CLUS_1               3                60
  CLUS_2               1                43
  CLUS_3               3                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
  5Q LOSS MUTATED        3      2      2      0
  5Q LOSS WILD-TYPE     63     52     16     24
D46V8, multiclass
        clus
vv       5Q LOSS MUTATED 5Q LOSS WILD-TYPE
  CLUS_1               3                63
  CLUS_2               2                52
  CLUS_3               2                16
  CLUS_4               0                24
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  5Q LOSS MUTATED        3      1      0      2      1
  5Q LOSS WILD-TYPE     30     49     16     31     28
D46V9, multiclass
        clus
vv       5Q LOSS MUTATED 5Q LOSS WILD-TYPE
  CLUS_1               3                30
  CLUS_2               1                49
  CLUS_3               0                16
  CLUS_4               2                31
  CLUS_5               1                28
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  5Q LOSS MUTATED        0      2      1      0      2      2      0
  5Q LOSS WILD-TYPE     18     39     26     15     21     16     19
D46V10, multiclass
        clus
vv       5Q LOSS MUTATED 5Q LOSS WILD-TYPE
  CLUS_1               0                18
  CLUS_2               2                39
  CLUS_3               1                26
  CLUS_4               0                15
  CLUS_5               2                21
  CLUS_6               2                16
  CLUS_7               0                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"

Clustering(47) Variable = 6Q LOSS MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  6Q LOSS MUTATED        1      0      3     11      3
  6Q LOSS WILD-TYPE     36     40      7     39     22
D47V1, multiclass
        clus
vv       6Q LOSS MUTATED 6Q LOSS WILD-TYPE
  CLUS_1               1                36
  CLUS_2               0                40
  CLUS_3               3                 7
  CLUS_4              11                39
  CLUS_5               3                22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table 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        0     16      2
  6Q LOSS WILD-TYPE     40     61     43
D47V2, multiclass
        clus
vv       6Q LOSS MUTATED 6Q LOSS WILD-TYPE
  CLUS_1               0                40
  CLUS_2              16                61
  CLUS_3               2                43
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  6Q LOSS MUTATED        2      2      7      0
  6Q LOSS WILD-TYPE     14     18     16     18
D47V3, multiclass
        clus
vv       6Q LOSS MUTATED 6Q LOSS WILD-TYPE
  CLUS_1               2                14
  CLUS_2               2                18
  CLUS_3               7                16
  CLUS_4               0                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
  6Q LOSS MUTATED        2      4      5
  6Q LOSS WILD-TYPE     29     14     23
D47V4, multiclass
        clus
vv       6Q LOSS MUTATED 6Q LOSS WILD-TYPE
  CLUS_1               2                29
  CLUS_2               4                14
  CLUS_3               5                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
  6Q LOSS MUTATED        1     15      1      1
  6Q LOSS WILD-TYPE     31     50     43     20
D47V5, multiclass
        clus
vv       6Q LOSS MUTATED 6Q LOSS WILD-TYPE
  CLUS_1               1                31
  CLUS_2              15                50
  CLUS_3               1                43
  CLUS_4               1                20
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  6Q LOSS MUTATED        0     16      1      1
  6Q LOSS WILD-TYPE     34     48     42     20
D47V6, multiclass
        clus
vv       6Q LOSS MUTATED 6Q LOSS WILD-TYPE
  CLUS_1               0                34
  CLUS_2              16                48
  CLUS_3               1                42
  CLUS_4               1                20
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  6Q LOSS MUTATED        1      4     13
  6Q LOSS WILD-TYPE     62     40     42
D47V7, multiclass
        clus
vv       6Q LOSS MUTATED 6Q LOSS WILD-TYPE
  CLUS_1               1                62
  CLUS_2               4                40
  CLUS_3              13                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
  6Q LOSS MUTATED        1     15      1      1
  6Q LOSS WILD-TYPE     65     39     17     23
D47V8, multiclass
        clus
vv       6Q LOSS MUTATED 6Q LOSS WILD-TYPE
  CLUS_1               1                65
  CLUS_2              15                39
  CLUS_3               1                17
  CLUS_4               1                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 CLUS_4 CLUS_5
  6Q LOSS MUTATED        1     11      2      2      2
  6Q LOSS WILD-TYPE     32     39     14     31     27
D47V9, multiclass
        clus
vv       6Q LOSS MUTATED 6Q LOSS WILD-TYPE
  CLUS_1               1                32
  CLUS_2              11                39
  CLUS_3               2                14
  CLUS_4               2                31
  CLUS_5               2                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
  6Q LOSS MUTATED        0     11      0      4      1      1      1
  6Q LOSS WILD-TYPE     18     30     27     11     22     17     18
D47V10, multiclass
        clus
vv       6Q LOSS MUTATED 6Q LOSS WILD-TYPE
  CLUS_1               0                18
  CLUS_2              11                30
  CLUS_3               0                27
  CLUS_4               4                11
  CLUS_5               1                22
  CLUS_6               1                17
  CLUS_7               1                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"

Clustering(48) Variable = 7Q LOSS MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  7Q LOSS MUTATED        3      0      0      3      1
  7Q LOSS WILD-TYPE     34     40     10     47     24
D48V1, multiclass
        clus
vv       7Q LOSS MUTATED 7Q LOSS WILD-TYPE
  CLUS_1               3                34
  CLUS_2               0                40
  CLUS_3               0                10
  CLUS_4               3                47
  CLUS_5               1                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
  7Q LOSS MUTATED        0      4      3
  7Q LOSS WILD-TYPE     40     73     42
D48V2, multiclass
        clus
vv       7Q LOSS MUTATED 7Q LOSS WILD-TYPE
  CLUS_1               0                40
  CLUS_2               4                73
  CLUS_3               3                42
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  7Q LOSS MUTATED        2      0      1      0
  7Q LOSS WILD-TYPE     14     20     22     18
D48V3, multiclass
        clus
vv       7Q LOSS MUTATED 7Q LOSS WILD-TYPE
  CLUS_1               2                14
  CLUS_2               0                20
  CLUS_3               1                22
  CLUS_4               0                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
  7Q LOSS MUTATED        0      2      1
  7Q LOSS WILD-TYPE     31     16     27
D48V4, multiclass
        clus
vv       7Q LOSS MUTATED 7Q LOSS WILD-TYPE
  CLUS_1               0                31
  CLUS_2               2                16
  CLUS_3               1                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
  7Q LOSS MUTATED        0      7      0      0
  7Q LOSS WILD-TYPE     32     58     44     21
D48V5, multiclass
        clus
vv       7Q LOSS MUTATED 7Q LOSS WILD-TYPE
  CLUS_1               0                32
  CLUS_2               7                58
  CLUS_3               0                44
  CLUS_4               0                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 CLUS_4
  7Q LOSS MUTATED        1      6      0      0
  7Q LOSS WILD-TYPE     33     58     43     21
D48V6, multiclass
        clus
vv       7Q LOSS MUTATED 7Q LOSS WILD-TYPE
  CLUS_1               1                33
  CLUS_2               6                58
  CLUS_3               0                43
  CLUS_4               0                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
  7Q LOSS MUTATED        0      2      5
  7Q LOSS WILD-TYPE     63     42     50
D48V7, multiclass
        clus
vv       7Q LOSS MUTATED 7Q LOSS WILD-TYPE
  CLUS_1               0                63
  CLUS_2               2                42
  CLUS_3               5                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
  7Q LOSS MUTATED        0      5      2      0
  7Q LOSS WILD-TYPE     66     49     16     24
D48V8, multiclass
        clus
vv       7Q LOSS MUTATED 7Q LOSS WILD-TYPE
  CLUS_1               0                66
  CLUS_2               5                49
  CLUS_3               2                16
  CLUS_4               0                24
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  7Q LOSS MUTATED        2      4      1      0      0
  7Q LOSS WILD-TYPE     31     46     15     33     29
D48V9, multiclass
        clus
vv       7Q LOSS MUTATED 7Q LOSS WILD-TYPE
  CLUS_1               2                31
  CLUS_2               4                46
  CLUS_3               1                15
  CLUS_4               0                33
  CLUS_5               0                29
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  7Q LOSS MUTATED        0      4      0      1      0      2      0
  7Q LOSS WILD-TYPE     18     37     27     14     23     16     19
D48V10, multiclass
        clus
vv       7Q LOSS MUTATED 7Q LOSS WILD-TYPE
  CLUS_1               0                18
  CLUS_2               4                37
  CLUS_3               0                27
  CLUS_4               1                14
  CLUS_5               0                23
  CLUS_6               2                16
  CLUS_7               0                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"

Clustering(49) Variable = 8P LOSS MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  8P LOSS MUTATED        8      2      0      9      2
  8P LOSS WILD-TYPE     29     38     10     41     23
D49V1, multiclass
        clus
vv       8P LOSS MUTATED 8P LOSS WILD-TYPE
  CLUS_1               8                29
  CLUS_2               2                38
  CLUS_3               0                10
  CLUS_4               9                41
  CLUS_5               2                23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  8P LOSS MUTATED        5     12      4
  8P LOSS WILD-TYPE     35     65     41
D49V2, multiclass
        clus
vv       8P LOSS MUTATED 8P LOSS WILD-TYPE
  CLUS_1               5                35
  CLUS_2              12                65
  CLUS_3               4                41
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  8P LOSS MUTATED        2      3      4      1
  8P LOSS WILD-TYPE     14     17     19     17
D49V3, multiclass
        clus
vv       8P LOSS MUTATED 8P LOSS WILD-TYPE
  CLUS_1               2                14
  CLUS_2               3                17
  CLUS_3               4                19
  CLUS_4               1                17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  8P LOSS MUTATED        3      3      4
  8P LOSS WILD-TYPE     28     15     24
D49V4, multiclass
        clus
vv       8P LOSS MUTATED 8P LOSS WILD-TYPE
  CLUS_1               3                28
  CLUS_2               3                15
  CLUS_3               4                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
  8P LOSS MUTATED        3     14      3      1
  8P LOSS WILD-TYPE     29     51     41     20
D49V5, multiclass
        clus
vv       8P LOSS MUTATED 8P LOSS WILD-TYPE
  CLUS_1               3                29
  CLUS_2              14                51
  CLUS_3               3                41
  CLUS_4               1                20
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  8P LOSS MUTATED        5     13      2      1
  8P LOSS WILD-TYPE     29     51     41     20
D49V6, multiclass
        clus
vv       8P LOSS MUTATED 8P LOSS WILD-TYPE
  CLUS_1               5                29
  CLUS_2              13                51
  CLUS_3               2                41
  CLUS_4               1                20
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  8P LOSS MUTATED        7      4     10
  8P LOSS WILD-TYPE     56     40     45
D49V7, multiclass
        clus
vv       8P LOSS MUTATED 8P LOSS WILD-TYPE
  CLUS_1               7                56
  CLUS_2               4                40
  CLUS_3              10                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
  8P LOSS MUTATED        8      9      2      2
  8P LOSS WILD-TYPE     58     45     16     22
D49V8, multiclass
        clus
vv       8P LOSS MUTATED 8P LOSS WILD-TYPE
  CLUS_1               8                58
  CLUS_2               9                45
  CLUS_3               2                16
  CLUS_4               2                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 CLUS_4 CLUS_5
  8P LOSS MUTATED        5     10      1      3      2
  8P LOSS WILD-TYPE     28     40     15     30     27
D49V9, multiclass
        clus
vv       8P LOSS MUTATED 8P LOSS WILD-TYPE
  CLUS_1               5                28
  CLUS_2              10                40
  CLUS_3               1                15
  CLUS_4               3                30
  CLUS_5               2                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
  8P LOSS MUTATED        4      8      3      2      0      2      2
  8P LOSS WILD-TYPE     14     33     24     13     23     16     17
D49V10, multiclass
        clus
vv       8P LOSS MUTATED 8P LOSS WILD-TYPE
  CLUS_1               4                14
  CLUS_2               8                33
  CLUS_3               3                24
  CLUS_4               2                13
  CLUS_5               0                23
  CLUS_6               2                16
  CLUS_7               2                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"

Clustering(50) Variable = 8Q LOSS MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  8Q LOSS MUTATED        1      1      0      7      3
  8Q LOSS WILD-TYPE     36     39     10     43     22
D50V1, multiclass
        clus
vv       8Q LOSS MUTATED 8Q LOSS WILD-TYPE
  CLUS_1               1                36
  CLUS_2               1                39
  CLUS_3               0                10
  CLUS_4               7                43
  CLUS_5               3                22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table 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        3      5      4
  8Q LOSS WILD-TYPE     37     72     41
D50V2, multiclass
        clus
vv       8Q LOSS MUTATED 8Q LOSS WILD-TYPE
  CLUS_1               3                37
  CLUS_2               5                72
  CLUS_3               4                41
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  8Q LOSS MUTATED        0      2      1      0
  8Q LOSS WILD-TYPE     16     18     22     18
D50V3, multiclass
        clus
vv       8Q LOSS MUTATED 8Q LOSS WILD-TYPE
  CLUS_1               0                16
  CLUS_2               2                18
  CLUS_3               1                22
  CLUS_4               0                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
  8Q LOSS MUTATED        1      1      1
  8Q LOSS WILD-TYPE     30     17     27
D50V4, multiclass
        clus
vv       8Q LOSS MUTATED 8Q LOSS WILD-TYPE
  CLUS_1               1                30
  CLUS_2               1                17
  CLUS_3               1                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
  8Q LOSS MUTATED        4      6      1      1
  8Q LOSS WILD-TYPE     28     59     43     20
D50V5, multiclass
        clus
vv       8Q LOSS MUTATED 8Q LOSS WILD-TYPE
  CLUS_1               4                28
  CLUS_2               6                59
  CLUS_3               1                43
  CLUS_4               1                20
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  8Q LOSS MUTATED        3      6      3      0
  8Q LOSS WILD-TYPE     31     58     40     21
D50V6, multiclass
        clus
vv       8Q LOSS MUTATED 8Q LOSS WILD-TYPE
  CLUS_1               3                31
  CLUS_2               6                58
  CLUS_3               3                40
  CLUS_4               0                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
  8Q LOSS MUTATED        6      0      6
  8Q LOSS WILD-TYPE     57     44     49
D50V7, multiclass
        clus
vv       8Q LOSS MUTATED 8Q LOSS WILD-TYPE
  CLUS_1               6                57
  CLUS_2               0                44
  CLUS_3               6                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
  8Q LOSS MUTATED        7      4      1      0
  8Q LOSS WILD-TYPE     59     50     17     24
D50V8, multiclass
        clus
vv       8Q LOSS MUTATED 8Q LOSS WILD-TYPE
  CLUS_1               7                59
  CLUS_2               4                50
  CLUS_3               1                17
  CLUS_4               0                24
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  8Q LOSS MUTATED        3      5      0      2      2
  8Q LOSS WILD-TYPE     30     45     16     31     27
D50V9, multiclass
        clus
vv       8Q LOSS MUTATED 8Q LOSS WILD-TYPE
  CLUS_1               3                30
  CLUS_2               5                45
  CLUS_3               0                16
  CLUS_4               2                31
  CLUS_5               2                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 LOSS MUTATED        2      4      4      1      0      1      0
  8Q LOSS WILD-TYPE     16     37     23     14     23     17     19
D50V10, multiclass
        clus
vv       8Q LOSS MUTATED 8Q LOSS WILD-TYPE
  CLUS_1               2                16
  CLUS_2               4                37
  CLUS_3               4                23
  CLUS_4               1                14
  CLUS_5               0                23
  CLUS_6               1                17
  CLUS_7               0                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"

Clustering(51) Variable = 9P LOSS MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  9P LOSS MUTATED        3      1      2      2      3
  9P LOSS WILD-TYPE     34     39      8     48     22
D51V1, multiclass
        clus
vv       9P LOSS MUTATED 9P LOSS WILD-TYPE
  CLUS_1               3                34
  CLUS_2               1                39
  CLUS_3               2                 8
  CLUS_4               2                48
  CLUS_5               3                22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table 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        3      7      1
  9P LOSS WILD-TYPE     37     70     44
D51V2, multiclass
        clus
vv       9P LOSS MUTATED 9P LOSS WILD-TYPE
  CLUS_1               3                37
  CLUS_2               7                70
  CLUS_3               1                44
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  9P LOSS MUTATED        0      0      4      0
  9P LOSS WILD-TYPE     16     20     19     18
D51V3, multiclass
        clus
vv       9P LOSS MUTATED 9P LOSS WILD-TYPE
  CLUS_1               0                16
  CLUS_2               0                20
  CLUS_3               4                19
  CLUS_4               0                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
  9P LOSS MUTATED        0      0      4
  9P LOSS WILD-TYPE     31     18     24
D51V4, multiclass
        clus
vv       9P LOSS MUTATED 9P LOSS WILD-TYPE
  CLUS_1               0                31
  CLUS_2               0                18
  CLUS_3               4                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
  9P LOSS MUTATED        1      8      2      0
  9P LOSS WILD-TYPE     31     57     42     21
D51V5, multiclass
        clus
vv       9P LOSS MUTATED 9P LOSS WILD-TYPE
  CLUS_1               1                31
  CLUS_2               8                57
  CLUS_3               2                42
  CLUS_4               0                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 CLUS_4
  9P LOSS MUTATED        1      8      2      0
  9P LOSS WILD-TYPE     33     56     41     21
D51V6, multiclass
        clus
vv       9P LOSS MUTATED 9P LOSS WILD-TYPE
  CLUS_1               1                33
  CLUS_2               8                56
  CLUS_3               2                41
  CLUS_4               0                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
  9P LOSS MUTATED        3      3      5
  9P LOSS WILD-TYPE     60     41     50
D51V7, multiclass
        clus
vv       9P LOSS MUTATED 9P LOSS WILD-TYPE
  CLUS_1               3                60
  CLUS_2               3                41
  CLUS_3               5                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
  9P LOSS MUTATED        2      7      2      0
  9P LOSS WILD-TYPE     64     47     16     24
D51V8, multiclass
        clus
vv       9P LOSS MUTATED 9P LOSS WILD-TYPE
  CLUS_1               2                64
  CLUS_2               7                47
  CLUS_3               2                16
  CLUS_4               0                24
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  9P LOSS MUTATED        3      6      0      2      0
  9P LOSS WILD-TYPE     30     44     16     31     29
D51V9, multiclass
        clus
vv       9P LOSS MUTATED 9P LOSS WILD-TYPE
  CLUS_1               3                30
  CLUS_2               6                44
  CLUS_3               0                16
  CLUS_4               2                31
  CLUS_5               0                29
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  9P LOSS MUTATED        1      7      0      0      1      2      0
  9P LOSS WILD-TYPE     17     34     27     15     22     16     19
D51V10, multiclass
        clus
vv       9P LOSS MUTATED 9P LOSS WILD-TYPE
  CLUS_1               1                17
  CLUS_2               7                34
  CLUS_3               0                27
  CLUS_4               0                15
  CLUS_5               1                22
  CLUS_6               2                16
  CLUS_7               0                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"

Clustering(52) Variable = 9Q LOSS MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  9Q LOSS MUTATED        3      1      1      4      3
  9Q LOSS WILD-TYPE     34     39      9     46     22
D52V1, multiclass
        clus
vv       9Q LOSS MUTATED 9Q LOSS WILD-TYPE
  CLUS_1               3                34
  CLUS_2               1                39
  CLUS_3               1                 9
  CLUS_4               4                46
  CLUS_5               3                22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table 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        5      6      1
  9Q LOSS WILD-TYPE     35     71     44
D52V2, multiclass
        clus
vv       9Q LOSS MUTATED 9Q LOSS WILD-TYPE
  CLUS_1               5                35
  CLUS_2               6                71
  CLUS_3               1                44
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  9Q LOSS MUTATED        0      0      3      1
  9Q LOSS WILD-TYPE     16     20     20     17
D52V3, multiclass
        clus
vv       9Q LOSS MUTATED 9Q LOSS WILD-TYPE
  CLUS_1               0                16
  CLUS_2               0                20
  CLUS_3               3                20
  CLUS_4               1                17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  9Q LOSS MUTATED        1      0      3
  9Q LOSS WILD-TYPE     30     18     25
D52V4, multiclass
        clus
vv       9Q LOSS MUTATED 9Q LOSS WILD-TYPE
  CLUS_1               1                30
  CLUS_2               0                18
  CLUS_3               3                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
  9Q LOSS MUTATED        3      7      2      0
  9Q LOSS WILD-TYPE     29     58     42     21
D52V5, multiclass
        clus
vv       9Q LOSS MUTATED 9Q LOSS WILD-TYPE
  CLUS_1               3                29
  CLUS_2               7                58
  CLUS_3               2                42
  CLUS_4               0                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 CLUS_4
  9Q LOSS MUTATED        2      7      3      0
  9Q LOSS WILD-TYPE     32     57     40     21
D52V6, multiclass
        clus
vv       9Q LOSS MUTATED 9Q LOSS WILD-TYPE
  CLUS_1               2                32
  CLUS_2               7                57
  CLUS_3               3                40
  CLUS_4               0                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
  9Q LOSS MUTATED        6      3      3
  9Q LOSS WILD-TYPE     57     41     52
D52V7, multiclass
        clus
vv       9Q LOSS MUTATED 9Q LOSS WILD-TYPE
  CLUS_1               6                57
  CLUS_2               3                41
  CLUS_3               3                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
  9Q LOSS MUTATED        4      6      2      0
  9Q LOSS WILD-TYPE     62     48     16     24
D52V8, multiclass
        clus
vv       9Q LOSS MUTATED 9Q LOSS WILD-TYPE
  CLUS_1               4                62
  CLUS_2               6                48
  CLUS_3               2                16
  CLUS_4               0                24
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  9Q LOSS MUTATED        4      4      0      3      1
  9Q LOSS WILD-TYPE     29     46     16     30     28
D52V9, multiclass
        clus
vv       9Q LOSS MUTATED 9Q LOSS WILD-TYPE
  CLUS_1               4                29
  CLUS_2               4                46
  CLUS_3               0                16
  CLUS_4               3                30
  CLUS_5               1                28
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  9Q LOSS MUTATED        1      5      2      0      2      2      0
  9Q LOSS WILD-TYPE     17     36     25     15     21     16     19
D52V10, multiclass
        clus
vv       9Q LOSS MUTATED 9Q LOSS WILD-TYPE
  CLUS_1               1                17
  CLUS_2               5                36
  CLUS_3               2                25
  CLUS_4               0                15
  CLUS_5               2                21
  CLUS_6               2                16
  CLUS_7               0                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"

Clustering(53) Variable = 11P LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  11P LOSS MUTATED       10     20      0     15      9
  11P LOSS WILD-TYPE     27     20     10     35     16
D53V1, multiclass
        clus
vv       11P LOSS MUTATED 11P LOSS WILD-TYPE
  CLUS_1               10                 27
  CLUS_2               20                 20
  CLUS_3                0                 10
  CLUS_4               15                 35
  CLUS_5                9                 16
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  11P LOSS MUTATED       20     14     20
  11P LOSS WILD-TYPE     20     63     25
D53V2, multiclass
        clus
vv       11P LOSS MUTATED 11P LOSS WILD-TYPE
  CLUS_1               20                 20
  CLUS_2               14                 63
  CLUS_3               20                 25
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  11P LOSS MUTATED        4     10      4      9
  11P LOSS WILD-TYPE     12     10     19      9
D53V3, multiclass
        clus
vv       11P LOSS MUTATED 11P LOSS WILD-TYPE
  CLUS_1                4                 12
  CLUS_2               10                 10
  CLUS_3                4                 19
  CLUS_4                9                  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
  11P LOSS MUTATED       14      3     10
  11P LOSS WILD-TYPE     17     15     18
D53V4, multiclass
        clus
vv       11P LOSS MUTATED 11P LOSS WILD-TYPE
  CLUS_1               14                 17
  CLUS_2                3                 15
  CLUS_3               10                 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
  11P LOSS MUTATED       11     12     25      6
  11P LOSS WILD-TYPE     21     53     19     15
D53V5, multiclass
        clus
vv       11P LOSS MUTATED 11P LOSS WILD-TYPE
  CLUS_1               11                 21
  CLUS_2               12                 53
  CLUS_3               25                 19
  CLUS_4                6                 15
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  11P LOSS MUTATED       11      9     28      6
  11P LOSS WILD-TYPE     23     55     15     15
D53V6, multiclass
        clus
vv       11P LOSS MUTATED 11P LOSS WILD-TYPE
  CLUS_1               11                 23
  CLUS_2                9                 55
  CLUS_3               28                 15
  CLUS_4                6                 15
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  11P LOSS MUTATED       34     11      9
  11P LOSS WILD-TYPE     29     33     46
D53V7, multiclass
        clus
vv       11P LOSS MUTATED 11P LOSS WILD-TYPE
  CLUS_1               34                 29
  CLUS_2               11                 33
  CLUS_3                9                 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       37      6      5      6
  11P LOSS WILD-TYPE     29     48     13     18
D53V8, multiclass
        clus
vv       11P LOSS MUTATED 11P LOSS WILD-TYPE
  CLUS_1               37                 29
  CLUS_2                6                 48
  CLUS_3                5                 13
  CLUS_4                6                 18
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  11P LOSS MUTATED       11      6      4     19     13
  11P LOSS WILD-TYPE     22     44     12     14     16
D53V9, multiclass
        clus
vv       11P LOSS MUTATED 11P LOSS WILD-TYPE
  CLUS_1               11                 22
  CLUS_2                6                 44
  CLUS_3                4                 12
  CLUS_4               19                 14
  CLUS_5               13                 16
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  11P LOSS MUTATED        9      5      9      2     18      5      5
  11P LOSS WILD-TYPE      9     36     18     13      5     13     14
D53V10, multiclass
        clus
vv       11P LOSS MUTATED 11P LOSS WILD-TYPE
  CLUS_1                9                  9
  CLUS_2                5                 36
  CLUS_3                9                 18
  CLUS_4                2                 13
  CLUS_5               18                  5
  CLUS_6                5                 13
  CLUS_7                5                 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"

Clustering(54) Variable = 11Q LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  11Q LOSS MUTATED        6     19      0     15      0
  11Q LOSS WILD-TYPE     31     21     10     35     25
D54V1, multiclass
        clus
vv       11Q LOSS MUTATED 11Q LOSS WILD-TYPE
  CLUS_1                6                 31
  CLUS_2               19                 21
  CLUS_3                0                 10
  CLUS_4               15                 35
  CLUS_5                0                 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
  11Q LOSS MUTATED       14     12     14
  11Q LOSS WILD-TYPE     26     65     31
D54V2, multiclass
        clus
vv       11Q LOSS MUTATED 11Q LOSS WILD-TYPE
  CLUS_1               14                 26
  CLUS_2               12                 65
  CLUS_3               14                 31
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  11Q LOSS MUTATED        5     10      5      9
  11Q LOSS WILD-TYPE     11     10     18      9
D54V3, multiclass
        clus
vv       11Q LOSS MUTATED 11Q LOSS WILD-TYPE
  CLUS_1                5                 11
  CLUS_2               10                 10
  CLUS_3                5                 18
  CLUS_4                9                  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
  11Q LOSS MUTATED       14      3     12
  11Q LOSS WILD-TYPE     17     15     16
D54V4, multiclass
        clus
vv       11Q LOSS MUTATED 11Q LOSS WILD-TYPE
  CLUS_1               14                 17
  CLUS_2                3                 15
  CLUS_3               12                 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
  11Q LOSS MUTATED        7      8     21      4
  11Q LOSS WILD-TYPE     25     57     23     17
D54V5, multiclass
        clus
vv       11Q LOSS MUTATED 11Q LOSS WILD-TYPE
  CLUS_1                7                 25
  CLUS_2                8                 57
  CLUS_3               21                 23
  CLUS_4                4                 17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  11Q LOSS MUTATED        9      8     20      3
  11Q LOSS WILD-TYPE     25     56     23     18
D54V6, multiclass
        clus
vv       11Q LOSS MUTATED 11Q LOSS WILD-TYPE
  CLUS_1                9                 25
  CLUS_2                8                 56
  CLUS_3               20                 23
  CLUS_4                3                 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
  11Q LOSS MUTATED       26     10      4
  11Q LOSS WILD-TYPE     37     34     51
D54V7, multiclass
        clus
vv       11Q LOSS MUTATED 11Q LOSS WILD-TYPE
  CLUS_1               26                 37
  CLUS_2               10                 34
  CLUS_3                4                 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
  11Q LOSS MUTATED       27      5      2      6
  11Q LOSS WILD-TYPE     39     49     16     18
D54V8, multiclass
        clus
vv       11Q LOSS MUTATED 11Q LOSS WILD-TYPE
  CLUS_1               27                 39
  CLUS_2                5                 49
  CLUS_3                2                 16
  CLUS_4                6                 18
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  11Q LOSS MUTATED        8      4      3     17      8
  11Q LOSS WILD-TYPE     25     46     13     16     21
D54V9, multiclass
        clus
vv       11Q LOSS MUTATED 11Q LOSS WILD-TYPE
  CLUS_1                8                 25
  CLUS_2                4                 46
  CLUS_3                3                 13
  CLUS_4               17                 16
  CLUS_5                8                 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
  11Q LOSS MUTATED        7      5      6      1     15      2      4
  11Q LOSS WILD-TYPE     11     36     21     14      8     16     15
D54V10, multiclass
        clus
vv       11Q LOSS MUTATED 11Q LOSS WILD-TYPE
  CLUS_1                7                 11
  CLUS_2                5                 36
  CLUS_3                6                 21
  CLUS_4                1                 14
  CLUS_5               15                  8
  CLUS_6                2                 16
  CLUS_7                4                 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"

Clustering(55) Variable = 12P LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  12P LOSS MUTATED        2      0      1      0      0
  12P LOSS WILD-TYPE     35     40      9     50     25
D55V1, multiclass
        clus
vv       12P LOSS MUTATED 12P LOSS WILD-TYPE
  CLUS_1                2                 35
  CLUS_2                0                 40
  CLUS_3                1                  9
  CLUS_4                0                 50
  CLUS_5                0                 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
  12P LOSS MUTATED        0      3      0
  12P LOSS WILD-TYPE     40     74     45
D55V2, multiclass
        clus
vv       12P LOSS MUTATED 12P LOSS WILD-TYPE
  CLUS_1                0                 40
  CLUS_2                3                 74
  CLUS_3                0                 45
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  12P LOSS MUTATED        0      0      1      2
  12P LOSS WILD-TYPE     16     20     22     16
D55V3, multiclass
        clus
vv       12P LOSS MUTATED 12P LOSS WILD-TYPE
  CLUS_1                0                 16
  CLUS_2                0                 20
  CLUS_3                1                 22
  CLUS_4                2                 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
  12P LOSS MUTATED        2      0      1
  12P LOSS WILD-TYPE     29     18     27
D55V4, multiclass
        clus
vv       12P LOSS MUTATED 12P LOSS WILD-TYPE
  CLUS_1                2                 29
  CLUS_2                0                 18
  CLUS_3                1                 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
  12P LOSS MUTATED        0      1      2      0
  12P LOSS WILD-TYPE     32     64     42     21
D55V5, multiclass
        clus
vv       12P LOSS MUTATED 12P LOSS WILD-TYPE
  CLUS_1                0                 32
  CLUS_2                1                 64
  CLUS_3                2                 42
  CLUS_4                0                 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 CLUS_4
  12P LOSS MUTATED        2      1      0      0
  12P LOSS WILD-TYPE     32     63     43     21
D55V6, multiclass
        clus
vv       12P LOSS MUTATED 12P LOSS WILD-TYPE
  CLUS_1                2                 32
  CLUS_2                1                 63
  CLUS_3                0                 43
  CLUS_4                0                 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
  12P LOSS MUTATED        2      0      1
  12P LOSS WILD-TYPE     61     44     54
D55V7, multiclass
        clus
vv       12P LOSS MUTATED 12P LOSS WILD-TYPE
  CLUS_1                2                 61
  CLUS_2                0                 44
  CLUS_3                1                 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
  12P LOSS MUTATED        2      1      0      0
  12P LOSS WILD-TYPE     64     53     18     24
D55V8, multiclass
        clus
vv       12P LOSS MUTATED 12P LOSS WILD-TYPE
  CLUS_1                2                 64
  CLUS_2                1                 53
  CLUS_3                0                 18
  CLUS_4                0                 24
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  12P LOSS MUTATED        0      1      2      0      0
  12P LOSS WILD-TYPE     33     49     14     33     29
D55V9, multiclass
        clus
vv       12P LOSS MUTATED 12P LOSS WILD-TYPE
  CLUS_1                0                 33
  CLUS_2                1                 49
  CLUS_3                2                 14
  CLUS_4                0                 33
  CLUS_5                0                 29
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  12P LOSS MUTATED        0      1      2      0      0      0      0
  12P LOSS WILD-TYPE     18     40     25     15     23     18     19
D55V10, multiclass
        clus
vv       12P LOSS MUTATED 12P LOSS WILD-TYPE
  CLUS_1                0                 18
  CLUS_2                1                 40
  CLUS_3                2                 25
  CLUS_4                0                 15
  CLUS_5                0                 23
  CLUS_6                0                 18
  CLUS_7                0                 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"

Clustering(56) Variable = 13Q LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  13Q LOSS MUTATED        2      1      1      3      1
  13Q LOSS WILD-TYPE     35     39      9     47     24
D56V1, multiclass
        clus
vv       13Q LOSS MUTATED 13Q LOSS WILD-TYPE
  CLUS_1                2                 35
  CLUS_2                1                 39
  CLUS_3                1                  9
  CLUS_4                3                 47
  CLUS_5                1                 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 LOSS MUTATED        1      6      1
  13Q LOSS WILD-TYPE     39     71     44
D56V2, multiclass
        clus
vv       13Q LOSS MUTATED 13Q LOSS WILD-TYPE
  CLUS_1                1                 39
  CLUS_2                6                 71
  CLUS_3                1                 44
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  13Q LOSS MUTATED        0      2      1      1
  13Q LOSS WILD-TYPE     16     18     22     17
D56V3, multiclass
        clus
vv       13Q LOSS MUTATED 13Q LOSS WILD-TYPE
  CLUS_1                0                 16
  CLUS_2                2                 18
  CLUS_3                1                 22
  CLUS_4                1                 17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  13Q LOSS MUTATED        2      0      2
  13Q LOSS WILD-TYPE     29     18     26
D56V4, multiclass
        clus
vv       13Q LOSS MUTATED 13Q LOSS WILD-TYPE
  CLUS_1                2                 29
  CLUS_2                0                 18
  CLUS_3                2                 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
  13Q LOSS MUTATED        0      5      3      0
  13Q LOSS WILD-TYPE     32     60     41     21
D56V5, multiclass
        clus
vv       13Q LOSS MUTATED 13Q LOSS WILD-TYPE
  CLUS_1                0                 32
  CLUS_2                5                 60
  CLUS_3                3                 41
  CLUS_4                0                 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 CLUS_4
  13Q LOSS MUTATED        3      5      0      0
  13Q LOSS WILD-TYPE     31     59     43     21
D56V6, multiclass
        clus
vv       13Q LOSS MUTATED 13Q LOSS WILD-TYPE
  CLUS_1                3                 31
  CLUS_2                5                 59
  CLUS_3                0                 43
  CLUS_4                0                 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
  13Q LOSS MUTATED        2      3      3
  13Q LOSS WILD-TYPE     61     41     52
D56V7, multiclass
        clus
vv       13Q LOSS MUTATED 13Q LOSS WILD-TYPE
  CLUS_1                2                 61
  CLUS_2                3                 41
  CLUS_3                3                 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
  13Q LOSS MUTATED        2      4      2      0
  13Q LOSS WILD-TYPE     64     50     16     24
D56V8, multiclass
        clus
vv       13Q LOSS MUTATED 13Q LOSS WILD-TYPE
  CLUS_1                2                 64
  CLUS_2                4                 50
  CLUS_3                2                 16
  CLUS_4                0                 24
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  13Q LOSS MUTATED        2      3      2      1      0
  13Q LOSS WILD-TYPE     31     47     14     32     29
D56V9, multiclass
        clus
vv       13Q LOSS MUTATED 13Q LOSS WILD-TYPE
  CLUS_1                2                 31
  CLUS_2                3                 47
  CLUS_3                2                 14
  CLUS_4                1                 32
  CLUS_5                0                 29
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  13Q LOSS MUTATED        0      3      2      1      0      2      0
  13Q LOSS WILD-TYPE     18     38     25     14     23     16     19
D56V10, multiclass
        clus
vv       13Q LOSS MUTATED 13Q LOSS WILD-TYPE
  CLUS_1                0                 18
  CLUS_2                3                 38
  CLUS_3                2                 25
  CLUS_4                1                 14
  CLUS_5                0                 23
  CLUS_6                2                 16
  CLUS_7                0                 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"

Clustering(57) Variable = 14Q LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  14Q LOSS MUTATED        6      4      0      6      4
  14Q LOSS WILD-TYPE     31     36     10     44     21
D57V1, multiclass
        clus
vv       14Q LOSS MUTATED 14Q LOSS WILD-TYPE
  CLUS_1                6                 31
  CLUS_2                4                 36
  CLUS_3                0                 10
  CLUS_4                6                 44
  CLUS_5                4                 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
  14Q LOSS MUTATED        2     12      6
  14Q LOSS WILD-TYPE     38     65     39
D57V2, multiclass
        clus
vv       14Q LOSS MUTATED 14Q LOSS WILD-TYPE
  CLUS_1                2                 38
  CLUS_2               12                 65
  CLUS_3                6                 39
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  14Q LOSS MUTATED        1      5      5      1
  14Q LOSS WILD-TYPE     15     15     18     17
D57V3, multiclass
        clus
vv       14Q LOSS MUTATED 14Q LOSS WILD-TYPE
  CLUS_1                1                 15
  CLUS_2                5                 15
  CLUS_3                5                 18
  CLUS_4                1                 17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  14Q LOSS MUTATED        4      1      7
  14Q LOSS WILD-TYPE     27     17     21
D57V4, multiclass
        clus
vv       14Q LOSS MUTATED 14Q LOSS WILD-TYPE
  CLUS_1                4                 27
  CLUS_2                1                 17
  CLUS_3                7                 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
  14Q LOSS MUTATED        2      7      9      2
  14Q LOSS WILD-TYPE     30     58     35     19
D57V5, multiclass
        clus
vv       14Q LOSS MUTATED 14Q LOSS WILD-TYPE
  CLUS_1                2                 30
  CLUS_2                7                 58
  CLUS_3                9                 35
  CLUS_4                2                 19
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  14Q LOSS MUTATED        6      7      5      2
  14Q LOSS WILD-TYPE     28     57     38     19
D57V6, multiclass
        clus
vv       14Q LOSS MUTATED 14Q LOSS WILD-TYPE
  CLUS_1                6                 28
  CLUS_2                7                 57
  CLUS_3                5                 38
  CLUS_4                2                 19
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  14Q LOSS MUTATED        5      8      7
  14Q LOSS WILD-TYPE     58     36     48
D57V7, multiclass
        clus
vv       14Q LOSS MUTATED 14Q LOSS WILD-TYPE
  CLUS_1                5                 58
  CLUS_2                8                 36
  CLUS_3                7                 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
  14Q LOSS MUTATED        5      5      8      2
  14Q LOSS WILD-TYPE     61     49     10     22
D57V8, multiclass
        clus
vv       14Q LOSS MUTATED 14Q LOSS WILD-TYPE
  CLUS_1                5                 61
  CLUS_2                5                 49
  CLUS_3                8                 10
  CLUS_4                2                 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 CLUS_4 CLUS_5
  14Q LOSS MUTATED        9      4      0      4      3
  14Q LOSS WILD-TYPE     24     46     16     29     26
D57V9, multiclass
        clus
vv       14Q LOSS MUTATED 14Q LOSS WILD-TYPE
  CLUS_1                9                 24
  CLUS_2                4                 46
  CLUS_3                0                 16
  CLUS_4                4                 29
  CLUS_5                3                 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
  14Q LOSS MUTATED        1      6      0      0      4      8      1
  14Q LOSS WILD-TYPE     17     35     27     15     19     10     18
D57V10, multiclass
        clus
vv       14Q LOSS MUTATED 14Q LOSS WILD-TYPE
  CLUS_1                1                 17
  CLUS_2                6                 35
  CLUS_3                0                 27
  CLUS_4                0                 15
  CLUS_5                4                 19
  CLUS_6                8                 10
  CLUS_7                1                 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"

Clustering(58) Variable = 15Q LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  15Q LOSS MUTATED        1      0      0      1      1
  15Q LOSS WILD-TYPE     36     40     10     49     24
D58V1, multiclass
        clus
vv       15Q LOSS MUTATED 15Q LOSS WILD-TYPE
  CLUS_1                1                 36
  CLUS_2                0                 40
  CLUS_3                0                 10
  CLUS_4                1                 49
  CLUS_5                1                 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
  15Q LOSS MUTATED        1      1      1
  15Q LOSS WILD-TYPE     39     76     44
D58V2, multiclass
        clus
vv       15Q LOSS MUTATED 15Q LOSS WILD-TYPE
  CLUS_1                1                 39
  CLUS_2                1                 76
  CLUS_3                1                 44
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  15Q LOSS MUTATED        1      0      1      0
  15Q LOSS WILD-TYPE     15     20     22     18
D58V3, multiclass
[1] "Remove cluster labels:" "15Q LOSS MUTATED"      
clus
  15Q LOSS MUTATED 15Q LOSS WILD-TYPE 
                 2                 75 
        TCGA-P8-A5KC         TCGA-P8-A5KD         TCGA-P8-A6RX 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-P8-A6RY         TCGA-PR-A5PF         TCGA-PR-A5PG 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-PR-A5PH         TCGA-QR-A6GO         TCGA-QR-A6GT 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-QR-A6GU         TCGA-QR-A6GZ         TCGA-QR-A6H2 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-QR-A70W         TCGA-QT-A5XJ         TCGA-QT-A5XK 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-QT-A5XL         TCGA-QT-A5XM         TCGA-QT-A5XN 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-QT-A5XO         TCGA-QT-A5XP         TCGA-QT-A69Q 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-QT-A7U0         TCGA-RM-A68T         TCGA-RM-A68W 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-RT-A6Y9         TCGA-RT-A6YA         TCGA-RT-A6YC 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-RW-A67V         TCGA-RW-A67X         TCGA-RW-A680 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-RW-A681         TCGA-RW-A685         TCGA-RW-A688 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-RW-A689         TCGA-RW-A68A         TCGA-RW-A68B 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-RW-A68C         TCGA-RW-A68D         TCGA-RW-A68F 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-RW-A68G         TCGA-RW-A8AZ         TCGA-RX-A8JQ 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-S7-A7WL         TCGA-S7-A7WM         TCGA-S7-A7WN 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-S7-A7WP         TCGA-S7-A7WQ         TCGA-S7-A7WR 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-S7-A7WU         TCGA-S7-A7WV         TCGA-S7-A7WW 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-S7-A7WX         TCGA-S7-A7X0         TCGA-S7-A7X1 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-S7-A7X2         TCGA-SA-A6C2         TCGA-SP-A6QJ 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-SR-A6MX         TCGA-SR-A6MY         TCGA-SR-A6MZ 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-TT-A6YN         TCGA-W2-A7HC         TCGA-WB-A80Q 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-WB-A814         TCGA-WB-A815         TCGA-WB-A817 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-WB-A818         TCGA-WB-A819         TCGA-WB-A81G 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-WB-A81M         TCGA-WB-A81P         TCGA-WB-A81S 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-WB-A81T         TCGA-WB-A81V         TCGA-WB-A81W 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  15Q LOSS MUTATED        0      1      1
  15Q LOSS WILD-TYPE     31     17     27
D58V4, multiclass
[1] "Remove cluster labels:" "15Q LOSS MUTATED"      
clus
  15Q LOSS MUTATED 15Q LOSS WILD-TYPE 
                 2                 75 
        TCGA-P8-A5KC         TCGA-P8-A5KD         TCGA-P8-A6RX 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-P8-A6RY         TCGA-PR-A5PF         TCGA-PR-A5PG 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-PR-A5PH         TCGA-QR-A6GO         TCGA-QR-A6GT 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-QR-A6GU         TCGA-QR-A6GZ         TCGA-QR-A6H2 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-QR-A70W         TCGA-QT-A5XJ         TCGA-QT-A5XK 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-QT-A5XL         TCGA-QT-A5XM         TCGA-QT-A5XN 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-QT-A5XO         TCGA-QT-A5XP         TCGA-QT-A69Q 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-QT-A7U0         TCGA-RM-A68T         TCGA-RM-A68W 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-RT-A6Y9         TCGA-RT-A6YA         TCGA-RT-A6YC 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-RW-A67V         TCGA-RW-A67X         TCGA-RW-A680 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-RW-A681         TCGA-RW-A685         TCGA-RW-A688 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-RW-A689         TCGA-RW-A68A         TCGA-RW-A68B 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-RW-A68C         TCGA-RW-A68D         TCGA-RW-A68F 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-RW-A68G         TCGA-RW-A8AZ         TCGA-RX-A8JQ 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-S7-A7WL         TCGA-S7-A7WM         TCGA-S7-A7WN 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-S7-A7WP         TCGA-S7-A7WQ         TCGA-S7-A7WR 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-S7-A7WU         TCGA-S7-A7WV         TCGA-S7-A7WW 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-S7-A7WX         TCGA-S7-A7X0         TCGA-S7-A7X1 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-S7-A7X2         TCGA-SA-A6C2         TCGA-SP-A6QJ 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-SR-A6MX         TCGA-SR-A6MY         TCGA-SR-A6MZ 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-TT-A6YN         TCGA-W2-A7HC         TCGA-WB-A80Q 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-WB-A814         TCGA-WB-A815         TCGA-WB-A817 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-WB-A818         TCGA-WB-A819         TCGA-WB-A81G 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-WB-A81M         TCGA-WB-A81P         TCGA-WB-A81S 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
        TCGA-WB-A81T         TCGA-WB-A81V         TCGA-WB-A81W 
"15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" "15Q LOSS WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  15Q LOSS MUTATED        1      1      1      0
  15Q LOSS WILD-TYPE     31     64     43     21
D58V5, multiclass
        clus
vv       15Q LOSS MUTATED 15Q LOSS WILD-TYPE
  CLUS_1                1                 31
  CLUS_2                1                 64
  CLUS_3                1                 43
  CLUS_4                0                 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 CLUS_4
  15Q LOSS MUTATED        0      2      1      0
  15Q LOSS WILD-TYPE     34     62     42     21
D58V6, multiclass
        clus
vv       15Q LOSS MUTATED 15Q LOSS WILD-TYPE
  CLUS_1                0                 34
  CLUS_2                2                 62
  CLUS_3                1                 42
  CLUS_4                0                 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
  15Q LOSS MUTATED        1      0      2
  15Q LOSS WILD-TYPE     62     44     53
D58V7, multiclass
        clus
vv       15Q LOSS MUTATED 15Q LOSS WILD-TYPE
  CLUS_1                1                 62
  CLUS_2                0                 44
  CLUS_3                2                 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
  15Q LOSS MUTATED        1      2      0      0
  15Q LOSS WILD-TYPE     65     52     18     24
D58V8, multiclass
        clus
vv       15Q LOSS MUTATED 15Q LOSS WILD-TYPE
  CLUS_1                1                 65
  CLUS_2                2                 52
  CLUS_3                0                 18
  CLUS_4                0                 24
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  15Q LOSS MUTATED        0      1      1      1      0
  15Q LOSS WILD-TYPE     33     49     15     32     29
D58V9, multiclass
        clus
vv       15Q LOSS MUTATED 15Q LOSS WILD-TYPE
  CLUS_1                0                 33
  CLUS_2                1                 49
  CLUS_3                1                 15
  CLUS_4                1                 32
  CLUS_5                0                 29
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  15Q LOSS MUTATED        0      1      0      1      1      0      0
  15Q LOSS WILD-TYPE     18     40     27     14     22     18     19
D58V10, multiclass
        clus
vv       15Q LOSS MUTATED 15Q LOSS WILD-TYPE
  CLUS_1                0                 18
  CLUS_2                1                 40
  CLUS_3                0                 27
  CLUS_4                1                 14
  CLUS_5                1                 22
  CLUS_6                0                 18
  CLUS_7                0                 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"

Clustering(59) Variable = 16P LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  16P LOSS MUTATED        4      2      0      3      0
  16P LOSS WILD-TYPE     33     38     10     47     25
D59V1, multiclass
        clus
vv       16P LOSS MUTATED 16P LOSS WILD-TYPE
  CLUS_1                4                 33
  CLUS_2                2                 38
  CLUS_3                0                 10
  CLUS_4                3                 47
  CLUS_5                0                 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
  16P LOSS MUTATED        4      4      1
  16P LOSS WILD-TYPE     36     73     44
D59V2, multiclass
        clus
vv       16P LOSS MUTATED 16P LOSS WILD-TYPE
  CLUS_1                4                 36
  CLUS_2                4                 73
  CLUS_3                1                 44
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  16P LOSS MUTATED        1      2      0      1
  16P LOSS WILD-TYPE     15     18     23     17
D59V3, multiclass
        clus
vv       16P LOSS MUTATED 16P LOSS WILD-TYPE
  CLUS_1                1                 15
  CLUS_2                2                 18
  CLUS_3                0                 23
  CLUS_4                1                 17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  16P LOSS MUTATED        3      0      1
  16P LOSS WILD-TYPE     28     18     27
D59V4, multiclass
        clus
vv       16P LOSS MUTATED 16P LOSS WILD-TYPE
  CLUS_1                3                 28
  CLUS_2                0                 18
  CLUS_3                1                 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
  16P LOSS MUTATED        3      3      3      0
  16P LOSS WILD-TYPE     29     62     41     21
D59V5, multiclass
        clus
vv       16P LOSS MUTATED 16P LOSS WILD-TYPE
  CLUS_1                3                 29
  CLUS_2                3                 62
  CLUS_3                3                 41
  CLUS_4                0                 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 CLUS_4
  16P LOSS MUTATED        4      3      2      0
  16P LOSS WILD-TYPE     30     61     41     21
D59V6, multiclass
        clus
vv       16P LOSS MUTATED 16P LOSS WILD-TYPE
  CLUS_1                4                 30
  CLUS_2                3                 61
  CLUS_3                2                 41
  CLUS_4                0                 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
  16P LOSS MUTATED        6      2      1
  16P LOSS WILD-TYPE     57     42     54
D59V7, multiclass
        clus
vv       16P LOSS MUTATED 16P LOSS WILD-TYPE
  CLUS_1                6                 57
  CLUS_2                2                 42
  CLUS_3                1                 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
  16P LOSS MUTATED        6      2      1      0
  16P LOSS WILD-TYPE     60     52     17     24
D59V8, multiclass
        clus
vv       16P LOSS MUTATED 16P LOSS WILD-TYPE
  CLUS_1                6                 60
  CLUS_2                2                 52
  CLUS_3                1                 17
  CLUS_4                0                 24
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  16P LOSS MUTATED        1      2      1      3      2
  16P LOSS WILD-TYPE     32     48     15     30     27
D59V9, multiclass
        clus
vv       16P LOSS MUTATED 16P LOSS WILD-TYPE
  CLUS_1                1                 32
  CLUS_2                2                 48
  CLUS_3                1                 15
  CLUS_4                3                 30
  CLUS_5                2                 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
  16P LOSS MUTATED        1      2      4      1      0      1      0
  16P LOSS WILD-TYPE     17     39     23     14     23     17     19
D59V10, multiclass
        clus
vv       16P LOSS MUTATED 16P LOSS WILD-TYPE
  CLUS_1                1                 17
  CLUS_2                2                 39
  CLUS_3                4                 23
  CLUS_4                1                 14
  CLUS_5                0                 23
  CLUS_6                1                 17
  CLUS_7                0                 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"

Clustering(60) Variable = 16Q LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  16Q LOSS MUTATED        1      2      0      2      0
  16Q LOSS WILD-TYPE     36     38     10     48     25
D60V1, multiclass
        clus
vv       16Q LOSS MUTATED 16Q LOSS WILD-TYPE
  CLUS_1                1                 36
  CLUS_2                2                 38
  CLUS_3                0                 10
  CLUS_4                2                 48
  CLUS_5                0                 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
  16Q LOSS MUTATED        1      3      1
  16Q LOSS WILD-TYPE     39     74     44
D60V2, multiclass
        clus
vv       16Q LOSS MUTATED 16Q LOSS WILD-TYPE
  CLUS_1                1                 39
  CLUS_2                3                 74
  CLUS_3                1                 44
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  16Q LOSS MUTATED        1      1      0      1
  16Q LOSS WILD-TYPE     15     19     23     17
D60V3, multiclass
        clus
vv       16Q LOSS MUTATED 16Q LOSS WILD-TYPE
  CLUS_1                1                 15
  CLUS_2                1                 19
  CLUS_3                0                 23
  CLUS_4                1                 17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  16Q LOSS MUTATED        2      0      1
  16Q LOSS WILD-TYPE     29     18     27
D60V4, multiclass
        clus
vv       16Q LOSS MUTATED 16Q LOSS WILD-TYPE
  CLUS_1                2                 29
  CLUS_2                0                 18
  CLUS_3                1                 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
  16Q LOSS MUTATED        1      1      3      0
  16Q LOSS WILD-TYPE     31     64     41     21
D60V5, multiclass
        clus
vv       16Q LOSS MUTATED 16Q LOSS WILD-TYPE
  CLUS_1                1                 31
  CLUS_2                1                 64
  CLUS_3                3                 41
  CLUS_4                0                 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 CLUS_4
  16Q LOSS MUTATED        4      1      0      0
  16Q LOSS WILD-TYPE     30     63     43     21
D60V6, multiclass
        clus
vv       16Q LOSS MUTATED 16Q LOSS WILD-TYPE
  CLUS_1                4                 30
  CLUS_2                1                 63
  CLUS_3                0                 43
  CLUS_4                0                 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
  16Q LOSS MUTATED        3      2      0
  16Q LOSS WILD-TYPE     60     42     55
D60V7, multiclass
        clus
vv       16Q LOSS MUTATED 16Q LOSS WILD-TYPE
  CLUS_1                3                 60
  CLUS_2                2                 42
  CLUS_3                0                 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
  16Q LOSS MUTATED        3      1      1      0
  16Q LOSS WILD-TYPE     63     53     17     24
D60V8, multiclass
        clus
vv       16Q LOSS MUTATED 16Q LOSS WILD-TYPE
  CLUS_1                3                 63
  CLUS_2                1                 53
  CLUS_3                1                 17
  CLUS_4                0                 24
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  16Q LOSS MUTATED        1      0      1      2      1
  16Q LOSS WILD-TYPE     32     50     15     31     28
D60V9, multiclass
        clus
vv       16Q LOSS MUTATED 16Q LOSS WILD-TYPE
  CLUS_1                1                 32
  CLUS_2                0                 50
  CLUS_3                1                 15
  CLUS_4                2                 31
  CLUS_5                1                 28
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  16Q LOSS MUTATED        1      1      2      0      0      1      0
  16Q LOSS WILD-TYPE     17     40     25     15     23     17     19
D60V10, multiclass
        clus
vv       16Q LOSS MUTATED 16Q LOSS WILD-TYPE
  CLUS_1                1                 17
  CLUS_2                1                 40
  CLUS_3                2                 25
  CLUS_4                0                 15
  CLUS_5                0                 23
  CLUS_6                1                 17
  CLUS_7                0                 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"

Clustering(61) Variable = 17P LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  17P LOSS MUTATED       12     12      8     26      4
  17P LOSS WILD-TYPE     25     28      2     24     21
D61V1, multiclass
        clus
vv       17P LOSS MUTATED 17P LOSS WILD-TYPE
  CLUS_1               12                 25
  CLUS_2               12                 28
  CLUS_3                8                  2
  CLUS_4               26                 24
  CLUS_5                4                 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        9     40     13
  17P LOSS WILD-TYPE     31     37     32
D61V2, multiclass
        clus
vv       17P LOSS MUTATED 17P LOSS WILD-TYPE
  CLUS_1                9                 31
  CLUS_2               40                 37
  CLUS_3               13                 32
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  17P LOSS MUTATED       10      9      9      6
  17P LOSS WILD-TYPE      6     11     14     12
D61V3, multiclass
        clus
vv       17P LOSS MUTATED 17P LOSS WILD-TYPE
  CLUS_1               10                  6
  CLUS_2                9                 11
  CLUS_3                9                 14
  CLUS_4                6                 12
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  17P LOSS MUTATED       10     11     13
  17P LOSS WILD-TYPE     21      7     15
D61V4, multiclass
        clus
vv       17P LOSS MUTATED 17P LOSS WILD-TYPE
  CLUS_1               10                 21
  CLUS_2               11                  7
  CLUS_3               13                 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
  17P LOSS MUTATED        9     34     14      5
  17P LOSS WILD-TYPE     23     31     30     16
D61V5, multiclass
        clus
vv       17P LOSS MUTATED 17P LOSS WILD-TYPE
  CLUS_1                9                 23
  CLUS_2               34                 31
  CLUS_3               14                 30
  CLUS_4                5                 16
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  17P LOSS MUTATED       10     34     13      5
  17P LOSS WILD-TYPE     24     30     30     16
D61V6, multiclass
        clus
vv       17P LOSS MUTATED 17P LOSS WILD-TYPE
  CLUS_1               10                 24
  CLUS_2               34                 30
  CLUS_3               13                 30
  CLUS_4                5                 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
  17P LOSS MUTATED       20     13     29
  17P LOSS WILD-TYPE     43     31     26
D61V7, multiclass
        clus
vv       17P LOSS MUTATED 17P LOSS WILD-TYPE
  CLUS_1               20                 43
  CLUS_2               13                 31
  CLUS_3               29                 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
  17P LOSS MUTATED       18     29      8      7
  17P LOSS WILD-TYPE     48     25     10     17
D61V8, multiclass
        clus
vv       17P LOSS MUTATED 17P LOSS WILD-TYPE
  CLUS_1               18                 48
  CLUS_2               29                 25
  CLUS_3                8                 10
  CLUS_4                7                 17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  17P LOSS MUTATED       11     24      9     11      7
  17P LOSS WILD-TYPE     22     26      7     22     22
D61V9, multiclass
        clus
vv       17P LOSS MUTATED 17P LOSS WILD-TYPE
  CLUS_1               11                 22
  CLUS_2               24                 26
  CLUS_3                9                  7
  CLUS_4               11                 22
  CLUS_5                7                 22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will 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        8     20      4      9      8      8      5
  17P LOSS WILD-TYPE     10     21     23      6     15     10     14
D61V10, multiclass
        clus
vv       17P LOSS MUTATED 17P LOSS WILD-TYPE
  CLUS_1                8                 10
  CLUS_2               20                 21
  CLUS_3                4                 23
  CLUS_4                9                  6
  CLUS_5                8                 15
  CLUS_6                8                 10
  CLUS_7                5                 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"

Clustering(62) Variable = 17Q LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  17Q LOSS MUTATED        1      3      1      9      1
  17Q LOSS WILD-TYPE     36     37      9     41     24
D62V1, multiclass
        clus
vv       17Q LOSS MUTATED 17Q LOSS WILD-TYPE
  CLUS_1                1                 36
  CLUS_2                3                 37
  CLUS_3                1                  9
  CLUS_4                9                 41
  CLUS_5                1                 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
  17Q LOSS MUTATED        1      7      7
  17Q LOSS WILD-TYPE     39     70     38
D62V2, multiclass
        clus
vv       17Q LOSS MUTATED 17Q LOSS WILD-TYPE
  CLUS_1                1                 39
  CLUS_2                7                 70
  CLUS_3                7                 38
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  17Q LOSS MUTATED        1      4      3      0
  17Q LOSS WILD-TYPE     15     16     20     18
D62V3, multiclass
        clus
vv       17Q LOSS MUTATED 17Q LOSS WILD-TYPE
  CLUS_1                1                 15
  CLUS_2                4                 16
  CLUS_3                3                 20
  CLUS_4                0                 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
  17Q LOSS MUTATED        1      1      6
  17Q LOSS WILD-TYPE     30     17     22
D62V4, multiclass
        clus
vv       17Q LOSS MUTATED 17Q LOSS WILD-TYPE
  CLUS_1                1                 30
  CLUS_2                1                 17
  CLUS_3                6                 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
  17Q LOSS MUTATED        3      5      7      0
  17Q LOSS WILD-TYPE     29     60     37     21
D62V5, multiclass
        clus
vv       17Q LOSS MUTATED 17Q LOSS WILD-TYPE
  CLUS_1                3                 29
  CLUS_2                5                 60
  CLUS_3                7                 37
  CLUS_4                0                 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 CLUS_4
  17Q LOSS MUTATED        3      7      5      0
  17Q LOSS WILD-TYPE     31     57     38     21
D62V6, multiclass
        clus
vv       17Q LOSS MUTATED 17Q LOSS WILD-TYPE
  CLUS_1                3                 31
  CLUS_2                7                 57
  CLUS_3                5                 38
  CLUS_4                0                 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
  17Q LOSS MUTATED        7      3      5
  17Q LOSS WILD-TYPE     56     41     50
D62V7, multiclass
        clus
vv       17Q LOSS MUTATED 17Q LOSS WILD-TYPE
  CLUS_1                7                 56
  CLUS_2                3                 41
  CLUS_3                5                 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
  17Q LOSS MUTATED        7      6      2      0
  17Q LOSS WILD-TYPE     59     48     16     24
D62V8, multiclass
        clus
vv       17Q LOSS MUTATED 17Q LOSS WILD-TYPE
  CLUS_1                7                 59
  CLUS_2                6                 48
  CLUS_3                2                 16
  CLUS_4                0                 24
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  17Q LOSS MUTATED        3      4      1      6      1
  17Q LOSS WILD-TYPE     30     46     15     27     28
D62V9, multiclass
        clus
vv       17Q LOSS MUTATED 17Q LOSS WILD-TYPE
  CLUS_1                3                 30
  CLUS_2                4                 46
  CLUS_3                1                 15
  CLUS_4                6                 27
  CLUS_5                1                 28
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  17Q LOSS MUTATED        2      5      1      0      5      2      0
  17Q LOSS WILD-TYPE     16     36     26     15     18     16     19
D62V10, multiclass
        clus
vv       17Q LOSS MUTATED 17Q LOSS WILD-TYPE
  CLUS_1                2                 16
  CLUS_2                5                 36
  CLUS_3                1                 26
  CLUS_4                0                 15
  CLUS_5                5                 18
  CLUS_6                2                 16
  CLUS_7                0                 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"

Clustering(63) Variable = 18P LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  18P LOSS MUTATED        0      5      3      5      3
  18P LOSS WILD-TYPE     37     35      7     45     22
D63V1, multiclass
        clus
vv       18P LOSS MUTATED 18P LOSS WILD-TYPE
  CLUS_1                0                 37
  CLUS_2                5                 35
  CLUS_3                3                  7
  CLUS_4                5                 45
  CLUS_5                3                 22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  18P LOSS MUTATED        4      9      3
  18P LOSS WILD-TYPE     36     68     42
D63V2, multiclass
        clus
vv       18P LOSS MUTATED 18P LOSS WILD-TYPE
  CLUS_1                4                 36
  CLUS_2                9                 68
  CLUS_3                3                 42
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  18P LOSS MUTATED        2      1      3      1
  18P LOSS WILD-TYPE     14     19     20     17
D63V3, multiclass
        clus
vv       18P LOSS MUTATED 18P LOSS WILD-TYPE
  CLUS_1                2                 14
  CLUS_2                1                 19
  CLUS_3                3                 20
  CLUS_4                1                 17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  18P LOSS MUTATED        1      3      3
  18P LOSS WILD-TYPE     30     15     25
D63V4, multiclass
        clus
vv       18P LOSS MUTATED 18P LOSS WILD-TYPE
  CLUS_1                1                 30
  CLUS_2                3                 15
  CLUS_3                3                 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
  18P LOSS MUTATED        4      6      5      1
  18P LOSS WILD-TYPE     28     59     39     20
D63V5, multiclass
        clus
vv       18P LOSS MUTATED 18P LOSS WILD-TYPE
  CLUS_1                4                 28
  CLUS_2                6                 59
  CLUS_3                5                 39
  CLUS_4                1                 20
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  18P LOSS MUTATED        3      6      6      1
  18P LOSS WILD-TYPE     31     58     37     20
D63V6, multiclass
        clus
vv       18P LOSS MUTATED 18P LOSS WILD-TYPE
  CLUS_1                3                 31
  CLUS_2                6                 58
  CLUS_3                6                 37
  CLUS_4                1                 20
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  18P LOSS MUTATED        7      3      6
  18P LOSS WILD-TYPE     56     41     49
D63V7, multiclass
        clus
vv       18P LOSS MUTATED 18P LOSS WILD-TYPE
  CLUS_1                7                 56
  CLUS_2                3                 41
  CLUS_3                6                 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
  18P LOSS MUTATED        7      7      2      0
  18P LOSS WILD-TYPE     59     47     16     24
D63V8, multiclass
        clus
vv       18P LOSS MUTATED 18P LOSS WILD-TYPE
  CLUS_1                7                 59
  CLUS_2                7                 47
  CLUS_3                2                 16
  CLUS_4                0                 24
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  18P LOSS MUTATED        2      4      3      5      2
  18P LOSS WILD-TYPE     31     46     13     28     27
D63V9, multiclass
        clus
vv       18P LOSS MUTATED 18P LOSS WILD-TYPE
  CLUS_1                2                 31
  CLUS_2                4                 46
  CLUS_3                3                 13
  CLUS_4                5                 28
  CLUS_5                2                 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
  18P LOSS MUTATED        2      3      3      3      3      2      0
  18P LOSS WILD-TYPE     16     38     24     12     20     16     19
D63V10, multiclass
        clus
vv       18P LOSS MUTATED 18P LOSS WILD-TYPE
  CLUS_1                2                 16
  CLUS_2                3                 38
  CLUS_3                3                 24
  CLUS_4                3                 12
  CLUS_5                3                 20
  CLUS_6                2                 16
  CLUS_7                0                 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"

Clustering(64) Variable = 18Q LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  18Q LOSS MUTATED        0      2      0      2      2
  18Q LOSS WILD-TYPE     37     38     10     48     23
D64V1, multiclass
        clus
vv       18Q LOSS MUTATED 18Q LOSS WILD-TYPE
  CLUS_1                0                 37
  CLUS_2                2                 38
  CLUS_3                0                 10
  CLUS_4                2                 48
  CLUS_5                2                 23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  18Q LOSS MUTATED        2      3      1
  18Q LOSS WILD-TYPE     38     74     44
D64V2, multiclass
        clus
vv       18Q LOSS MUTATED 18Q LOSS WILD-TYPE
  CLUS_1                2                 38
  CLUS_2                3                 74
  CLUS_3                1                 44
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  18Q LOSS MUTATED        0      0      2      1
  18Q LOSS WILD-TYPE     16     20     21     17
D64V3, multiclass
        clus
vv       18Q LOSS MUTATED 18Q LOSS WILD-TYPE
  CLUS_1                0                 16
  CLUS_2                0                 20
  CLUS_3                2                 21
  CLUS_4                1                 17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  18Q LOSS MUTATED        0      0      3
  18Q LOSS WILD-TYPE     31     18     25
D64V4, multiclass
        clus
vv       18Q LOSS MUTATED 18Q LOSS WILD-TYPE
  CLUS_1                0                 31
  CLUS_2                0                 18
  CLUS_3                3                 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
  18Q LOSS MUTATED        2      1      2      1
  18Q LOSS WILD-TYPE     30     64     42     20
D64V5, multiclass
        clus
vv       18Q LOSS MUTATED 18Q LOSS WILD-TYPE
  CLUS_1                2                 30
  CLUS_2                1                 64
  CLUS_3                2                 42
  CLUS_4                1                 20
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  18Q LOSS MUTATED        1      2      3      0
  18Q LOSS WILD-TYPE     33     62     40     21
D64V6, multiclass
        clus
vv       18Q LOSS MUTATED 18Q LOSS WILD-TYPE
  CLUS_1                1                 33
  CLUS_2                2                 62
  CLUS_3                3                 40
  CLUS_4                0                 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
  18Q LOSS MUTATED        4      1      1
  18Q LOSS WILD-TYPE     59     43     54
D64V7, multiclass
        clus
vv       18Q LOSS MUTATED 18Q LOSS WILD-TYPE
  CLUS_1                4                 59
  CLUS_2                1                 43
  CLUS_3                1                 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 LOSS MUTATED        4      1      0      1
  18Q LOSS WILD-TYPE     62     53     18     23
D64V8, multiclass
        clus
vv       18Q LOSS MUTATED 18Q LOSS WILD-TYPE
  CLUS_1                4                 62
  CLUS_2                1                 53
  CLUS_3                0                 18
  CLUS_4                1                 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 CLUS_4 CLUS_5
  18Q LOSS MUTATED        0      2      0      3      1
  18Q LOSS WILD-TYPE     33     48     16     30     28
D64V9, multiclass
        clus
vv       18Q LOSS MUTATED 18Q LOSS WILD-TYPE
  CLUS_1                0                 33
  CLUS_2                2                 48
  CLUS_3                0                 16
  CLUS_4                3                 30
  CLUS_5                1                 28
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  18Q LOSS MUTATED        2      1      1      0      1      0      1
  18Q LOSS WILD-TYPE     16     40     26     15     22     18     18
D64V10, multiclass
        clus
vv       18Q LOSS MUTATED 18Q LOSS WILD-TYPE
  CLUS_1                2                 16
  CLUS_2                1                 40
  CLUS_3                1                 26
  CLUS_4                0                 15
  CLUS_5                1                 22
  CLUS_6                0                 18
  CLUS_7                1                 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"

Clustering(65) Variable = 19Q LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  19Q LOSS MUTATED        1      1      0      3      0
  19Q LOSS WILD-TYPE     36     39     10     47     25
D65V1, multiclass
        clus
vv       19Q LOSS MUTATED 19Q LOSS WILD-TYPE
  CLUS_1                1                 36
  CLUS_2                1                 39
  CLUS_3                0                 10
  CLUS_4                3                 47
  CLUS_5                0                 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
  19Q LOSS MUTATED        1      2      2
  19Q LOSS WILD-TYPE     39     75     43
D65V2, multiclass
        clus
vv       19Q LOSS MUTATED 19Q LOSS WILD-TYPE
  CLUS_1                1                 39
  CLUS_2                2                 75
  CLUS_3                2                 43
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  19Q LOSS MUTATED        1      1      0      0
  19Q LOSS WILD-TYPE     15     19     23     18
D65V3, multiclass
[1] "Remove cluster labels:" "19Q LOSS MUTATED"      
clus
  19Q LOSS MUTATED 19Q LOSS WILD-TYPE 
                 2                 75 
        TCGA-P8-A5KC         TCGA-P8-A5KD         TCGA-P8-A6RX 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-P8-A6RY         TCGA-PR-A5PF         TCGA-PR-A5PG 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-PR-A5PH         TCGA-QR-A6GO         TCGA-QR-A6GT 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-QR-A6GU         TCGA-QR-A6GZ         TCGA-QR-A6H2 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-QR-A70W         TCGA-QT-A5XJ         TCGA-QT-A5XK 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-QT-A5XL         TCGA-QT-A5XM         TCGA-QT-A5XN 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-QT-A5XO         TCGA-QT-A5XP         TCGA-QT-A69Q 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-QT-A7U0         TCGA-RM-A68T         TCGA-RM-A68W 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-RT-A6Y9         TCGA-RT-A6YA         TCGA-RT-A6YC 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-RW-A67V         TCGA-RW-A67X         TCGA-RW-A680 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-RW-A681         TCGA-RW-A685         TCGA-RW-A688 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-RW-A689         TCGA-RW-A68A         TCGA-RW-A68B 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-RW-A68C         TCGA-RW-A68D         TCGA-RW-A68F 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-RW-A68G         TCGA-RW-A8AZ         TCGA-RX-A8JQ 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-S7-A7WL         TCGA-S7-A7WM         TCGA-S7-A7WN 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-S7-A7WP         TCGA-S7-A7WQ         TCGA-S7-A7WR 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-S7-A7WU         TCGA-S7-A7WV         TCGA-S7-A7WW 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-S7-A7WX         TCGA-S7-A7X0         TCGA-S7-A7X1 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-S7-A7X2         TCGA-SA-A6C2         TCGA-SP-A6QJ 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-SR-A6MX         TCGA-SR-A6MY         TCGA-SR-A6MZ 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-TT-A6YN         TCGA-W2-A7HC         TCGA-W2-A7HF 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-WB-A80Q         TCGA-WB-A814         TCGA-WB-A815 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-WB-A817         TCGA-WB-A818         TCGA-WB-A819 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-WB-A81G         TCGA-WB-A81M         TCGA-WB-A81P 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-WB-A81T         TCGA-WB-A81V         TCGA-WB-A81W 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  19Q LOSS MUTATED        1      1      0
  19Q LOSS WILD-TYPE     30     17     28
D65V4, multiclass
[1] "Remove cluster labels:" "19Q LOSS MUTATED"      
clus
  19Q LOSS MUTATED 19Q LOSS WILD-TYPE 
                 2                 75 
        TCGA-P8-A5KC         TCGA-P8-A5KD         TCGA-P8-A6RX 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-P8-A6RY         TCGA-PR-A5PF         TCGA-PR-A5PG 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-PR-A5PH         TCGA-QR-A6GO         TCGA-QR-A6GT 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-QR-A6GU         TCGA-QR-A6GZ         TCGA-QR-A6H2 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-QR-A70W         TCGA-QT-A5XJ         TCGA-QT-A5XK 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-QT-A5XL         TCGA-QT-A5XM         TCGA-QT-A5XN 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-QT-A5XO         TCGA-QT-A5XP         TCGA-QT-A69Q 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-QT-A7U0         TCGA-RM-A68T         TCGA-RM-A68W 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-RT-A6Y9         TCGA-RT-A6YA         TCGA-RT-A6YC 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-RW-A67V         TCGA-RW-A67X         TCGA-RW-A680 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-RW-A681         TCGA-RW-A685         TCGA-RW-A688 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-RW-A689         TCGA-RW-A68A         TCGA-RW-A68B 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-RW-A68C         TCGA-RW-A68D         TCGA-RW-A68F 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-RW-A68G         TCGA-RW-A8AZ         TCGA-RX-A8JQ 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-S7-A7WL         TCGA-S7-A7WM         TCGA-S7-A7WN 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-S7-A7WP         TCGA-S7-A7WQ         TCGA-S7-A7WR 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-S7-A7WU         TCGA-S7-A7WV         TCGA-S7-A7WW 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-S7-A7WX         TCGA-S7-A7X0         TCGA-S7-A7X1 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-S7-A7X2         TCGA-SA-A6C2         TCGA-SP-A6QJ 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-SR-A6MX         TCGA-SR-A6MY         TCGA-SR-A6MZ 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-TT-A6YN         TCGA-W2-A7HC         TCGA-W2-A7HF 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-WB-A80Q         TCGA-WB-A814         TCGA-WB-A815 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-WB-A817         TCGA-WB-A818         TCGA-WB-A819 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-WB-A81G         TCGA-WB-A81M         TCGA-WB-A81P 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-WB-A81T         TCGA-WB-A81V         TCGA-WB-A81W 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  19Q LOSS MUTATED        1      2      2      0
  19Q LOSS WILD-TYPE     31     63     42     21
D65V5, multiclass
        clus
vv       19Q LOSS MUTATED 19Q LOSS WILD-TYPE
  CLUS_1                1                 31
  CLUS_2                2                 63
  CLUS_3                2                 42
  CLUS_4                0                 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 CLUS_4
  19Q LOSS MUTATED        1      2      2      0
  19Q LOSS WILD-TYPE     33     62     41     21
D65V6, multiclass
        clus
vv       19Q LOSS MUTATED 19Q LOSS WILD-TYPE
  CLUS_1                1                 33
  CLUS_2                2                 62
  CLUS_3                2                 41
  CLUS_4                0                 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
  19Q LOSS MUTATED        1      3      1
  19Q LOSS WILD-TYPE     62     41     54
D65V7, multiclass
        clus
vv       19Q LOSS MUTATED 19Q LOSS WILD-TYPE
  CLUS_1                1                 62
  CLUS_2                3                 41
  CLUS_3                1                 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
  19Q LOSS MUTATED        2      2      1      0
  19Q LOSS WILD-TYPE     64     52     17     24
D65V8, multiclass
        clus
vv       19Q LOSS MUTATED 19Q LOSS WILD-TYPE
  CLUS_1                2                 64
  CLUS_2                2                 52
  CLUS_3                1                 17
  CLUS_4                0                 24
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  19Q LOSS MUTATED        1      0      1      0      3
  19Q LOSS WILD-TYPE     32     50     15     33     26
D65V9, multiclass
        clus
vv       19Q LOSS MUTATED 19Q LOSS WILD-TYPE
  CLUS_1                1                 32
  CLUS_2                0                 50
  CLUS_3                1                 15
  CLUS_4                0                 33
  CLUS_5                3                 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
  19Q LOSS MUTATED        0      1      1      1      1      1      0
  19Q LOSS WILD-TYPE     18     40     26     14     22     17     19
D65V10, multiclass
        clus
vv       19Q LOSS MUTATED 19Q LOSS WILD-TYPE
  CLUS_1                0                 18
  CLUS_2                1                 40
  CLUS_3                1                 26
  CLUS_4                1                 14
  CLUS_5                1                 22
  CLUS_6                1                 17
  CLUS_7                0                 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"

Clustering(66) Variable = 20Q LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  20Q LOSS MUTATED        0      1      1      1      0
  20Q LOSS WILD-TYPE     37     39      9     49     25
D66V1, multiclass
        clus
vv       20Q LOSS MUTATED 20Q LOSS WILD-TYPE
  CLUS_1                0                 37
  CLUS_2                1                 39
  CLUS_3                1                  9
  CLUS_4                1                 49
  CLUS_5                0                 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
  20Q LOSS MUTATED        1      1      1
  20Q LOSS WILD-TYPE     39     76     44
D66V2, multiclass
        clus
vv       20Q LOSS MUTATED 20Q LOSS WILD-TYPE
  CLUS_1                1                 39
  CLUS_2                1                 76
  CLUS_3                1                 44
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  20Q LOSS MUTATED        1      1      0      0
  20Q LOSS WILD-TYPE     15     19     23     18
D66V3, multiclass
[1] "Remove cluster labels:" "20Q LOSS MUTATED"      
clus
  20Q LOSS MUTATED 20Q LOSS WILD-TYPE 
                 2                 75 
        TCGA-P8-A5KC         TCGA-P8-A5KD         TCGA-P8-A6RX 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-P8-A6RY         TCGA-PR-A5PF         TCGA-PR-A5PG 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-PR-A5PH         TCGA-QR-A6GO         TCGA-QR-A6GT 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-QR-A6GU         TCGA-QR-A6GZ         TCGA-QR-A6H2 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-QR-A70W         TCGA-QT-A5XJ         TCGA-QT-A5XK 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-QT-A5XL         TCGA-QT-A5XM         TCGA-QT-A5XN 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-QT-A5XO         TCGA-QT-A5XP         TCGA-QT-A69Q 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-QT-A7U0         TCGA-RM-A68T         TCGA-RT-A6Y9 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-RT-A6YA         TCGA-RT-A6YC         TCGA-RW-A67V 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-RW-A67X         TCGA-RW-A680         TCGA-RW-A681 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-RW-A685         TCGA-RW-A688         TCGA-RW-A689 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-RW-A68A         TCGA-RW-A68B         TCGA-RW-A68C 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-RW-A68D         TCGA-RW-A68F         TCGA-RW-A68G 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-RW-A8AZ         TCGA-RX-A8JQ         TCGA-S7-A7WL 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-S7-A7WM         TCGA-S7-A7WN         TCGA-S7-A7WP 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-S7-A7WQ         TCGA-S7-A7WR         TCGA-S7-A7WU 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-S7-A7WV         TCGA-S7-A7WW         TCGA-S7-A7WX 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-S7-A7X0         TCGA-S7-A7X1         TCGA-S7-A7X2 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-SA-A6C2         TCGA-SP-A6QJ         TCGA-SR-A6MQ 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-SR-A6MX         TCGA-SR-A6MY         TCGA-SR-A6MZ 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-TT-A6YN         TCGA-W2-A7HF         TCGA-WB-A80Q 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-WB-A814         TCGA-WB-A815         TCGA-WB-A817 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-WB-A818         TCGA-WB-A819         TCGA-WB-A81G 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-WB-A81M         TCGA-WB-A81P         TCGA-WB-A81S 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-WB-A81T         TCGA-WB-A81V         TCGA-WB-A81W 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  20Q LOSS MUTATED        1      1      0
  20Q LOSS WILD-TYPE     30     17     28
D66V4, multiclass
[1] "Remove cluster labels:" "20Q LOSS MUTATED"      
clus
  20Q LOSS MUTATED 20Q LOSS WILD-TYPE 
                 2                 75 
        TCGA-P8-A5KC         TCGA-P8-A5KD         TCGA-P8-A6RX 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-P8-A6RY         TCGA-PR-A5PF         TCGA-PR-A5PG 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-PR-A5PH         TCGA-QR-A6GO         TCGA-QR-A6GT 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-QR-A6GU         TCGA-QR-A6GZ         TCGA-QR-A6H2 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-QR-A70W         TCGA-QT-A5XJ         TCGA-QT-A5XK 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-QT-A5XL         TCGA-QT-A5XM         TCGA-QT-A5XN 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-QT-A5XO         TCGA-QT-A5XP         TCGA-QT-A69Q 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-QT-A7U0         TCGA-RM-A68T         TCGA-RT-A6Y9 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-RT-A6YA         TCGA-RT-A6YC         TCGA-RW-A67V 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-RW-A67X         TCGA-RW-A680         TCGA-RW-A681 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-RW-A685         TCGA-RW-A688         TCGA-RW-A689 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-RW-A68A         TCGA-RW-A68B         TCGA-RW-A68C 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-RW-A68D         TCGA-RW-A68F         TCGA-RW-A68G 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-RW-A8AZ         TCGA-RX-A8JQ         TCGA-S7-A7WL 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-S7-A7WM         TCGA-S7-A7WN         TCGA-S7-A7WP 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-S7-A7WQ         TCGA-S7-A7WR         TCGA-S7-A7WU 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-S7-A7WV         TCGA-S7-A7WW         TCGA-S7-A7WX 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-S7-A7X0         TCGA-S7-A7X1         TCGA-S7-A7X2 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-SA-A6C2         TCGA-SP-A6QJ         TCGA-SR-A6MQ 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-SR-A6MX         TCGA-SR-A6MY         TCGA-SR-A6MZ 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-TT-A6YN         TCGA-W2-A7HF         TCGA-WB-A80Q 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-WB-A814         TCGA-WB-A815         TCGA-WB-A817 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-WB-A818         TCGA-WB-A819         TCGA-WB-A81G 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-WB-A81M         TCGA-WB-A81P         TCGA-WB-A81S 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-WB-A81T         TCGA-WB-A81V         TCGA-WB-A81W 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  20Q LOSS MUTATED        1      1      1      0
  20Q LOSS WILD-TYPE     31     64     43     21
D66V5, multiclass
        clus
vv       20Q LOSS MUTATED 20Q LOSS WILD-TYPE
  CLUS_1                1                 31
  CLUS_2                1                 64
  CLUS_3                1                 43
  CLUS_4                0                 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 CLUS_4
  20Q LOSS MUTATED        0      1      2      0
  20Q LOSS WILD-TYPE     34     63     41     21
D66V6, multiclass
        clus
vv       20Q LOSS MUTATED 20Q LOSS WILD-TYPE
  CLUS_1                0                 34
  CLUS_2                1                 63
  CLUS_3                2                 41
  CLUS_4                0                 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
  20Q LOSS MUTATED        2      0      1
  20Q LOSS WILD-TYPE     61     44     54
D66V7, multiclass
        clus
vv       20Q LOSS MUTATED 20Q LOSS WILD-TYPE
  CLUS_1                2                 61
  CLUS_2                0                 44
  CLUS_3                1                 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
  20Q LOSS MUTATED        2      1      0      0
  20Q LOSS WILD-TYPE     64     53     18     24
D66V8, multiclass
        clus
vv       20Q LOSS MUTATED 20Q LOSS WILD-TYPE
  CLUS_1                2                 64
  CLUS_2                1                 53
  CLUS_3                0                 18
  CLUS_4                0                 24
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  20Q LOSS MUTATED        0      0      1      1      1
  20Q LOSS WILD-TYPE     33     50     15     32     28
D66V9, multiclass
        clus
vv       20Q LOSS MUTATED 20Q LOSS WILD-TYPE
  CLUS_1                0                 33
  CLUS_2                0                 50
  CLUS_3                1                 15
  CLUS_4                1                 32
  CLUS_5                1                 28
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  20Q LOSS MUTATED        0      0      1      1      1      0      0
  20Q LOSS WILD-TYPE     18     41     26     14     22     18     19
D66V10, multiclass
        clus
vv       20Q LOSS MUTATED 20Q LOSS WILD-TYPE
  CLUS_1                0                 18
  CLUS_2                0                 41
  CLUS_3                1                 26
  CLUS_4                1                 14
  CLUS_5                1                 22
  CLUS_6                0                 18
  CLUS_7                0                 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"

Clustering(67) Variable = 21Q LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  21Q LOSS MUTATED       12      6      0     12      6
  21Q LOSS WILD-TYPE     25     34     10     38     19
D67V1, multiclass
        clus
vv       21Q LOSS MUTATED 21Q LOSS WILD-TYPE
  CLUS_1               12                 25
  CLUS_2                6                 34
  CLUS_3                0                 10
  CLUS_4               12                 38
  CLUS_5                6                 19
[1] 5 2
[1] TRUE
[1] "dimension of contingency table 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        3     19     14
  21Q LOSS WILD-TYPE     37     58     31
D67V2, multiclass
        clus
vv       21Q LOSS MUTATED 21Q LOSS WILD-TYPE
  CLUS_1                3                 37
  CLUS_2               19                 58
  CLUS_3               14                 31
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  21Q LOSS MUTATED        3      5      5      3
  21Q LOSS WILD-TYPE     13     15     18     15
D67V3, multiclass
        clus
vv       21Q LOSS MUTATED 21Q LOSS WILD-TYPE
  CLUS_1                3                 13
  CLUS_2                5                 15
  CLUS_3                5                 18
  CLUS_4                3                 15
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  21Q LOSS MUTATED        5      3      8
  21Q LOSS WILD-TYPE     26     15     20
D67V4, multiclass
        clus
vv       21Q LOSS MUTATED 21Q LOSS WILD-TYPE
  CLUS_1                5                 26
  CLUS_2                3                 15
  CLUS_3                8                 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
  21Q LOSS MUTATED        2     15     14      5
  21Q LOSS WILD-TYPE     30     50     30     16
D67V5, multiclass
        clus
vv       21Q LOSS MUTATED 21Q LOSS WILD-TYPE
  CLUS_1                2                 30
  CLUS_2               15                 50
  CLUS_3               14                 30
  CLUS_4                5                 16
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  21Q LOSS MUTATED        8     15      8      5
  21Q LOSS WILD-TYPE     26     49     35     16
D67V6, multiclass
        clus
vv       21Q LOSS MUTATED 21Q LOSS WILD-TYPE
  CLUS_1                8                 26
  CLUS_2               15                 49
  CLUS_3                8                 35
  CLUS_4                5                 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
  21Q LOSS MUTATED       14     11     11
  21Q LOSS WILD-TYPE     49     33     44
D67V7, multiclass
        clus
vv       21Q LOSS MUTATED 21Q LOSS WILD-TYPE
  CLUS_1               14                 49
  CLUS_2               11                 33
  CLUS_3               11                 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
  21Q LOSS MUTATED       13     11      6      6
  21Q LOSS WILD-TYPE     53     43     12     18
D67V8, multiclass
        clus
vv       21Q LOSS MUTATED 21Q LOSS WILD-TYPE
  CLUS_1               13                 53
  CLUS_2               11                 43
  CLUS_3                6                 12
  CLUS_4                6                 18
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  21Q LOSS MUTATED        6     12      3      9      6
  21Q LOSS WILD-TYPE     27     38     13     24     23
D67V9, multiclass
        clus
vv       21Q LOSS MUTATED 21Q LOSS WILD-TYPE
  CLUS_1                6                 27
  CLUS_2               12                 38
  CLUS_3                3                 13
  CLUS_4                9                 24
  CLUS_5                6                 23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  21Q LOSS MUTATED        2      8      3      4      8      6      5
  21Q LOSS WILD-TYPE     16     33     24     11     15     12     14
D67V10, multiclass
        clus
vv       21Q LOSS MUTATED 21Q LOSS WILD-TYPE
  CLUS_1                2                 16
  CLUS_2                8                 33
  CLUS_3                3                 24
  CLUS_4                4                 11
  CLUS_5                8                 15
  CLUS_6                6                 12
  CLUS_7                5                 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"

Clustering(68) Variable = 22Q LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  22Q LOSS MUTATED       15      4      9     27      3
  22Q LOSS WILD-TYPE     22     36      1     23     22
D68V1, multiclass
        clus
vv       22Q LOSS MUTATED 22Q LOSS WILD-TYPE
  CLUS_1               15                 22
  CLUS_2                4                 36
  CLUS_3                9                  1
  CLUS_4               27                 23
  CLUS_5                3                 22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table 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     36     13
  22Q LOSS WILD-TYPE     31     41     32
D68V2, multiclass
        clus
vv       22Q LOSS MUTATED 22Q LOSS WILD-TYPE
  CLUS_1                9                 31
  CLUS_2               36                 41
  CLUS_3               13                 32
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  22Q LOSS MUTATED        5      6     10      4
  22Q LOSS WILD-TYPE     11     14     13     14
D68V3, multiclass
        clus
vv       22Q LOSS MUTATED 22Q LOSS WILD-TYPE
  CLUS_1                5                 11
  CLUS_2                6                 14
  CLUS_3               10                 13
  CLUS_4                4                 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
  22Q LOSS MUTATED        6      9     10
  22Q LOSS WILD-TYPE     25      9     18
D68V4, multiclass
        clus
vv       22Q LOSS MUTATED 22Q LOSS WILD-TYPE
  CLUS_1                6                 25
  CLUS_2                9                  9
  CLUS_3               10                 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
  22Q LOSS MUTATED        8     32     10      8
  22Q LOSS WILD-TYPE     24     33     34     13
D68V5, multiclass
        clus
vv       22Q LOSS MUTATED 22Q LOSS WILD-TYPE
  CLUS_1                8                 24
  CLUS_2               32                 33
  CLUS_3               10                 34
  CLUS_4                8                 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
  22Q LOSS MUTATED       11     33      7      7
  22Q LOSS WILD-TYPE     23     31     36     14
D68V6, multiclass
        clus
vv       22Q LOSS MUTATED 22Q LOSS WILD-TYPE
  CLUS_1               11                 23
  CLUS_2               33                 31
  CLUS_3                7                 36
  CLUS_4                7                 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
  22Q LOSS MUTATED       15     18     25
  22Q LOSS WILD-TYPE     48     26     30
D68V7, multiclass
        clus
vv       22Q LOSS MUTATED 22Q LOSS WILD-TYPE
  CLUS_1               15                 48
  CLUS_2               18                 26
  CLUS_3               25                 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
  22Q LOSS MUTATED       16     25      6     11
  22Q LOSS WILD-TYPE     50     29     12     13
D68V8, multiclass
        clus
vv       22Q LOSS MUTATED 22Q LOSS WILD-TYPE
  CLUS_1               16                 50
  CLUS_2               25                 29
  CLUS_3                6                 12
  CLUS_4               11                 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
  22Q LOSS MUTATED        9     26      7      7      9
  22Q LOSS WILD-TYPE     24     24      9     26     20
D68V9, multiclass
        clus
vv       22Q LOSS MUTATED 22Q LOSS WILD-TYPE
  CLUS_1                9                 24
  CLUS_2               26                 24
  CLUS_3                7                  9
  CLUS_4                7                 26
  CLUS_5                9                 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
  22Q LOSS MUTATED        6     20      6      7      4      6      9
  22Q LOSS WILD-TYPE     12     21     21      8     19     12     10
D68V10, multiclass
        clus
vv       22Q LOSS MUTATED 22Q LOSS WILD-TYPE
  CLUS_1                6                 12
  CLUS_2               20                 21
  CLUS_3                6                 21
  CLUS_4                7                  8
  CLUS_5                4                 19
  CLUS_6                6                 12
  CLUS_7                9                 10
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(69) Variable = XP LOSS MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  XP LOSS MUTATED        7      4      2     25     10
  XP LOSS WILD-TYPE     30     36      8     25     15
D69V1, multiclass
        clus
vv       XP LOSS MUTATED XP LOSS WILD-TYPE
  CLUS_1               7                30
  CLUS_2               4                36
  CLUS_3               2                 8
  CLUS_4              25                25
  CLUS_5              10                15
[1] 5 2
[1] TRUE
[1] "dimension of contingency table 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       10     34      4
  XP LOSS WILD-TYPE     30     43     41
D69V2, multiclass
        clus
vv       XP LOSS MUTATED XP LOSS WILD-TYPE
  CLUS_1              10                30
  CLUS_2              34                43
  CLUS_3               4                41
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  XP LOSS MUTATED        7      8      8      1
  XP LOSS WILD-TYPE      9     12     15     17
D69V3, multiclass
        clus
vv       XP LOSS MUTATED XP LOSS WILD-TYPE
  CLUS_1               7                 9
  CLUS_2               8                12
  CLUS_3               8                15
  CLUS_4               1                17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  XP LOSS MUTATED        7      7     10
  XP LOSS WILD-TYPE     24     11     18
D69V4, multiclass
        clus
vv       XP LOSS MUTATED XP LOSS WILD-TYPE
  CLUS_1               7                24
  CLUS_2               7                11
  CLUS_3              10                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
  XP LOSS MUTATED       10     27      9      2
  XP LOSS WILD-TYPE     22     38     35     19
D69V5, multiclass
        clus
vv       XP LOSS MUTATED XP LOSS WILD-TYPE
  CLUS_1              10                22
  CLUS_2              27                38
  CLUS_3               9                35
  CLUS_4               2                19
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  XP LOSS MUTATED        7     29     11      1
  XP LOSS WILD-TYPE     27     35     32     20
D69V6, multiclass
        clus
vv       XP LOSS MUTATED XP LOSS WILD-TYPE
  CLUS_1               7                27
  CLUS_2              29                35
  CLUS_3              11                32
  CLUS_4               1                20
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  XP LOSS MUTATED       12      9     27
  XP LOSS WILD-TYPE     51     35     28
D69V7, multiclass
        clus
vv       XP LOSS MUTATED XP LOSS WILD-TYPE
  CLUS_1              12                51
  CLUS_2               9                35
  CLUS_3              27                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
  XP LOSS MUTATED       15     23      7      3
  XP LOSS WILD-TYPE     51     31     11     21
D69V8, multiclass
        clus
vv       XP LOSS MUTATED XP LOSS WILD-TYPE
  CLUS_1              15                51
  CLUS_2              23                31
  CLUS_3               7                11
  CLUS_4               3                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 CLUS_4 CLUS_5
  XP LOSS MUTATED        9     21      4      8      6
  XP LOSS WILD-TYPE     24     29     12     25     23
D69V9, multiclass
        clus
vv       XP LOSS MUTATED XP LOSS WILD-TYPE
  CLUS_1               9                24
  CLUS_2              21                29
  CLUS_3               4                12
  CLUS_4               8                25
  CLUS_5               6                23
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  XP LOSS MUTATED        3     20      6      6      5      7      1
  XP LOSS WILD-TYPE     15     21     21      9     18     11     18
D69V10, multiclass
        clus
vv       XP LOSS MUTATED XP LOSS WILD-TYPE
  CLUS_1               3                15
  CLUS_2              20                21
  CLUS_3               6                21
  CLUS_4               6                 9
  CLUS_5               5                18
  CLUS_6               7                11
  CLUS_7               1                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"

Clustering(70) Variable = XQ LOSS MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  XQ LOSS MUTATED        7      4      2     26     10
  XQ LOSS WILD-TYPE     30     36      8     24     15
D70V1, multiclass
        clus
vv       XQ LOSS MUTATED XQ LOSS WILD-TYPE
  CLUS_1               7                30
  CLUS_2               4                36
  CLUS_3               2                 8
  CLUS_4              26                24
  CLUS_5              10                15
[1] 5 2
[1] TRUE
[1] "dimension of contingency table 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       10     35      4
  XQ LOSS WILD-TYPE     30     42     41
D70V2, multiclass
        clus
vv       XQ LOSS MUTATED XQ LOSS WILD-TYPE
  CLUS_1              10                30
  CLUS_2              35                42
  CLUS_3               4                41
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  XQ LOSS MUTATED        7      9      8      1
  XQ LOSS WILD-TYPE      9     11     15     17
D70V3, multiclass
        clus
vv       XQ LOSS MUTATED XQ LOSS WILD-TYPE
  CLUS_1               7                 9
  CLUS_2               9                11
  CLUS_3               8                15
  CLUS_4               1                17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  XQ LOSS MUTATED        8      7     10
  XQ LOSS WILD-TYPE     23     11     18
D70V4, multiclass
        clus
vv       XQ LOSS MUTATED XQ LOSS WILD-TYPE
  CLUS_1               8                23
  CLUS_2               7                11
  CLUS_3              10                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
  XQ LOSS MUTATED       10     28      9      2
  XQ LOSS WILD-TYPE     22     37     35     19
D70V5, multiclass
        clus
vv       XQ LOSS MUTATED XQ LOSS WILD-TYPE
  CLUS_1              10                22
  CLUS_2              28                37
  CLUS_3               9                35
  CLUS_4               2                19
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  XQ LOSS MUTATED        7     30     11      1
  XQ LOSS WILD-TYPE     27     34     32     20
D70V6, multiclass
        clus
vv       XQ LOSS MUTATED XQ LOSS WILD-TYPE
  CLUS_1               7                27
  CLUS_2              30                34
  CLUS_3              11                32
  CLUS_4               1                20
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  XQ LOSS MUTATED       12     10     27
  XQ LOSS WILD-TYPE     51     34     28
D70V7, multiclass
        clus
vv       XQ LOSS MUTATED XQ LOSS WILD-TYPE
  CLUS_1              12                51
  CLUS_2              10                34
  CLUS_3              27                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
  XQ LOSS MUTATED       15     24      7      3
  XQ LOSS WILD-TYPE     51     30     11     21
D70V8, multiclass
        clus
vv       XQ LOSS MUTATED XQ LOSS WILD-TYPE
  CLUS_1              15                51
  CLUS_2              24                30
  CLUS_3               7                11
  CLUS_4               3                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 CLUS_4 CLUS_5
  XQ LOSS MUTATED        9     21      4      8      7
  XQ LOSS WILD-TYPE     24     29     12     25     22
D70V9, multiclass
        clus
vv       XQ LOSS MUTATED XQ LOSS WILD-TYPE
  CLUS_1               9                24
  CLUS_2              21                29
  CLUS_3               4                12
  CLUS_4               8                25
  CLUS_5               7                22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will 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        3     21      6      6      5      7      1
  XQ LOSS WILD-TYPE     15     20     21      9     18     11     18
D70V10, multiclass
        clus
vv       XQ LOSS MUTATED XQ LOSS WILD-TYPE
  CLUS_1               3                15
  CLUS_2              21                20
  CLUS_3               6                21
  CLUS_4               6                 9
  CLUS_5               5                18
  CLUS_6               7                11
  CLUS_7               1                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"
