[1] "ofn"        "-oTCOAD-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/COAD-TP/22541003/COAD-TP.transferedmergedcluster.txt"
[1] "dfn:"
[1] "/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_Correlate_Genomic_Events_Preprocess/COAD-TP/22508740/transformed.cor.cli.txt"

nPatients in clinical file=459, in cluster file=451, common to both=451
[1] "Reduce the number of clustering variables from 82 to 81."
[1]  81 451
[1] "1P GAIN MUTATION ANALYSIS"
[1] 3
  1P GAIN MUTATED 1P GAIN WILD-TYPE 
               40               411 
  1P GAIN MUTATED 1P GAIN WILD-TYPE 
               40               411 
[1] "1Q GAIN MUTATION ANALYSIS"
[1] 3
  1Q GAIN MUTATED 1Q GAIN WILD-TYPE 
               81               370 
  1Q GAIN MUTATED 1Q GAIN WILD-TYPE 
               81               370 
[1] "2P GAIN MUTATION ANALYSIS"
[1] 3
  2P GAIN MUTATED 2P GAIN WILD-TYPE 
               82               369 
  2P GAIN MUTATED 2P GAIN WILD-TYPE 
               82               369 
[1] "2Q GAIN MUTATION ANALYSIS"
[1] 3
  2Q GAIN MUTATED 2Q GAIN WILD-TYPE 
               79               372 
  2Q GAIN MUTATED 2Q GAIN WILD-TYPE 
               79               372 
[1] "3P GAIN MUTATION ANALYSIS"
[1] 3
  3P GAIN MUTATED 3P GAIN WILD-TYPE 
               47               404 
  3P GAIN MUTATED 3P GAIN WILD-TYPE 
               47               404 
[1] "3Q GAIN MUTATION ANALYSIS"
[1] 3
  3Q GAIN MUTATED 3Q GAIN WILD-TYPE 
               64               387 
  3Q GAIN MUTATED 3Q GAIN WILD-TYPE 
               64               387 
[1] "4P GAIN MUTATION ANALYSIS"
[1] 3
  4P GAIN MUTATED 4P GAIN WILD-TYPE 
               12               439 
  4P GAIN MUTATED 4P GAIN WILD-TYPE 
               12               439 
[1] "4Q GAIN MUTATION ANALYSIS"
[1] 3
  4Q GAIN MUTATED 4Q GAIN WILD-TYPE 
               17               434 
  4Q GAIN MUTATED 4Q GAIN WILD-TYPE 
               17               434 
[1] "5P GAIN MUTATION ANALYSIS"
[1] 3
  5P GAIN MUTATED 5P GAIN WILD-TYPE 
               70               381 
  5P GAIN MUTATED 5P GAIN WILD-TYPE 
               70               381 
[1] "5Q GAIN MUTATION ANALYSIS"
[1] 3
  5Q GAIN MUTATED 5Q GAIN WILD-TYPE 
               42               409 
  5Q GAIN MUTATED 5Q GAIN WILD-TYPE 
               42               409 
[1] "6P GAIN MUTATION ANALYSIS"
[1] 3
  6P GAIN MUTATED 6P GAIN WILD-TYPE 
               84               367 
  6P GAIN MUTATED 6P GAIN WILD-TYPE 
               84               367 
[1] "6Q GAIN MUTATION ANALYSIS"
[1] 3
  6Q GAIN MUTATED 6Q GAIN WILD-TYPE 
               76               375 
  6Q GAIN MUTATED 6Q GAIN WILD-TYPE 
               76               375 
[1] "7P GAIN MUTATION ANALYSIS"
[1] 3
  7P GAIN MUTATED 7P GAIN WILD-TYPE 
              246               205 
  7P GAIN MUTATED 7P GAIN WILD-TYPE 
              246               205 
[1] "7Q GAIN MUTATION ANALYSIS"
[1] 3
  7Q GAIN MUTATED 7Q GAIN WILD-TYPE 
              223               228 
  7Q GAIN MUTATED 7Q GAIN WILD-TYPE 
              223               228 
[1] "8P GAIN MUTATION ANALYSIS"
[1] 3
  8P GAIN MUTATED 8P GAIN WILD-TYPE 
              134               317 
  8P GAIN MUTATED 8P GAIN WILD-TYPE 
              134               317 
[1] "8Q GAIN MUTATION ANALYSIS"
[1] 3
  8Q GAIN MUTATED 8Q GAIN WILD-TYPE 
              227               224 
  8Q GAIN MUTATED 8Q GAIN WILD-TYPE 
              227               224 
[1] "9P GAIN MUTATION ANALYSIS"
[1] 3
  9P GAIN MUTATED 9P GAIN WILD-TYPE 
               81               370 
  9P GAIN MUTATED 9P GAIN WILD-TYPE 
               81               370 
[1] "9Q GAIN MUTATION ANALYSIS"
[1] 3
  9Q GAIN MUTATED 9Q GAIN WILD-TYPE 
               71               380 
  9Q GAIN MUTATED 9Q GAIN WILD-TYPE 
               71               380 
[1] "10P GAIN MUTATION ANALYSIS"
[1] 3
  10P GAIN MUTATED 10P GAIN WILD-TYPE 
                38                413 
  10P GAIN MUTATED 10P GAIN WILD-TYPE 
                38                413 
[1] "10Q GAIN MUTATION ANALYSIS"
[1] 3
  10Q GAIN MUTATED 10Q GAIN WILD-TYPE 
                23                428 
  10Q GAIN MUTATED 10Q GAIN WILD-TYPE 
                23                428 
[1] "11P GAIN MUTATION ANALYSIS"
[1] 3
  11P GAIN MUTATED 11P GAIN WILD-TYPE 
                54                397 
  11P GAIN MUTATED 11P GAIN WILD-TYPE 
                54                397 
[1] "11Q GAIN MUTATION ANALYSIS"
[1] 3
  11Q GAIN MUTATED 11Q GAIN WILD-TYPE 
                51                400 
  11Q GAIN MUTATED 11Q GAIN WILD-TYPE 
                51                400 
[1] "12P GAIN MUTATION ANALYSIS"
[1] 3
  12P GAIN MUTATED 12P GAIN WILD-TYPE 
                93                358 
  12P GAIN MUTATED 12P GAIN WILD-TYPE 
                93                358 
[1] "12Q GAIN MUTATION ANALYSIS"
[1] 3
  12Q GAIN MUTATED 12Q GAIN WILD-TYPE 
                88                363 
  12Q GAIN MUTATED 12Q GAIN WILD-TYPE 
                88                363 
[1] "13Q GAIN MUTATION ANALYSIS"
[1] 3
  13Q GAIN MUTATED 13Q GAIN WILD-TYPE 
               255                196 
  13Q GAIN MUTATED 13Q GAIN WILD-TYPE 
               255                196 
[1] "14Q GAIN MUTATION ANALYSIS"
[1] 3
  14Q GAIN MUTATED 14Q GAIN WILD-TYPE 
                35                416 
  14Q GAIN MUTATED 14Q GAIN WILD-TYPE 
                35                416 
[1] "15Q GAIN MUTATION ANALYSIS"
[1] 3
  15Q GAIN MUTATED 15Q GAIN WILD-TYPE 
                11                440 
  15Q GAIN MUTATED 15Q GAIN WILD-TYPE 
                11                440 
[1] "16P GAIN MUTATION ANALYSIS"
[1] 3
  16P GAIN MUTATED 16P GAIN WILD-TYPE 
               106                345 
  16P GAIN MUTATED 16P GAIN WILD-TYPE 
               106                345 
[1] "16Q GAIN MUTATION ANALYSIS"
[1] 3
  16Q GAIN MUTATED 16Q GAIN WILD-TYPE 
               104                347 
  16Q GAIN MUTATED 16Q GAIN WILD-TYPE 
               104                347 
[1] "17P GAIN MUTATION ANALYSIS"
[1] 3
  17P GAIN MUTATED 17P GAIN WILD-TYPE 
                29                422 
  17P GAIN MUTATED 17P GAIN WILD-TYPE 
                29                422 
[1] "17Q GAIN MUTATION ANALYSIS"
[1] 3
  17Q GAIN MUTATED 17Q GAIN WILD-TYPE 
                84                367 
  17Q GAIN MUTATED 17Q GAIN WILD-TYPE 
                84                367 
[1] "18P GAIN MUTATION ANALYSIS"
[1] 3
  18P GAIN MUTATED 18P GAIN WILD-TYPE 
                23                428 
  18P GAIN MUTATED 18P GAIN WILD-TYPE 
                23                428 
[1] "18Q GAIN MUTATION ANALYSIS"
[1] 3
  18Q GAIN MUTATED 18Q GAIN WILD-TYPE 
                14                437 
  18Q GAIN MUTATED 18Q GAIN WILD-TYPE 
                14                437 
[1] "19P GAIN MUTATION ANALYSIS"
[1] 3
  19P GAIN MUTATED 19P GAIN WILD-TYPE 
                73                378 
  19P GAIN MUTATED 19P GAIN WILD-TYPE 
                73                378 
[1] "19Q GAIN MUTATION ANALYSIS"
[1] 3
  19Q GAIN MUTATED 19Q GAIN WILD-TYPE 
                84                367 
  19Q GAIN MUTATED 19Q GAIN WILD-TYPE 
                84                367 
[1] "20P GAIN MUTATION ANALYSIS"
[1] 3
  20P GAIN MUTATED 20P GAIN WILD-TYPE 
               244                207 
  20P GAIN MUTATED 20P GAIN WILD-TYPE 
               244                207 
[1] "20Q GAIN MUTATION ANALYSIS"
[1] 3
  20Q GAIN MUTATED 20Q GAIN WILD-TYPE 
               321                130 
  20Q GAIN MUTATED 20Q GAIN WILD-TYPE 
               321                130 
[1] "21Q GAIN MUTATION ANALYSIS"
[1] 3
  21Q GAIN MUTATED 21Q GAIN WILD-TYPE 
                24                427 
  21Q GAIN MUTATED 21Q GAIN WILD-TYPE 
                24                427 
[1] "22Q GAIN MUTATION ANALYSIS"
[1] 3
  22Q GAIN MUTATED 22Q GAIN WILD-TYPE 
                12                439 
  22Q GAIN MUTATED 22Q GAIN WILD-TYPE 
                12                439 
[1] "XP GAIN MUTATION ANALYSIS"
[1] 3
  XP GAIN MUTATED XP GAIN WILD-TYPE 
               68               383 
  XP GAIN MUTATED XP GAIN WILD-TYPE 
               68               383 
[1] "XQ GAIN MUTATION ANALYSIS"
[1] 3
  XQ GAIN MUTATED XQ GAIN WILD-TYPE 
               79               372 
  XQ GAIN MUTATED XQ GAIN WILD-TYPE 
               79               372 
[1] "1P LOSS MUTATION ANALYSIS"
[1] 3
  1P LOSS MUTATED 1P LOSS WILD-TYPE 
               92               359 
  1P LOSS MUTATED 1P LOSS WILD-TYPE 
               92               359 
[1] "1Q LOSS MUTATION ANALYSIS"
[1] 3
  1Q LOSS MUTATED 1Q LOSS WILD-TYPE 
               54               397 
  1Q LOSS MUTATED 1Q LOSS WILD-TYPE 
               54               397 
[1] "2P LOSS MUTATION ANALYSIS"
[1] 3
  2P LOSS MUTATED 2P LOSS WILD-TYPE 
                6               445 
  2P LOSS MUTATED 2P LOSS WILD-TYPE 
                6               445 
[1] "2Q LOSS MUTATION ANALYSIS"
[1] 3
  2Q LOSS MUTATED 2Q LOSS WILD-TYPE 
                7               444 
  2Q LOSS MUTATED 2Q LOSS WILD-TYPE 
                7               444 
[1] "3P LOSS MUTATION ANALYSIS"
[1] 3
  3P LOSS MUTATED 3P LOSS WILD-TYPE 
               54               397 
  3P LOSS MUTATED 3P LOSS WILD-TYPE 
               54               397 
[1] "3Q LOSS MUTATION ANALYSIS"
[1] 3
  3Q LOSS MUTATED 3Q LOSS WILD-TYPE 
               35               416 
  3Q LOSS MUTATED 3Q LOSS WILD-TYPE 
               35               416 
[1] "4P LOSS MUTATION ANALYSIS"
[1] 3
  4P LOSS MUTATED 4P LOSS WILD-TYPE 
              139               312 
  4P LOSS MUTATED 4P LOSS WILD-TYPE 
              139               312 
[1] "4Q LOSS MUTATION ANALYSIS"
[1] 3
  4Q LOSS MUTATED 4Q LOSS WILD-TYPE 
              127               324 
  4Q LOSS MUTATED 4Q LOSS WILD-TYPE 
              127               324 
[1] "5P LOSS MUTATION ANALYSIS"
[1] 3
  5P LOSS MUTATED 5P LOSS WILD-TYPE 
               60               391 
  5P LOSS MUTATED 5P LOSS WILD-TYPE 
               60               391 
[1] "5Q LOSS MUTATION ANALYSIS"
[1] 3
  5Q LOSS MUTATED 5Q LOSS WILD-TYPE 
               80               371 
  5Q LOSS MUTATED 5Q LOSS WILD-TYPE 
               80               371 
[1] "6P LOSS MUTATION ANALYSIS"
[1] 3
  6P LOSS MUTATED 6P LOSS WILD-TYPE 
               34               417 
  6P LOSS MUTATED 6P LOSS WILD-TYPE 
               34               417 
[1] "6Q LOSS MUTATION ANALYSIS"
[1] 3
  6Q LOSS MUTATED 6Q LOSS WILD-TYPE 
               46               405 
  6Q LOSS MUTATED 6Q LOSS WILD-TYPE 
               46               405 
[1] "7Q LOSS MUTATION ANALYSIS"
[1] 3
  7Q LOSS MUTATED 7Q LOSS WILD-TYPE 
                4               447 
  7Q LOSS MUTATED 7Q LOSS WILD-TYPE 
                4               447 
[1] "8P LOSS MUTATION ANALYSIS"
[1] 3
  8P LOSS MUTATED 8P LOSS WILD-TYPE 
              138               313 
  8P LOSS MUTATED 8P LOSS WILD-TYPE 
              138               313 
[1] "8Q LOSS MUTATION ANALYSIS"
[1] 3
  8Q LOSS MUTATED 8Q LOSS WILD-TYPE 
               26               425 
  8Q LOSS MUTATED 8Q LOSS WILD-TYPE 
               26               425 
[1] "9P LOSS MUTATION ANALYSIS"
[1] 3
  9P LOSS MUTATED 9P LOSS WILD-TYPE 
               54               397 
  9P LOSS MUTATED 9P LOSS WILD-TYPE 
               54               397 
[1] "9Q LOSS MUTATION ANALYSIS"
[1] 3
  9Q LOSS MUTATED 9Q LOSS WILD-TYPE 
               54               397 
  9Q LOSS MUTATED 9Q LOSS WILD-TYPE 
               54               397 
[1] "10P LOSS MUTATION ANALYSIS"
[1] 3
  10P LOSS MUTATED 10P LOSS WILD-TYPE 
                68                383 
  10P LOSS MUTATED 10P LOSS WILD-TYPE 
                68                383 
[1] "10Q LOSS MUTATION ANALYSIS"
[1] 3
  10Q LOSS MUTATED 10Q LOSS WILD-TYPE 
                73                378 
  10Q LOSS MUTATED 10Q LOSS WILD-TYPE 
                73                378 
[1] "11P LOSS MUTATION ANALYSIS"
[1] 3
  11P LOSS MUTATED 11P LOSS WILD-TYPE 
                51                400 
  11P LOSS MUTATED 11P LOSS WILD-TYPE 
                51                400 
[1] "11Q LOSS MUTATION ANALYSIS"
[1] 3
  11Q LOSS MUTATED 11Q LOSS WILD-TYPE 
                63                388 
  11Q LOSS MUTATED 11Q LOSS WILD-TYPE 
                63                388 
[1] "12P LOSS MUTATION ANALYSIS"
[1] 3
  12P LOSS MUTATED 12P LOSS WILD-TYPE 
                48                403 
  12P LOSS MUTATED 12P LOSS WILD-TYPE 
                48                403 
[1] "12Q LOSS MUTATION ANALYSIS"
[1] 3
  12Q LOSS MUTATED 12Q LOSS WILD-TYPE 
                50                401 
  12Q LOSS MUTATED 12Q LOSS WILD-TYPE 
                50                401 
[1] "13Q LOSS MUTATION ANALYSIS"
[1] 3
  13Q LOSS MUTATED 13Q LOSS WILD-TYPE 
                12                439 
  13Q LOSS MUTATED 13Q LOSS WILD-TYPE 
                12                439 
[1] "14Q LOSS MUTATION ANALYSIS"
[1] 3
  14Q LOSS MUTATED 14Q LOSS WILD-TYPE 
               139                312 
  14Q LOSS MUTATED 14Q LOSS WILD-TYPE 
               139                312 
[1] "15Q LOSS MUTATION ANALYSIS"
[1] 3
  15Q LOSS MUTATED 15Q LOSS WILD-TYPE 
               158                293 
  15Q LOSS MUTATED 15Q LOSS WILD-TYPE 
               158                293 
[1] "16P LOSS MUTATION ANALYSIS"
[1] 3
  16P LOSS MUTATED 16P LOSS WILD-TYPE 
                31                420 
  16P LOSS MUTATED 16P LOSS WILD-TYPE 
                31                420 
[1] "16Q LOSS MUTATION ANALYSIS"
[1] 3
  16Q LOSS MUTATED 16Q LOSS WILD-TYPE 
                29                422 
  16Q LOSS MUTATED 16Q LOSS WILD-TYPE 
                29                422 
[1] "17P LOSS MUTATION ANALYSIS"
[1] 3
  17P LOSS MUTATED 17P LOSS WILD-TYPE 
               236                215 
  17P LOSS MUTATED 17P LOSS WILD-TYPE 
               236                215 
[1] "17Q LOSS MUTATION ANALYSIS"
[1] 3
  17Q LOSS MUTATED 17Q LOSS WILD-TYPE 
                64                387 
  17Q LOSS MUTATED 17Q LOSS WILD-TYPE 
                64                387 
[1] "18P LOSS MUTATION ANALYSIS"
[1] 3
  18P LOSS MUTATED 18P LOSS WILD-TYPE 
               252                199 
  18P LOSS MUTATED 18P LOSS WILD-TYPE 
               252                199 
[1] "18Q LOSS MUTATION ANALYSIS"
[1] 3
  18Q LOSS MUTATED 18Q LOSS WILD-TYPE 
               268                183 
  18Q LOSS MUTATED 18Q LOSS WILD-TYPE 
               268                183 
[1] "19P LOSS MUTATION ANALYSIS"
[1] 3
  19P LOSS MUTATED 19P LOSS WILD-TYPE 
                40                411 
  19P LOSS MUTATED 19P LOSS WILD-TYPE 
                40                411 
[1] "19Q LOSS MUTATION ANALYSIS"
[1] 3
  19Q LOSS MUTATED 19Q LOSS WILD-TYPE 
                33                418 
  19Q LOSS MUTATED 19Q LOSS WILD-TYPE 
                33                418 
[1] "20P LOSS MUTATION ANALYSIS"
[1] 3
  20P LOSS MUTATED 20P LOSS WILD-TYPE 
                43                408 
  20P LOSS MUTATED 20P LOSS WILD-TYPE 
                43                408 
[1] "20Q LOSS MUTATION ANALYSIS"
[1] 3
  20Q LOSS MUTATED 20Q LOSS WILD-TYPE 
                 4                447 
  20Q LOSS MUTATED 20Q LOSS WILD-TYPE 
                 4                447 
[1] "21Q LOSS MUTATION ANALYSIS"
[1] 3
  21Q LOSS MUTATED 21Q LOSS WILD-TYPE 
               124                327 
  21Q LOSS MUTATED 21Q LOSS WILD-TYPE 
               124                327 
[1] "22Q LOSS MUTATION ANALYSIS"
[1] 3
  22Q LOSS MUTATED 22Q LOSS WILD-TYPE 
               146                305 
  22Q LOSS MUTATED 22Q LOSS WILD-TYPE 
               146                305 
[1] "XP LOSS MUTATION ANALYSIS"
[1] 3
  XP LOSS MUTATED XP LOSS WILD-TYPE 
               64               387 
  XP LOSS MUTATED XP LOSS WILD-TYPE 
               64               387 
[1] "XQ LOSS MUTATION ANALYSIS"
[1] 3
  XQ LOSS MUTATED XQ LOSS WILD-TYPE 
               51               400 
  XQ LOSS MUTATED XQ LOSS WILD-TYPE 
               51               400 
[1] "data2feature, selection=ALL"
 [1] "MRNA_CNMF"                   "MRNA_CHIERARCHICAL"         
 [3] "CN_CNMF"                     "METHLYATION_CNMF"           
 [5] "RPPA_CNMF"                   "RPPA_CHIERARCHICAL"         
 [7] "MRNASEQ_CNMF"                "MRNASEQ_CHIERARCHICAL"      
 [9] "MIRSEQ_CNMF"                 "MIRSEQ_CHIERARCHICAL"       
[11] "MIRSEQ_MATURE_CNMF"          "MIRSEQ_MATURE_CHIERARCHICAL"

Input Data has 12 rows and 451 columns.

Variable 1:'MRNA_CNMF':	nDistinctValues=5,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 2:'MRNA_CHIERARCHICAL':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 3:'CN_CNMF':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 4:'METHLYATION_CNMF':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 5:'RPPA_CNMF':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 6:'RPPA_CHIERARCHICAL':	nDistinctValues=9,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 7:'MRNASEQ_CNMF':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 8:'MRNASEQ_CHIERARCHICAL':	nDistinctValues=5,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 9:'MIRSEQ_CNMF':	nDistinctValues=5,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 10:'MIRSEQ_CHIERARCHICAL':	nDistinctValues=9,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 11:'MIRSEQ_MATURE_CNMF':	nDistinctValues=6,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 12:'MIRSEQ_MATURE_CHIERARCHICAL':	nDistinctValues=9,	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 451 columns, 0 survival variables, and 12 non-survival variables.
[1] "* survival variables: "
NULL
[1] "* non-survival variables: "
 [1] "MRNA_CNMF"                   "MRNA_CHIERARCHICAL"         
 [3] "CN_CNMF"                     "METHLYATION_CNMF"           
 [5] "RPPA_CNMF"                   "RPPA_CHIERARCHICAL"         
 [7] "MRNASEQ_CNMF"                "MRNASEQ_CHIERARCHICAL"      
 [9] "MIRSEQ_CNMF"                 "MIRSEQ_CHIERARCHICAL"       
[11] "MIRSEQ_MATURE_CNMF"          "MIRSEQ_MATURE_CHIERARCHICAL"
MRNA_CNMF, nv=5, binary=FALSE, numeric=FALSE
MRNA_CHIERARCHICAL, nv=3, binary=FALSE, numeric=FALSE
CN_CNMF, nv=3, binary=FALSE, numeric=FALSE
METHLYATION_CNMF, nv=3, binary=FALSE, numeric=FALSE
RPPA_CNMF, nv=3, binary=FALSE, numeric=FALSE
RPPA_CHIERARCHICAL, nv=9, binary=FALSE, numeric=FALSE
MRNASEQ_CNMF, nv=4, binary=FALSE, numeric=FALSE
MRNASEQ_CHIERARCHICAL, nv=5, binary=FALSE, numeric=FALSE
MIRSEQ_CNMF, nv=5, binary=FALSE, numeric=FALSE
MIRSEQ_CHIERARCHICAL, nv=9, binary=FALSE, numeric=FALSE
MIRSEQ_MATURE_CNMF, nv=6, binary=FALSE, numeric=FALSE
MIRSEQ_MATURE_CHIERARCHICAL, nv=9, 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        0      3      5      1      2
  1P GAIN WILD-TYPE     31     14     44     26     21
D1V1, multiclass
        clus
vv       1P GAIN MUTATED 1P GAIN WILD-TYPE
  CLUS_1               0                31
  CLUS_2               3                14
  CLUS_3               5                44
  CLUS_4               1                26
  CLUS_5               2                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
  1P GAIN MUTATED        1      6      4
  1P GAIN WILD-TYPE     41     62     33
D1V2, multiclass
        clus
vv       1P GAIN MUTATED 1P GAIN WILD-TYPE
  CLUS_1               1                41
  CLUS_2               6                62
  CLUS_3               4                33
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  1P GAIN MUTATED        9     23      8
  1P GAIN WILD-TYPE     44    198    169
D1V3, multiclass
        clus
vv       1P GAIN MUTATED 1P GAIN WILD-TYPE
  CLUS_1               9                44
  CLUS_2              23               198
  CLUS_3               8               169
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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        5     16      9
  1P GAIN WILD-TYPE     80     87     97
D1V4, multiclass
        clus
vv       1P GAIN MUTATED 1P GAIN WILD-TYPE
  CLUS_1               5                80
  CLUS_2              16                87
  CLUS_3               9                97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       10     16      5
  1P GAIN WILD-TYPE     75    129    120
D1V5, multiclass
        clus
vv       1P GAIN MUTATED 1P GAIN WILD-TYPE
  CLUS_1              10                75
  CLUS_2              16               129
  CLUS_3               5               120
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  1P GAIN MUTATED        3      5      1      5      6      6      1      2
  1P GAIN WILD-TYPE     48     28     34     34     37     80     21     18
                   vv
clus                CLUS_9
  1P GAIN MUTATED        2
  1P GAIN WILD-TYPE     24
D1V6, multiclass
        clus
vv       1P GAIN MUTATED 1P GAIN WILD-TYPE
  CLUS_1               3                48
  CLUS_2               5                28
  CLUS_3               1                34
  CLUS_4               5                34
  CLUS_5               6                37
  CLUS_6               6                80
  CLUS_7               1                21
  CLUS_8               2                18
  CLUS_9               2                24
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger 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       14      6      7     13
  1P GAIN WILD-TYPE    113     88     90    118
D1V7, multiclass
        clus
vv       1P GAIN MUTATED 1P GAIN WILD-TYPE
  CLUS_1              14               113
  CLUS_2               6                88
  CLUS_3               7                90
  CLUS_4              13               118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  1P GAIN MUTATED        6     15      3     15      1
  1P GAIN WILD-TYPE     73     93     93    114     36
D1V8, multiclass
        clus
vv       1P GAIN MUTATED 1P GAIN WILD-TYPE
  CLUS_1               6                73
  CLUS_2              15                93
  CLUS_3               3                93
  CLUS_4              15               114
  CLUS_5               1                36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  1P GAIN MUTATED        7      5      8      9      6
  1P GAIN WILD-TYPE     53     83     63     66     98
D1V9, multiclass
        clus
vv       1P GAIN MUTATED 1P GAIN WILD-TYPE
  CLUS_1               7                53
  CLUS_2               5                83
  CLUS_3               8                63
  CLUS_4               9                66
  CLUS_5               6                98
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  1P GAIN MUTATED        8      4      1      0      1      3      4      4
  1P GAIN WILD-TYPE     71     51     45     17     54     17     22     38
                   vv
clus                CLUS_9
  1P GAIN MUTATED       10
  1P GAIN WILD-TYPE     48
D1V10, multiclass
        clus
vv       1P GAIN MUTATED 1P GAIN WILD-TYPE
  CLUS_1               8                71
  CLUS_2               4                51
  CLUS_3               1                45
  CLUS_4               0                17
  CLUS_5               1                54
  CLUS_6               3                17
  CLUS_7               4                22
  CLUS_8               4                38
  CLUS_9              10                48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  1P GAIN MUTATED        0      3      0      1      0      0
  1P GAIN WILD-TYPE     18     17     16     10     11      9
D1V11, multiclass
        clus
vv       1P GAIN MUTATED 1P GAIN WILD-TYPE
  CLUS_1               0                18
  CLUS_2               3                17
  CLUS_3               0                16
  CLUS_4               1                10
  CLUS_5               0                11
  CLUS_6               0                 9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  1P GAIN MUTATED        1      2      1      0      0      0      0      0
  1P GAIN WILD-TYPE     11      7      7     12      9      7     13      9
                   vv
clus                CLUS_9
  1P GAIN MUTATED        0
  1P GAIN WILD-TYPE      6
D1V12, multiclass
        clus
vv       1P GAIN MUTATED 1P GAIN WILD-TYPE
  CLUS_1               1                11
  CLUS_2               2                 7
  CLUS_3               1                 7
  CLUS_4               0                12
  CLUS_5               0                 9
  CLUS_6               0                 7
  CLUS_7               0                13
  CLUS_8               0                 9
  CLUS_9               0                 6
[1] 9 2
[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        1      6      8      5      4
  1Q GAIN WILD-TYPE     30     11     41     22     19
D2V1, multiclass
        clus
vv       1Q GAIN MUTATED 1Q GAIN WILD-TYPE
  CLUS_1               1                30
  CLUS_2               6                11
  CLUS_3               8                41
  CLUS_4               5                22
  CLUS_5               4                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 GAIN MUTATED        4     13      7
  1Q GAIN WILD-TYPE     38     55     30
D2V2, multiclass
        clus
vv       1Q GAIN MUTATED 1Q GAIN WILD-TYPE
  CLUS_1               4                38
  CLUS_2              13                55
  CLUS_3               7                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
  1Q GAIN MUTATED       17     45     19
  1Q GAIN WILD-TYPE     36    176    158
D2V3, multiclass
        clus
vv       1Q GAIN MUTATED 1Q GAIN WILD-TYPE
  CLUS_1              17                36
  CLUS_2              45               176
  CLUS_3              19               158
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       12     27     16
  1Q GAIN WILD-TYPE     73     76     90
D2V4, multiclass
        clus
vv       1Q GAIN MUTATED 1Q GAIN WILD-TYPE
  CLUS_1              12                73
  CLUS_2              27                76
  CLUS_3              16                90
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       17     32     15
  1Q GAIN WILD-TYPE     68    113    110
D2V5, multiclass
        clus
vv       1Q GAIN MUTATED 1Q GAIN WILD-TYPE
  CLUS_1              17                68
  CLUS_2              32               113
  CLUS_3              15               110
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  1Q GAIN MUTATED       10      6      5     11     10     11      2      4
  1Q GAIN WILD-TYPE     41     27     30     28     33     75     20     16
                   vv
clus                CLUS_9
  1Q GAIN MUTATED        5
  1Q GAIN WILD-TYPE     21
D2V6, multiclass
        clus
vv       1Q GAIN MUTATED 1Q GAIN WILD-TYPE
  CLUS_1              10                41
  CLUS_2               6                27
  CLUS_3               5                30
  CLUS_4              11                28
  CLUS_5              10                33
  CLUS_6              11                75
  CLUS_7               2                20
  CLUS_8               4                16
  CLUS_9               5                21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger 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       27     12     17     25
  1Q GAIN WILD-TYPE    100     82     80    106
D2V7, multiclass
        clus
vv       1Q GAIN MUTATED 1Q GAIN WILD-TYPE
  CLUS_1              27               100
  CLUS_2              12                82
  CLUS_3              17                80
  CLUS_4              25               106
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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       17     23     10     26      5
  1Q GAIN WILD-TYPE     62     85     86    103     32
D2V8, multiclass
        clus
vv       1Q GAIN MUTATED 1Q GAIN WILD-TYPE
  CLUS_1              17                62
  CLUS_2              23                85
  CLUS_3              10                86
  CLUS_4              26               103
  CLUS_5               5                32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  1Q GAIN MUTATED       13     10     21     14     17
  1Q GAIN WILD-TYPE     47     78     50     61     87
D2V9, multiclass
        clus
vv       1Q GAIN MUTATED 1Q GAIN WILD-TYPE
  CLUS_1              13                47
  CLUS_2              10                78
  CLUS_3              21                50
  CLUS_4              14                61
  CLUS_5              17                87
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  1Q GAIN MUTATED       14     10      5      0      9      5      6      8
  1Q GAIN WILD-TYPE     65     45     41     17     46     15     20     34
                   vv
clus                CLUS_9
  1Q GAIN MUTATED       18
  1Q GAIN WILD-TYPE     40
D2V10, multiclass
        clus
vv       1Q GAIN MUTATED 1Q GAIN WILD-TYPE
  CLUS_1              14                65
  CLUS_2              10                45
  CLUS_3               5                41
  CLUS_4               0                17
  CLUS_5               9                46
  CLUS_6               5                15
  CLUS_7               6                20
  CLUS_8               8                34
  CLUS_9              18                40
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  1Q GAIN MUTATED        2      4      1      6      0      0
  1Q GAIN WILD-TYPE     16     16     15      5     11      9
D2V11, multiclass
        clus
vv       1Q GAIN MUTATED 1Q GAIN WILD-TYPE
  CLUS_1               2                16
  CLUS_2               4                16
  CLUS_3               1                15
  CLUS_4               6                 5
  CLUS_5               0                11
  CLUS_6               0                 9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  1Q GAIN MUTATED        2      2      3      1      1      0      3      1
  1Q GAIN WILD-TYPE     10      7      5     11      8      7     10      8
                   vv
clus                CLUS_9
  1Q GAIN MUTATED        0
  1Q GAIN WILD-TYPE      6
D2V12, multiclass
        clus
vv       1Q GAIN MUTATED 1Q GAIN WILD-TYPE
  CLUS_1               2                10
  CLUS_2               2                 7
  CLUS_3               3                 5
  CLUS_4               1                11
  CLUS_5               1                 8
  CLUS_6               0                 7
  CLUS_7               3                10
  CLUS_8               1                 8
  CLUS_9               0                 6
[1] 9 2
[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        1      5      7      1      7
  2P GAIN WILD-TYPE     30     12     42     26     16
D3V1, multiclass
        clus
vv       2P GAIN MUTATED 2P GAIN WILD-TYPE
  CLUS_1               1                30
  CLUS_2               5                12
  CLUS_3               7                42
  CLUS_4               1                26
  CLUS_5               7                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
  2P GAIN MUTATED        2     10      9
  2P GAIN WILD-TYPE     40     58     28
D3V2, multiclass
        clus
vv       2P GAIN MUTATED 2P GAIN WILD-TYPE
  CLUS_1               2                40
  CLUS_2              10                58
  CLUS_3               9                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
  2P GAIN MUTATED       16     53     13
  2P GAIN WILD-TYPE     37    168    164
D3V3, multiclass
        clus
vv       2P GAIN MUTATED 2P GAIN WILD-TYPE
  CLUS_1              16                37
  CLUS_2              53               168
  CLUS_3              13               164
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       16     30     14
  2P GAIN WILD-TYPE     69     73     92
D3V4, multiclass
        clus
vv       2P GAIN MUTATED 2P GAIN WILD-TYPE
  CLUS_1              16                69
  CLUS_2              30                73
  CLUS_3              14                92
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       19     27     18
  2P GAIN WILD-TYPE     66    118    107
D3V5, multiclass
        clus
vv       2P GAIN MUTATED 2P GAIN WILD-TYPE
  CLUS_1              19                66
  CLUS_2              27               118
  CLUS_3              18               107
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  2P GAIN MUTATED       10      5      4      7      8     17      2      3
  2P GAIN WILD-TYPE     41     28     31     32     35     69     20     17
                   vv
clus                CLUS_9
  2P GAIN MUTATED        8
  2P GAIN WILD-TYPE     18
D3V6, multiclass
        clus
vv       2P GAIN MUTATED 2P GAIN WILD-TYPE
  CLUS_1              10                41
  CLUS_2               5                28
  CLUS_3               4                31
  CLUS_4               7                32
  CLUS_5               8                35
  CLUS_6              17                69
  CLUS_7               2                20
  CLUS_8               3                17
  CLUS_9               8                18
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger 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       41      8     17     16
  2P GAIN WILD-TYPE     86     86     80    115
D3V7, multiclass
        clus
vv       2P GAIN MUTATED 2P GAIN WILD-TYPE
  CLUS_1              41                86
  CLUS_2               8                86
  CLUS_3              17                80
  CLUS_4              16               115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  2P GAIN MUTATED       16     30     12     23      1
  2P GAIN WILD-TYPE     63     78     84    106     36
D3V8, multiclass
        clus
vv       2P GAIN MUTATED 2P GAIN WILD-TYPE
  CLUS_1              16                63
  CLUS_2              30                78
  CLUS_3              12                84
  CLUS_4              23               106
  CLUS_5               1                36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  2P GAIN MUTATED       14     15     13     17     10
  2P GAIN WILD-TYPE     46     73     58     58     94
D3V9, multiclass
        clus
vv       2P GAIN MUTATED 2P GAIN WILD-TYPE
  CLUS_1              14                46
  CLUS_2              15                73
  CLUS_3              13                58
  CLUS_4              17                58
  CLUS_5              10                94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  2P GAIN MUTATED       12     11     17      2     13      0      5      0
  2P GAIN WILD-TYPE     67     44     29     15     42     20     21     42
                   vv
clus                CLUS_9
  2P GAIN MUTATED        9
  2P GAIN WILD-TYPE     49
D3V10, multiclass
        clus
vv       2P GAIN MUTATED 2P GAIN WILD-TYPE
  CLUS_1              12                67
  CLUS_2              11                44
  CLUS_3              17                29
  CLUS_4               2                15
  CLUS_5              13                42
  CLUS_6               0                20
  CLUS_7               5                21
  CLUS_8               0                42
  CLUS_9               9                49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  2P GAIN MUTATED        4      5      5      3      2      1
  2P GAIN WILD-TYPE     14     15     11      8      9      8
D3V11, multiclass
        clus
vv       2P GAIN MUTATED 2P GAIN WILD-TYPE
  CLUS_1               4                14
  CLUS_2               5                15
  CLUS_3               5                11
  CLUS_4               3                 8
  CLUS_5               2                 9
  CLUS_6               1                 8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  2P GAIN MUTATED        2      2      3      3      4      1      3      1
  2P GAIN WILD-TYPE     10      7      5      9      5      6     10      8
                   vv
clus                CLUS_9
  2P GAIN MUTATED        1
  2P GAIN WILD-TYPE      5
D3V12, multiclass
        clus
vv       2P GAIN MUTATED 2P GAIN WILD-TYPE
  CLUS_1               2                10
  CLUS_2               2                 7
  CLUS_3               3                 5
  CLUS_4               3                 9
  CLUS_5               4                 5
  CLUS_6               1                 6
  CLUS_7               3                10
  CLUS_8               1                 8
  CLUS_9               1                 5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(4) Variable = 2Q GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  2Q GAIN MUTATED        1      5      6      2      7
  2Q GAIN WILD-TYPE     30     12     43     25     16
D4V1, multiclass
        clus
vv       2Q GAIN MUTATED 2Q GAIN WILD-TYPE
  CLUS_1               1                30
  CLUS_2               5                12
  CLUS_3               6                43
  CLUS_4               2                25
  CLUS_5               7                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
  2Q GAIN MUTATED        2     10      9
  2Q GAIN WILD-TYPE     40     58     28
D4V2, multiclass
        clus
vv       2Q GAIN MUTATED 2Q GAIN WILD-TYPE
  CLUS_1               2                40
  CLUS_2              10                58
  CLUS_3               9                28
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  2Q GAIN MUTATED       17     51     11
  2Q GAIN WILD-TYPE     36    170    166
D4V3, multiclass
        clus
vv       2Q GAIN MUTATED 2Q GAIN WILD-TYPE
  CLUS_1              17                36
  CLUS_2              51               170
  CLUS_3              11               166
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  2Q GAIN MUTATED       15     28     14
  2Q GAIN WILD-TYPE     70     75     92
D4V4, multiclass
        clus
vv       2Q GAIN MUTATED 2Q GAIN WILD-TYPE
  CLUS_1              15                70
  CLUS_2              28                75
  CLUS_3              14                92
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  2Q GAIN MUTATED       18     27     17
  2Q GAIN WILD-TYPE     67    118    108
D4V5, multiclass
        clus
vv       2Q GAIN MUTATED 2Q GAIN WILD-TYPE
  CLUS_1              18                67
  CLUS_2              27               118
  CLUS_3              17               108
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  2Q GAIN MUTATED       10      4      4      8      8     16      2      3
  2Q GAIN WILD-TYPE     41     29     31     31     35     70     20     17
                   vv
clus                CLUS_9
  2Q GAIN MUTATED        7
  2Q GAIN WILD-TYPE     19
D4V6, multiclass
        clus
vv       2Q GAIN MUTATED 2Q GAIN WILD-TYPE
  CLUS_1              10                41
  CLUS_2               4                29
  CLUS_3               4                31
  CLUS_4               8                31
  CLUS_5               8                35
  CLUS_6              16                70
  CLUS_7               2                20
  CLUS_8               3                17
  CLUS_9               7                19
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  2Q GAIN MUTATED       39      9     15     16
  2Q GAIN WILD-TYPE     88     85     82    115
D4V7, multiclass
        clus
vv       2Q GAIN MUTATED 2Q GAIN WILD-TYPE
  CLUS_1              39                88
  CLUS_2               9                85
  CLUS_3              15                82
  CLUS_4              16               115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  2Q GAIN MUTATED       16     30      9     23      1
  2Q GAIN WILD-TYPE     63     78     87    106     36
D4V8, multiclass
        clus
vv       2Q GAIN MUTATED 2Q GAIN WILD-TYPE
  CLUS_1              16                63
  CLUS_2              30                78
  CLUS_3               9                87
  CLUS_4              23               106
  CLUS_5               1                36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  2Q GAIN MUTATED       12     15     13     16     10
  2Q GAIN WILD-TYPE     48     73     58     59     94
D4V9, multiclass
        clus
vv       2Q GAIN MUTATED 2Q GAIN WILD-TYPE
  CLUS_1              12                48
  CLUS_2              15                73
  CLUS_3              13                58
  CLUS_4              16                59
  CLUS_5              10                94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  2Q GAIN MUTATED       13     10     14      2     14      0      4      0
  2Q GAIN WILD-TYPE     66     45     32     15     41     20     22     42
                   vv
clus                CLUS_9
  2Q GAIN MUTATED        9
  2Q GAIN WILD-TYPE     49
D4V10, multiclass
        clus
vv       2Q GAIN MUTATED 2Q GAIN WILD-TYPE
  CLUS_1              13                66
  CLUS_2              10                45
  CLUS_3              14                32
  CLUS_4               2                15
  CLUS_5              14                41
  CLUS_6               0                20
  CLUS_7               4                22
  CLUS_8               0                42
  CLUS_9               9                49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  2Q GAIN MUTATED        4      5      5      2      1      1
  2Q GAIN WILD-TYPE     14     15     11      9     10      8
D4V11, multiclass
        clus
vv       2Q GAIN MUTATED 2Q GAIN WILD-TYPE
  CLUS_1               4                14
  CLUS_2               5                15
  CLUS_3               5                11
  CLUS_4               2                 9
  CLUS_5               1                10
  CLUS_6               1                 8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  2Q GAIN MUTATED        1      3      3      3      4      1      2      0
  2Q GAIN WILD-TYPE     11      6      5      9      5      6     11      9
                   vv
clus                CLUS_9
  2Q GAIN MUTATED        1
  2Q GAIN WILD-TYPE      5
D4V12, multiclass
        clus
vv       2Q GAIN MUTATED 2Q GAIN WILD-TYPE
  CLUS_1               1                11
  CLUS_2               3                 6
  CLUS_3               3                 5
  CLUS_4               3                 9
  CLUS_5               4                 5
  CLUS_6               1                 6
  CLUS_7               2                11
  CLUS_8               0                 9
  CLUS_9               1                 5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(5) Variable = 3P GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  3P GAIN MUTATED        1      3      6      0      5
  3P GAIN WILD-TYPE     30     14     43     27     18
D5V1, multiclass
        clus
vv       3P GAIN MUTATED 3P GAIN WILD-TYPE
  CLUS_1               1                30
  CLUS_2               3                14
  CLUS_3               6                43
  CLUS_4               0                27
  CLUS_5               5                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 GAIN MUTATED        2      5      8
  3P GAIN WILD-TYPE     40     63     29
D5V2, multiclass
        clus
vv       3P GAIN MUTATED 3P GAIN WILD-TYPE
  CLUS_1               2                40
  CLUS_2               5                63
  CLUS_3               8                29
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  3P GAIN MUTATED        7     35      5
  3P GAIN WILD-TYPE     46    186    172
D5V3, multiclass
        clus
vv       3P GAIN MUTATED 3P GAIN WILD-TYPE
  CLUS_1               7                46
  CLUS_2              35               186
  CLUS_3               5               172
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  3P GAIN MUTATED        4     17     11
  3P GAIN WILD-TYPE     81     86     95
D5V4, multiclass
        clus
vv       3P GAIN MUTATED 3P GAIN WILD-TYPE
  CLUS_1               4                81
  CLUS_2              17                86
  CLUS_3              11                95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  3P GAIN MUTATED       13     13     11
  3P GAIN WILD-TYPE     72    132    114
D5V5, multiclass
        clus
vv       3P GAIN MUTATED 3P GAIN WILD-TYPE
  CLUS_1              13                72
  CLUS_2              13               132
  CLUS_3              11               114
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  3P GAIN MUTATED        5      3      7      4      5      4      0      3
  3P GAIN WILD-TYPE     46     30     28     35     38     82     22     17
                   vv
clus                CLUS_9
  3P GAIN MUTATED        6
  3P GAIN WILD-TYPE     20
D5V6, multiclass
        clus
vv       3P GAIN MUTATED 3P GAIN WILD-TYPE
  CLUS_1               5                46
  CLUS_2               3                30
  CLUS_3               7                28
  CLUS_4               4                35
  CLUS_5               5                38
  CLUS_6               4                82
  CLUS_7               0                22
  CLUS_8               3                17
  CLUS_9               6                20
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  3P GAIN MUTATED       16     10     10     11
  3P GAIN WILD-TYPE    111     84     87    120
D5V7, multiclass
        clus
vv       3P GAIN MUTATED 3P GAIN WILD-TYPE
  CLUS_1              16               111
  CLUS_2              10                84
  CLUS_3              10                87
  CLUS_4              11               120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  3P GAIN MUTATED       11     13      7     15      1
  3P GAIN WILD-TYPE     68     95     89    114     36
D5V8, multiclass
        clus
vv       3P GAIN MUTATED 3P GAIN WILD-TYPE
  CLUS_1              11                68
  CLUS_2              13                95
  CLUS_3               7                89
  CLUS_4              15               114
  CLUS_5               1                36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  3P GAIN MUTATED        7      7      9     12      5
  3P GAIN WILD-TYPE     53     81     62     63     99
D5V9, multiclass
        clus
vv       3P GAIN MUTATED 3P GAIN WILD-TYPE
  CLUS_1               7                53
  CLUS_2               7                81
  CLUS_3               9                62
  CLUS_4              12                63
  CLUS_5               5                99
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  3P GAIN MUTATED       12      6      5      0      5      0      5      2
  3P GAIN WILD-TYPE     67     49     41     17     50     20     21     40
                   vv
clus                CLUS_9
  3P GAIN MUTATED        5
  3P GAIN WILD-TYPE     53
D5V10, multiclass
        clus
vv       3P GAIN MUTATED 3P GAIN WILD-TYPE
  CLUS_1              12                67
  CLUS_2               6                49
  CLUS_3               5                41
  CLUS_4               0                17
  CLUS_5               5                50
  CLUS_6               0                20
  CLUS_7               5                21
  CLUS_8               2                40
  CLUS_9               5                53
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  3P GAIN MUTATED        4      2      0      2      0      4
  3P GAIN WILD-TYPE     14     18     16      9     11      5
D5V11, multiclass
        clus
vv       3P GAIN MUTATED 3P GAIN WILD-TYPE
  CLUS_1               4                14
  CLUS_2               2                18
  CLUS_3               0                16
  CLUS_4               2                 9
  CLUS_5               0                11
  CLUS_6               4                 5
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  3P GAIN MUTATED        3      0      3      2      0      1      1      1
  3P GAIN WILD-TYPE      9      9      5     10      9      6     12      8
                   vv
clus                CLUS_9
  3P GAIN MUTATED        1
  3P GAIN WILD-TYPE      5
D5V12, multiclass
        clus
vv       3P GAIN MUTATED 3P GAIN WILD-TYPE
  CLUS_1               3                 9
  CLUS_2               0                 9
  CLUS_3               3                 5
  CLUS_4               2                10
  CLUS_5               0                 9
  CLUS_6               1                 6
  CLUS_7               1                12
  CLUS_8               1                 8
  CLUS_9               1                 5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(6) Variable = 3Q GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  3Q GAIN MUTATED        1      4      8      0      7
  3Q GAIN WILD-TYPE     30     13     41     27     16
D6V1, multiclass
        clus
vv       3Q GAIN MUTATED 3Q GAIN WILD-TYPE
  CLUS_1               1                30
  CLUS_2               4                13
  CLUS_3               8                41
  CLUS_4               0                27
  CLUS_5               7                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
  3Q GAIN MUTATED        2      6     12
  3Q GAIN WILD-TYPE     40     62     25
D6V2, multiclass
        clus
vv       3Q GAIN MUTATED 3Q GAIN WILD-TYPE
  CLUS_1               2                40
  CLUS_2               6                62
  CLUS_3              12                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
  3Q GAIN MUTATED        8     50      6
  3Q GAIN WILD-TYPE     45    171    171
D6V3, multiclass
        clus
vv       3Q GAIN MUTATED 3Q GAIN WILD-TYPE
  CLUS_1               8                45
  CLUS_2              50               171
  CLUS_3               6               171
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  3Q GAIN MUTATED        8     22     14
  3Q GAIN WILD-TYPE     77     81     92
D6V4, multiclass
        clus
vv       3Q GAIN MUTATED 3Q GAIN WILD-TYPE
  CLUS_1               8                77
  CLUS_2              22                81
  CLUS_3              14                92
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  3Q GAIN MUTATED       14     17     17
  3Q GAIN WILD-TYPE     71    128    108
D6V5, multiclass
        clus
vv       3Q GAIN MUTATED 3Q GAIN WILD-TYPE
  CLUS_1              14                71
  CLUS_2              17               128
  CLUS_3              17               108
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  3Q GAIN MUTATED        7      3      7      5      6      8      1      4
  3Q GAIN WILD-TYPE     44     30     28     34     37     78     21     16
                   vv
clus                CLUS_9
  3Q GAIN MUTATED        7
  3Q GAIN WILD-TYPE     19
D6V6, multiclass
        clus
vv       3Q GAIN MUTATED 3Q GAIN WILD-TYPE
  CLUS_1               7                44
  CLUS_2               3                30
  CLUS_3               7                28
  CLUS_4               5                34
  CLUS_5               6                37
  CLUS_6               8                78
  CLUS_7               1                21
  CLUS_8               4                16
  CLUS_9               7                19
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  3Q GAIN MUTATED       23     11     13     17
  3Q GAIN WILD-TYPE    104     83     84    114
D6V7, multiclass
        clus
vv       3Q GAIN MUTATED 3Q GAIN WILD-TYPE
  CLUS_1              23               104
  CLUS_2              11                83
  CLUS_3              13                84
  CLUS_4              17               114
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  3Q GAIN MUTATED       15     19      8     21      1
  3Q GAIN WILD-TYPE     64     89     88    108     36
D6V8, multiclass
        clus
vv       3Q GAIN MUTATED 3Q GAIN WILD-TYPE
  CLUS_1              15                64
  CLUS_2              19                89
  CLUS_3               8                88
  CLUS_4              21               108
  CLUS_5               1                36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  3Q GAIN MUTATED       11      8     14     14      9
  3Q GAIN WILD-TYPE     49     80     57     61     95
D6V9, multiclass
        clus
vv       3Q GAIN MUTATED 3Q GAIN WILD-TYPE
  CLUS_1              11                49
  CLUS_2               8                80
  CLUS_3              14                57
  CLUS_4              14                61
  CLUS_5               9                95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  3Q GAIN MUTATED       16      6      7      0      7      2      6      3
  3Q GAIN WILD-TYPE     63     49     39     17     48     18     20     39
                   vv
clus                CLUS_9
  3Q GAIN MUTATED        9
  3Q GAIN WILD-TYPE     49
D6V10, multiclass
        clus
vv       3Q GAIN MUTATED 3Q GAIN WILD-TYPE
  CLUS_1              16                63
  CLUS_2               6                49
  CLUS_3               7                39
  CLUS_4               0                17
  CLUS_5               7                48
  CLUS_6               2                18
  CLUS_7               6                20
  CLUS_8               3                39
  CLUS_9               9                49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  3Q GAIN MUTATED        5      3      0      3      0      5
  3Q GAIN WILD-TYPE     13     17     16      8     11      4
D6V11, multiclass
        clus
vv       3Q GAIN MUTATED 3Q GAIN WILD-TYPE
  CLUS_1               5                13
  CLUS_2               3                17
  CLUS_3               0                16
  CLUS_4               3                 8
  CLUS_5               0                11
  CLUS_6               5                 4
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  3Q GAIN MUTATED        3      1      3      2      0      3      1      1
  3Q GAIN WILD-TYPE      9      8      5     10      9      4     12      8
                   vv
clus                CLUS_9
  3Q GAIN MUTATED        2
  3Q GAIN WILD-TYPE      4
D6V12, multiclass
        clus
vv       3Q GAIN MUTATED 3Q GAIN WILD-TYPE
  CLUS_1               3                 9
  CLUS_2               1                 8
  CLUS_3               3                 5
  CLUS_4               2                10
  CLUS_5               0                 9
  CLUS_6               3                 4
  CLUS_7               1                12
  CLUS_8               1                 8
  CLUS_9               2                 4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(7) Variable = 4P GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  4P GAIN MUTATED        0      0      1      0      1
  4P GAIN WILD-TYPE     31     17     48     27     22
D7V1, multiclass
[1] "Remove cluster labels:" "4P GAIN MUTATED"       
clus
  4P GAIN MUTATED 4P GAIN WILD-TYPE 
                2               145 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3809 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516        TCGA-AA-3517 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520        TCGA-AA-3521 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525        TCGA-AA-3526 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530        TCGA-AA-3531 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538        TCGA-AA-3542 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548        TCGA-AA-3549 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554        TCGA-AA-3555 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3561        TCGA-AA-3562 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-AA-3664        TCGA-AA-3666        TCGA-AA-3667        TCGA-AA-3672 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-AA-3673        TCGA-AA-3675        TCGA-AA-3678        TCGA-AA-3679 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684        TCGA-AA-3685 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693        TCGA-AA-3696 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811        TCGA-AA-3812 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-AA-3814        TCGA-AA-3818        TCGA-AA-3819        TCGA-AA-3821 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-AA-3831        TCGA-AA-3833        TCGA-AA-3837        TCGA-AA-3841 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845        TCGA-AA-3846 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851        TCGA-AA-3852 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856        TCGA-AA-3858 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-AA-3860        TCGA-AA-3864        TCGA-AA-3866        TCGA-AA-3867 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-AA-3869        TCGA-AA-3870        TCGA-AA-3872        TCGA-AA-3875 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-AA-3877        TCGA-AA-3930        TCGA-AA-3939        TCGA-AA-3941 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-AA-3947        TCGA-AA-3949        TCGA-AA-3950        TCGA-AA-3952 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3966        TCGA-AA-3968 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973        TCGA-AA-3975 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979        TCGA-AA-3984 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-AA-3986        TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-AA-A00A        TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-AA-A00J        TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-AA-A00O        TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-AA-A00W        TCGA-AA-A00Z        TCGA-AA-A010        TCGA-AA-A017 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-AA-A01C        TCGA-AA-A01D        TCGA-AA-A01F        TCGA-AA-A01G 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-AA-A01I        TCGA-AA-A01K        TCGA-AA-A01Q        TCGA-AA-A024 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-AA-A029        TCGA-AA-A02E        TCGA-AA-A02F        TCGA-AA-A02H 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-AA-A02J        TCGA-AA-A02R        TCGA-AA-A02W        TCGA-AY-4070 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-AY-4071 
"4P GAIN WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  4P GAIN MUTATED        0      1      1
  4P GAIN WILD-TYPE     42     67     36
D7V2, multiclass
[1] "Remove cluster labels:" "4P GAIN MUTATED"       
clus
  4P GAIN MUTATED 4P GAIN WILD-TYPE 
                2               145 
       TCGA-A6-2672        TCGA-A6-2674        TCGA-A6-2676        TCGA-A6-2677 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-A6-2678        TCGA-A6-2683        TCGA-A6-3807        TCGA-A6-3809 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-A6-3810        TCGA-AA-3514        TCGA-AA-3516        TCGA-AA-3517 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-AA-3518        TCGA-AA-3519        TCGA-AA-3520        TCGA-AA-3521 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-AA-3522        TCGA-AA-3524        TCGA-AA-3525        TCGA-AA-3526 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-AA-3527        TCGA-AA-3529        TCGA-AA-3530        TCGA-AA-3531 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-AA-3532        TCGA-AA-3534        TCGA-AA-3538        TCGA-AA-3542 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-AA-3543        TCGA-AA-3544        TCGA-AA-3548        TCGA-AA-3549 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-AA-3552        TCGA-AA-3553        TCGA-AA-3554        TCGA-AA-3555 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-AA-3556        TCGA-AA-3558        TCGA-AA-3561        TCGA-AA-3562 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-AA-3664        TCGA-AA-3666        TCGA-AA-3667        TCGA-AA-3672 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-AA-3673        TCGA-AA-3675        TCGA-AA-3678        TCGA-AA-3679 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-AA-3680        TCGA-AA-3681        TCGA-AA-3684        TCGA-AA-3685 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-AA-3688        TCGA-AA-3692        TCGA-AA-3693        TCGA-AA-3696 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-AA-3710        TCGA-AA-3715        TCGA-AA-3811        TCGA-AA-3812 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-AA-3814        TCGA-AA-3818        TCGA-AA-3819        TCGA-AA-3821 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-AA-3831        TCGA-AA-3833        TCGA-AA-3837        TCGA-AA-3841 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-AA-3842        TCGA-AA-3844        TCGA-AA-3845        TCGA-AA-3846 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-AA-3848        TCGA-AA-3850        TCGA-AA-3851        TCGA-AA-3852 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-AA-3854        TCGA-AA-3855        TCGA-AA-3856        TCGA-AA-3858 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-AA-3860        TCGA-AA-3864        TCGA-AA-3866        TCGA-AA-3867 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-AA-3869        TCGA-AA-3870        TCGA-AA-3872        TCGA-AA-3875 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-AA-3877        TCGA-AA-3930        TCGA-AA-3939        TCGA-AA-3941 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-AA-3947        TCGA-AA-3949        TCGA-AA-3950        TCGA-AA-3952 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-AA-3955        TCGA-AA-3956        TCGA-AA-3966        TCGA-AA-3968 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973        TCGA-AA-3975 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-AA-3976        TCGA-AA-3977        TCGA-AA-3979        TCGA-AA-3984 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-AA-3986        TCGA-AA-3989        TCGA-AA-3994        TCGA-AA-A004 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-AA-A00A        TCGA-AA-A00D        TCGA-AA-A00E        TCGA-AA-A00F 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-AA-A00J        TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-AA-A00O        TCGA-AA-A00Q        TCGA-AA-A00R        TCGA-AA-A00U 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-AA-A00W        TCGA-AA-A00Z        TCGA-AA-A010        TCGA-AA-A017 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-AA-A01C        TCGA-AA-A01D        TCGA-AA-A01F        TCGA-AA-A01G 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-AA-A01I        TCGA-AA-A01K        TCGA-AA-A01Q        TCGA-AA-A024 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-AA-A029        TCGA-AA-A02E        TCGA-AA-A02F        TCGA-AA-A02H 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-AA-A02J        TCGA-AA-A02R        TCGA-AA-A02W        TCGA-AY-4070 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-AY-4071 
"4P GAIN WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  4P GAIN MUTATED        2     10      0
  4P GAIN WILD-TYPE     51    211    177
D7V3, multiclass
        clus
vv       4P GAIN MUTATED 4P GAIN WILD-TYPE
  CLUS_1               2                51
  CLUS_2              10               211
  CLUS_3               0               177
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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      6      1
  4P GAIN WILD-TYPE     82     97    105
D7V4, multiclass
        clus
vv       4P GAIN MUTATED 4P GAIN WILD-TYPE
  CLUS_1               3                82
  CLUS_2               6                97
  CLUS_3               1               105
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  4P GAIN MUTATED        5      1      4
  4P GAIN WILD-TYPE     80    144    121
D7V5, multiclass
        clus
vv       4P GAIN MUTATED 4P GAIN WILD-TYPE
  CLUS_1               5                80
  CLUS_2               1               144
  CLUS_3               4               121
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  4P GAIN MUTATED        3      0      0      0      2      5      0      0
  4P GAIN WILD-TYPE     48     33     35     39     41     81     22     20
                   vv
clus                CLUS_9
  4P GAIN MUTATED        0
  4P GAIN WILD-TYPE     26
D7V6, multiclass
        clus
vv       4P GAIN MUTATED 4P GAIN WILD-TYPE
  CLUS_1               3                48
  CLUS_2               0                33
  CLUS_3               0                35
  CLUS_4               0                39
  CLUS_5               2                41
  CLUS_6               5                81
  CLUS_7               0                22
  CLUS_8               0                20
  CLUS_9               0                26
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger 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        6      0      2      4
  4P GAIN WILD-TYPE    121     94     95    127
D7V7, multiclass
        clus
vv       4P GAIN MUTATED 4P GAIN WILD-TYPE
  CLUS_1               6               121
  CLUS_2               0                94
  CLUS_3               2                95
  CLUS_4               4               127
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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        3      4      1      4      0
  4P GAIN WILD-TYPE     76    104     95    125     37
D7V8, multiclass
        clus
vv       4P GAIN MUTATED 4P GAIN WILD-TYPE
  CLUS_1               3                76
  CLUS_2               4               104
  CLUS_3               1                95
  CLUS_4               4               125
  CLUS_5               0                37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  4P GAIN MUTATED        2      1      2      0      2
  4P GAIN WILD-TYPE     58     87     69     75    102
D7V9, multiclass
        clus
vv       4P GAIN MUTATED 4P GAIN WILD-TYPE
  CLUS_1               2                58
  CLUS_2               1                87
  CLUS_3               2                69
  CLUS_4               0                75
  CLUS_5               2               102
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  4P GAIN MUTATED        0      1      0      0      2      0      2      1
  4P GAIN WILD-TYPE     79     54     46     17     53     20     24     41
                   vv
clus                CLUS_9
  4P GAIN MUTATED        1
  4P GAIN WILD-TYPE     57
D7V10, multiclass
        clus
vv       4P GAIN MUTATED 4P GAIN WILD-TYPE
  CLUS_1               0                79
  CLUS_2               1                54
  CLUS_3               0                46
  CLUS_4               0                17
  CLUS_5               2                53
  CLUS_6               0                20
  CLUS_7               2                24
  CLUS_8               1                41
  CLUS_9               1                57
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  4P GAIN MUTATED        0      0      0      0      0      1
  4P GAIN WILD-TYPE     18     20     16     11     11      8
D7V11, multiclass
[1] "Remove cluster labels:" "4P GAIN MUTATED"       
clus
  4P GAIN MUTATED 4P GAIN WILD-TYPE 
                1                84 
       TCGA-A6-2675        TCGA-A6-5657        TCGA-A6-5667        TCGA-A6-6137 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-A6-6138        TCGA-A6-6140        TCGA-A6-6141        TCGA-A6-6142 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-A6-6649        TCGA-A6-6650        TCGA-A6-6651        TCGA-A6-6653 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-AY-6196        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-AZ-6598        TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-AZ-6605        TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-CK-5916        TCGA-CK-6748        TCGA-CM-4751        TCGA-CM-5860 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-CM-6167        TCGA-CM-6674        TCGA-CM-6676        TCGA-CM-6677 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-CM-6678        TCGA-CM-6679        TCGA-CM-6680        TCGA-D5-5537 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-D5-6533        TCGA-D5-6534        TCGA-D5-6536        TCGA-D5-6922 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-D5-6924        TCGA-DM-A0XD        TCGA-DM-A0XF        TCGA-DM-A1D0 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-DM-A1D7        TCGA-DM-A1D8        TCGA-DM-A1D9        TCGA-DM-A1DA 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-DM-A1HA        TCGA-DM-A280        TCGA-DM-A282        TCGA-DM-A285 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460        TCGA-F4-6569 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-F4-6570        TCGA-F4-6805        TCGA-F4-6807        TCGA-F4-6808 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-F4-6809        TCGA-G4-6294        TCGA-G4-6295        TCGA-G4-6299 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-G4-6302        TCGA-G4-6303        TCGA-G4-6306        TCGA-G4-6309 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-G4-6314        TCGA-G4-6625        TCGA-G4-6627        TCGA-G4-6628 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  4P GAIN MUTATED        0      0      0      0      0      1      0      0
  4P GAIN WILD-TYPE     12      9      8     12      9      6     13      9
                   vv
clus                CLUS_9
  4P GAIN MUTATED        0
  4P GAIN WILD-TYPE      6
D7V12, multiclass
[1] "Remove cluster labels:" "4P GAIN MUTATED"       
clus
  4P GAIN MUTATED 4P GAIN WILD-TYPE 
                1                84 
       TCGA-A6-2675        TCGA-A6-5657        TCGA-A6-5667        TCGA-A6-6137 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-A6-6138        TCGA-A6-6140        TCGA-A6-6141        TCGA-A6-6142 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-A6-6649        TCGA-A6-6650        TCGA-A6-6651        TCGA-A6-6653 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-AY-6196        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-AZ-6598        TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-AZ-6605        TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-CK-5916        TCGA-CK-6748        TCGA-CM-4751        TCGA-CM-5860 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-CM-6167        TCGA-CM-6674        TCGA-CM-6676        TCGA-CM-6677 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-CM-6678        TCGA-CM-6679        TCGA-CM-6680        TCGA-D5-5537 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-D5-6533        TCGA-D5-6534        TCGA-D5-6536        TCGA-D5-6922 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-D5-6924        TCGA-DM-A0XD        TCGA-DM-A0XF        TCGA-DM-A1D0 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-DM-A1D7        TCGA-DM-A1D8        TCGA-DM-A1D9        TCGA-DM-A1DA 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-DM-A1HA        TCGA-DM-A280        TCGA-DM-A282        TCGA-DM-A285 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-DM-A28F        TCGA-F4-6459        TCGA-F4-6460        TCGA-F4-6569 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-F4-6570        TCGA-F4-6805        TCGA-F4-6807        TCGA-F4-6808 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-F4-6809        TCGA-G4-6294        TCGA-G4-6295        TCGA-G4-6299 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-G4-6302        TCGA-G4-6303        TCGA-G4-6306        TCGA-G4-6309 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-G4-6314        TCGA-G4-6625        TCGA-G4-6627        TCGA-G4-6628 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 

Clustering(8) Variable = 4Q GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  4Q GAIN MUTATED        0      1      3      0      2
  4Q GAIN WILD-TYPE     31     16     46     27     21
D8V1, multiclass
        clus
vv       4Q GAIN MUTATED 4Q GAIN WILD-TYPE
  CLUS_1               0                31
  CLUS_2               1                16
  CLUS_3               3                46
  CLUS_4               0                27
  CLUS_5               2                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
  4Q GAIN MUTATED        0      3      3
  4Q GAIN WILD-TYPE     42     65     34
D8V2, multiclass
        clus
vv       4Q GAIN MUTATED 4Q GAIN WILD-TYPE
  CLUS_1               0                42
  CLUS_2               3                65
  CLUS_3               3                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
  4Q GAIN MUTATED        3     13      1
  4Q GAIN WILD-TYPE     50    208    176
D8V3, multiclass
        clus
vv       4Q GAIN MUTATED 4Q GAIN WILD-TYPE
  CLUS_1               3                50
  CLUS_2              13               208
  CLUS_3               1               176
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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        3      6      3
  4Q GAIN WILD-TYPE     82     97    103
D8V4, multiclass
        clus
vv       4Q GAIN MUTATED 4Q GAIN WILD-TYPE
  CLUS_1               3                82
  CLUS_2               6                97
  CLUS_3               3               103
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  4Q GAIN MUTATED        5      4      3
  4Q GAIN WILD-TYPE     80    141    122
D8V5, multiclass
        clus
vv       4Q GAIN MUTATED 4Q GAIN WILD-TYPE
  CLUS_1               5                80
  CLUS_2               4               141
  CLUS_3               3               122
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  4Q GAIN MUTATED        4      0      0      1      3      4      0      0
  4Q GAIN WILD-TYPE     47     33     35     38     40     82     22     20
                   vv
clus                CLUS_9
  4Q GAIN MUTATED        0
  4Q GAIN WILD-TYPE     26
D8V6, multiclass
        clus
vv       4Q GAIN MUTATED 4Q GAIN WILD-TYPE
  CLUS_1               4                47
  CLUS_2               0                33
  CLUS_3               0                35
  CLUS_4               1                38
  CLUS_5               3                40
  CLUS_6               4                82
  CLUS_7               0                22
  CLUS_8               0                20
  CLUS_9               0                26
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger 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        7      1      4      5
  4Q GAIN WILD-TYPE    120     93     93    126
D8V7, multiclass
        clus
vv       4Q GAIN MUTATED 4Q GAIN WILD-TYPE
  CLUS_1               7               120
  CLUS_2               1                93
  CLUS_3               4                93
  CLUS_4               5               126
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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      4      4      8      0
  4Q GAIN WILD-TYPE     78    104     92    121     37
D8V8, multiclass
        clus
vv       4Q GAIN MUTATED 4Q GAIN WILD-TYPE
  CLUS_1               1                78
  CLUS_2               4               104
  CLUS_3               4                92
  CLUS_4               8               121
  CLUS_5               0                37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  4Q GAIN MUTATED        2      1      3      2      5
  4Q GAIN WILD-TYPE     58     87     68     73     99
D8V9, multiclass
        clus
vv       4Q GAIN MUTATED 4Q GAIN WILD-TYPE
  CLUS_1               2                58
  CLUS_2               1                87
  CLUS_3               3                68
  CLUS_4               2                73
  CLUS_5               5                99
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  4Q GAIN MUTATED        0      2      1      0      2      0      4      2
  4Q GAIN WILD-TYPE     79     53     45     17     53     20     22     40
                   vv
clus                CLUS_9
  4Q GAIN MUTATED        2
  4Q GAIN WILD-TYPE     56
D8V10, multiclass
        clus
vv       4Q GAIN MUTATED 4Q GAIN WILD-TYPE
  CLUS_1               0                79
  CLUS_2               2                53
  CLUS_3               1                45
  CLUS_4               0                17
  CLUS_5               2                53
  CLUS_6               0                20
  CLUS_7               4                22
  CLUS_8               2                40
  CLUS_9               2                56
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  4Q GAIN MUTATED        0      1      0      0      0      1
  4Q GAIN WILD-TYPE     18     19     16     11     11      8
D8V11, multiclass
[1] "Remove cluster labels:" "4Q GAIN MUTATED"       
clus
  4Q GAIN MUTATED 4Q GAIN WILD-TYPE 
                2                83 
       TCGA-A6-2675        TCGA-A6-5657        TCGA-A6-5667        TCGA-A6-6137 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-A6-6138        TCGA-A6-6140        TCGA-A6-6141        TCGA-A6-6142 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-A6-6649        TCGA-A6-6650        TCGA-A6-6651        TCGA-A6-6653 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-AY-6196        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-AZ-6598        TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-AZ-6605        TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-CK-6748        TCGA-CM-4751        TCGA-CM-5860        TCGA-CM-6167 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-CM-6674        TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-CM-6679        TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-D5-6534        TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-DM-A0XD        TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-DM-A1D8        TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-DM-A280        TCGA-DM-A282        TCGA-DM-A285        TCGA-DM-A28F 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-F4-6459        TCGA-F4-6460        TCGA-F4-6569        TCGA-F4-6570 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-F4-6805        TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-G4-6294        TCGA-G4-6295        TCGA-G4-6299        TCGA-G4-6302 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-G4-6303        TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6314 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-G4-6625        TCGA-G4-6627        TCGA-G4-6628 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  4Q GAIN MUTATED        0      0      0      0      0      2      0      0
  4Q GAIN WILD-TYPE     12      9      8     12      9      5     13      9
                   vv
clus                CLUS_9
  4Q GAIN MUTATED        0
  4Q GAIN WILD-TYPE      6
D8V12, multiclass
[1] "Remove cluster labels:" "4Q GAIN MUTATED"       
clus
  4Q GAIN MUTATED 4Q GAIN WILD-TYPE 
                2                83 
       TCGA-A6-2675        TCGA-A6-5657        TCGA-A6-5667        TCGA-A6-6137 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-A6-6138        TCGA-A6-6140        TCGA-A6-6141        TCGA-A6-6142 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-A6-6649        TCGA-A6-6650        TCGA-A6-6651        TCGA-A6-6653 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-AA-3511        TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-AD-6901        TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-AY-6196        TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-AZ-6598        TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-AZ-6605        TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-CK-6748        TCGA-CM-4751        TCGA-CM-5860        TCGA-CM-6167 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-CM-6674        TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-CM-6679        TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-D5-6534        TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-DM-A0XD        TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-DM-A1D8        TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-DM-A280        TCGA-DM-A282        TCGA-DM-A285        TCGA-DM-A28F 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-F4-6459        TCGA-F4-6460        TCGA-F4-6569        TCGA-F4-6570 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-F4-6805        TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-G4-6294        TCGA-G4-6295        TCGA-G4-6299        TCGA-G4-6302 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-G4-6303        TCGA-G4-6306        TCGA-G4-6309        TCGA-G4-6314 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-G4-6625        TCGA-G4-6627        TCGA-G4-6628 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 

Clustering(9) Variable = 5P GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  5P GAIN MUTATED        1      5     10      2      4
  5P GAIN WILD-TYPE     30     12     39     25     19
D9V1, multiclass
        clus
vv       5P GAIN MUTATED 5P GAIN WILD-TYPE
  CLUS_1               1                30
  CLUS_2               5                12
  CLUS_3              10                39
  CLUS_4               2                25
  CLUS_5               4                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
  5P GAIN MUTATED        3     10      9
  5P GAIN WILD-TYPE     39     58     28
D9V2, multiclass
        clus
vv       5P GAIN MUTATED 5P GAIN WILD-TYPE
  CLUS_1               3                39
  CLUS_2              10                58
  CLUS_3               9                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
  5P GAIN MUTATED       17     41     12
  5P GAIN WILD-TYPE     36    180    165
D9V3, multiclass
        clus
vv       5P GAIN MUTATED 5P GAIN WILD-TYPE
  CLUS_1              17                36
  CLUS_2              41               180
  CLUS_3              12               165
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       12     16     19
  5P GAIN WILD-TYPE     73     87     87
D9V4, multiclass
        clus
vv       5P GAIN MUTATED 5P GAIN WILD-TYPE
  CLUS_1              12                73
  CLUS_2              16                87
  CLUS_3              19                87
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       19     22     16
  5P GAIN WILD-TYPE     66    123    109
D9V5, multiclass
        clus
vv       5P GAIN MUTATED 5P GAIN WILD-TYPE
  CLUS_1              19                66
  CLUS_2              22               123
  CLUS_3              16               109
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  5P GAIN MUTATED       11      2      7      7      7     13      3      3
  5P GAIN WILD-TYPE     40     31     28     32     36     73     19     17
                   vv
clus                CLUS_9
  5P GAIN MUTATED        4
  5P GAIN WILD-TYPE     22
D9V6, multiclass
        clus
vv       5P GAIN MUTATED 5P GAIN WILD-TYPE
  CLUS_1              11                40
  CLUS_2               2                31
  CLUS_3               7                28
  CLUS_4               7                32
  CLUS_5               7                36
  CLUS_6              13                73
  CLUS_7               3                19
  CLUS_8               3                17
  CLUS_9               4                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger 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       23      9     16     22
  5P GAIN WILD-TYPE    104     85     81    109
D9V7, multiclass
        clus
vv       5P GAIN MUTATED 5P GAIN WILD-TYPE
  CLUS_1              23               104
  CLUS_2               9                85
  CLUS_3              16                81
  CLUS_4              22               109
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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       18     15     11     24      2
  5P GAIN WILD-TYPE     61     93     85    105     35
D9V8, multiclass
        clus
vv       5P GAIN MUTATED 5P GAIN WILD-TYPE
  CLUS_1              18                61
  CLUS_2              15                93
  CLUS_3              11                85
  CLUS_4              24               105
  CLUS_5               2                35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  5P GAIN MUTATED       10     10     15     15     12
  5P GAIN WILD-TYPE     50     78     56     60     92
D9V9, multiclass
        clus
vv       5P GAIN MUTATED 5P GAIN WILD-TYPE
  CLUS_1              10                50
  CLUS_2              10                78
  CLUS_3              15                56
  CLUS_4              15                60
  CLUS_5              12                92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  5P GAIN MUTATED       11      8      7      2      8      2      6      5
  5P GAIN WILD-TYPE     68     47     39     15     47     18     20     37
                   vv
clus                CLUS_9
  5P GAIN MUTATED       13
  5P GAIN WILD-TYPE     45
D9V10, multiclass
        clus
vv       5P GAIN MUTATED 5P GAIN WILD-TYPE
  CLUS_1              11                68
  CLUS_2               8                47
  CLUS_3               7                39
  CLUS_4               2                15
  CLUS_5               8                47
  CLUS_6               2                18
  CLUS_7               6                20
  CLUS_8               5                37
  CLUS_9              13                45
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  5P GAIN MUTATED        4      4      0      3      1      3
  5P GAIN WILD-TYPE     14     16     16      8     10      6
D9V11, multiclass
        clus
vv       5P GAIN MUTATED 5P GAIN WILD-TYPE
  CLUS_1               4                14
  CLUS_2               4                16
  CLUS_3               0                16
  CLUS_4               3                 8
  CLUS_5               1                10
  CLUS_6               3                 6
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  5P GAIN MUTATED        2      3      1      3      0      2      2      2
  5P GAIN WILD-TYPE     10      6      7      9      9      5     11      7
                   vv
clus                CLUS_9
  5P GAIN MUTATED        0
  5P GAIN WILD-TYPE      6
D9V12, multiclass
        clus
vv       5P GAIN MUTATED 5P GAIN WILD-TYPE
  CLUS_1               2                10
  CLUS_2               3                 6
  CLUS_3               1                 7
  CLUS_4               3                 9
  CLUS_5               0                 9
  CLUS_6               2                 5
  CLUS_7               2                11
  CLUS_8               2                 7
  CLUS_9               0                 6
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(10) Variable = 5Q GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  5Q GAIN MUTATED        1      3      5      2      3
  5Q GAIN WILD-TYPE     30     14     44     25     20
D10V1, multiclass
        clus
vv       5Q GAIN MUTATED 5Q GAIN WILD-TYPE
  CLUS_1               1                30
  CLUS_2               3                14
  CLUS_3               5                44
  CLUS_4               2                25
  CLUS_5               3                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
  5Q GAIN MUTATED        3      8      3
  5Q GAIN WILD-TYPE     39     60     34
D10V2, multiclass
        clus
vv       5Q GAIN MUTATED 5Q GAIN WILD-TYPE
  CLUS_1               3                39
  CLUS_2               8                60
  CLUS_3               3                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
  5Q GAIN MUTATED       10     26      6
  5Q GAIN WILD-TYPE     43    195    171
D10V3, multiclass
        clus
vv       5Q GAIN MUTATED 5Q GAIN WILD-TYPE
  CLUS_1              10                43
  CLUS_2              26               195
  CLUS_3               6               171
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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        6     10     11
  5Q GAIN WILD-TYPE     79     93     95
D10V4, multiclass
        clus
vv       5Q GAIN MUTATED 5Q GAIN WILD-TYPE
  CLUS_1               6                79
  CLUS_2              10                93
  CLUS_3              11                95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  5Q GAIN MUTATED        9     16      9
  5Q GAIN WILD-TYPE     76    129    116
D10V5, multiclass
        clus
vv       5Q GAIN MUTATED 5Q GAIN WILD-TYPE
  CLUS_1               9                76
  CLUS_2              16               129
  CLUS_3               9               116
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  5Q GAIN MUTATED        6      2      6      5      3      8      2      1
  5Q GAIN WILD-TYPE     45     31     29     34     40     78     20     19
                   vv
clus                CLUS_9
  5Q GAIN MUTATED        1
  5Q GAIN WILD-TYPE     25
D10V6, multiclass
        clus
vv       5Q GAIN MUTATED 5Q GAIN WILD-TYPE
  CLUS_1               6                45
  CLUS_2               2                31
  CLUS_3               6                29
  CLUS_4               5                34
  CLUS_5               3                40
  CLUS_6               8                78
  CLUS_7               2                20
  CLUS_8               1                19
  CLUS_9               1                25
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger 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       14      6      6     16
  5Q GAIN WILD-TYPE    113     88     91    115
D10V7, multiclass
        clus
vv       5Q GAIN MUTATED 5Q GAIN WILD-TYPE
  CLUS_1              14               113
  CLUS_2               6                88
  CLUS_3               6                91
  CLUS_4              16               115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  5Q GAIN MUTATED       11      9      4     16      2
  5Q GAIN WILD-TYPE     68     99     92    113     35
D10V8, multiclass
        clus
vv       5Q GAIN MUTATED 5Q GAIN WILD-TYPE
  CLUS_1              11                68
  CLUS_2               9                99
  CLUS_3               4                92
  CLUS_4              16               113
  CLUS_5               2                35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  5Q GAIN MUTATED        7      3      8     11      7
  5Q GAIN WILD-TYPE     53     85     63     64     97
D10V9, multiclass
        clus
vv       5Q GAIN MUTATED 5Q GAIN WILD-TYPE
  CLUS_1               7                53
  CLUS_2               3                85
  CLUS_3               8                63
  CLUS_4              11                64
  CLUS_5               7                97
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  5Q GAIN MUTATED        7      6      2      1      0      2      5      4
  5Q GAIN WILD-TYPE     72     49     44     16     55     18     21     38
                   vv
clus                CLUS_9
  5Q GAIN MUTATED        9
  5Q GAIN WILD-TYPE     49
D10V10, multiclass
        clus
vv       5Q GAIN MUTATED 5Q GAIN WILD-TYPE
  CLUS_1               7                72
  CLUS_2               6                49
  CLUS_3               2                44
  CLUS_4               1                16
  CLUS_5               0                55
  CLUS_6               2                18
  CLUS_7               5                21
  CLUS_8               4                38
  CLUS_9               9                49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  5Q GAIN MUTATED        3      2      0      1      1      1
  5Q GAIN WILD-TYPE     15     18     16     10     10      8
D10V11, multiclass
        clus
vv       5Q GAIN MUTATED 5Q GAIN WILD-TYPE
  CLUS_1               3                15
  CLUS_2               2                18
  CLUS_3               0                16
  CLUS_4               1                10
  CLUS_5               1                10
  CLUS_6               1                 8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  5Q GAIN MUTATED        1      2      1      2      0      0      1      1
  5Q GAIN WILD-TYPE     11      7      7     10      9      7     12      8
                   vv
clus                CLUS_9
  5Q GAIN MUTATED        0
  5Q GAIN WILD-TYPE      6
D10V12, multiclass
        clus
vv       5Q GAIN MUTATED 5Q GAIN WILD-TYPE
  CLUS_1               1                11
  CLUS_2               2                 7
  CLUS_3               1                 7
  CLUS_4               2                10
  CLUS_5               0                 9
  CLUS_6               0                 7
  CLUS_7               1                12
  CLUS_8               1                 8
  CLUS_9               0                 6
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(11) Variable = 6P GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  6P GAIN MUTATED        4      5     10      1      8
  6P GAIN WILD-TYPE     27     12     39     26     15
D11V1, multiclass
        clus
vv       6P GAIN MUTATED 6P GAIN WILD-TYPE
  CLUS_1               4                27
  CLUS_2               5                12
  CLUS_3              10                39
  CLUS_4               1                26
  CLUS_5               8                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
  6P GAIN MUTATED        4      8     16
  6P GAIN WILD-TYPE     38     60     21
D11V2, multiclass
        clus
vv       6P GAIN MUTATED 6P GAIN WILD-TYPE
  CLUS_1               4                38
  CLUS_2               8                60
  CLUS_3              16                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
  6P GAIN MUTATED       15     58     11
  6P GAIN WILD-TYPE     38    163    166
D11V3, multiclass
        clus
vv       6P GAIN MUTATED 6P GAIN WILD-TYPE
  CLUS_1              15                38
  CLUS_2              58               163
  CLUS_3              11               166
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       12     25     18
  6P GAIN WILD-TYPE     73     78     88
D11V4, multiclass
        clus
vv       6P GAIN MUTATED 6P GAIN WILD-TYPE
  CLUS_1              12                73
  CLUS_2              25                78
  CLUS_3              18                88
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       22     24     20
  6P GAIN WILD-TYPE     63    121    105
D11V5, multiclass
        clus
vv       6P GAIN MUTATED 6P GAIN WILD-TYPE
  CLUS_1              22                63
  CLUS_2              24               121
  CLUS_3              20               105
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  6P GAIN MUTATED       12      3      9     11      7     14      4      2
  6P GAIN WILD-TYPE     39     30     26     28     36     72     18     18
                   vv
clus                CLUS_9
  6P GAIN MUTATED        4
  6P GAIN WILD-TYPE     22
D11V6, multiclass
        clus
vv       6P GAIN MUTATED 6P GAIN WILD-TYPE
  CLUS_1              12                39
  CLUS_2               3                30
  CLUS_3               9                26
  CLUS_4              11                28
  CLUS_5               7                36
  CLUS_6              14                72
  CLUS_7               4                18
  CLUS_8               2                18
  CLUS_9               4                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger 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       25     11     19     29
  6P GAIN WILD-TYPE    102     83     78    102
D11V7, multiclass
        clus
vv       6P GAIN MUTATED 6P GAIN WILD-TYPE
  CLUS_1              25               102
  CLUS_2              11                83
  CLUS_3              19                78
  CLUS_4              29               102
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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       20     21      9     31      3
  6P GAIN WILD-TYPE     59     87     87     98     34
D11V8, multiclass
        clus
vv       6P GAIN MUTATED 6P GAIN WILD-TYPE
  CLUS_1              20                59
  CLUS_2              21                87
  CLUS_3               9                87
  CLUS_4              31                98
  CLUS_5               3                34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  6P GAIN MUTATED       17     13     11     22     11
  6P GAIN WILD-TYPE     43     75     60     53     93
D11V9, multiclass
        clus
vv       6P GAIN MUTATED 6P GAIN WILD-TYPE
  CLUS_1              17                43
  CLUS_2              13                75
  CLUS_3              11                60
  CLUS_4              22                53
  CLUS_5              11                93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  6P GAIN MUTATED       14     11      9      2     13      1      3      3
  6P GAIN WILD-TYPE     65     44     37     15     42     19     23     39
                   vv
clus                CLUS_9
  6P GAIN MUTATED       18
  6P GAIN WILD-TYPE     40
D11V10, multiclass
        clus
vv       6P GAIN MUTATED 6P GAIN WILD-TYPE
  CLUS_1              14                65
  CLUS_2              11                44
  CLUS_3               9                37
  CLUS_4               2                15
  CLUS_5              13                42
  CLUS_6               1                19
  CLUS_7               3                23
  CLUS_8               3                39
  CLUS_9              18                40
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  6P GAIN MUTATED        4      3      1      3      0      3
  6P GAIN WILD-TYPE     14     17     15      8     11      6
D11V11, multiclass
        clus
vv       6P GAIN MUTATED 6P GAIN WILD-TYPE
  CLUS_1               4                14
  CLUS_2               3                17
  CLUS_3               1                15
  CLUS_4               3                 8
  CLUS_5               0                11
  CLUS_6               3                 6
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  6P GAIN MUTATED        5      0      2      2      1      2      1      1
  6P GAIN WILD-TYPE      7      9      6     10      8      5     12      8
                   vv
clus                CLUS_9
  6P GAIN MUTATED        0
  6P GAIN WILD-TYPE      6
D11V12, multiclass
        clus
vv       6P GAIN MUTATED 6P GAIN WILD-TYPE
  CLUS_1               5                 7
  CLUS_2               0                 9
  CLUS_3               2                 6
  CLUS_4               2                10
  CLUS_5               1                 8
  CLUS_6               2                 5
  CLUS_7               1                12
  CLUS_8               1                 8
  CLUS_9               0                 6
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(12) Variable = 6Q GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  6Q GAIN MUTATED        4      5      7      1      6
  6Q GAIN WILD-TYPE     27     12     42     26     17
D12V1, multiclass
        clus
vv       6Q GAIN MUTATED 6Q GAIN WILD-TYPE
  CLUS_1               4                27
  CLUS_2               5                12
  CLUS_3               7                42
  CLUS_4               1                26
  CLUS_5               6                17
[1] 5 2
[1] TRUE
[1] "dimension of contingency table 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        4      5     14
  6Q GAIN WILD-TYPE     38     63     23
D12V2, multiclass
        clus
vv       6Q GAIN MUTATED 6Q GAIN WILD-TYPE
  CLUS_1               4                38
  CLUS_2               5                63
  CLUS_3              14                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
  6Q GAIN MUTATED        9     55     12
  6Q GAIN WILD-TYPE     44    166    165
D12V3, multiclass
        clus
vv       6Q GAIN MUTATED 6Q GAIN WILD-TYPE
  CLUS_1               9                44
  CLUS_2              55               166
  CLUS_3              12               165
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       10     22     19
  6Q GAIN WILD-TYPE     75     81     87
D12V4, multiclass
        clus
vv       6Q GAIN MUTATED 6Q GAIN WILD-TYPE
  CLUS_1              10                75
  CLUS_2              22                81
  CLUS_3              19                87
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       18     23     18
  6Q GAIN WILD-TYPE     67    122    107
D12V5, multiclass
        clus
vv       6Q GAIN MUTATED 6Q GAIN WILD-TYPE
  CLUS_1              18                67
  CLUS_2              23               122
  CLUS_3              18               107
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  6Q GAIN MUTATED       11      2      8     13      4     13      2      2
  6Q GAIN WILD-TYPE     40     31     27     26     39     73     20     18
                   vv
clus                CLUS_9
  6Q GAIN MUTATED        4
  6Q GAIN WILD-TYPE     22
D12V6, multiclass
        clus
vv       6Q GAIN MUTATED 6Q GAIN WILD-TYPE
  CLUS_1              11                40
  CLUS_2               2                31
  CLUS_3               8                27
  CLUS_4              13                26
  CLUS_5               4                39
  CLUS_6              13                73
  CLUS_7               2                20
  CLUS_8               2                18
  CLUS_9               4                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger 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       25     12     16     23
  6Q GAIN WILD-TYPE    102     82     81    108
D12V7, multiclass
        clus
vv       6Q GAIN MUTATED 6Q GAIN WILD-TYPE
  CLUS_1              25               102
  CLUS_2              12                82
  CLUS_3              16                81
  CLUS_4              23               108
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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       18     20     10     25      3
  6Q GAIN WILD-TYPE     61     88     86    104     34
D12V8, multiclass
        clus
vv       6Q GAIN MUTATED 6Q GAIN WILD-TYPE
  CLUS_1              18                61
  CLUS_2              20                88
  CLUS_3              10                86
  CLUS_4              25               104
  CLUS_5               3                34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  6Q GAIN MUTATED       16     12     10     20     10
  6Q GAIN WILD-TYPE     44     76     61     55     94
D12V9, multiclass
        clus
vv       6Q GAIN MUTATED 6Q GAIN WILD-TYPE
  CLUS_1              16                44
  CLUS_2              12                76
  CLUS_3              10                61
  CLUS_4              20                55
  CLUS_5              10                94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  6Q GAIN MUTATED       13      9      8      2     15      1      2      4
  6Q GAIN WILD-TYPE     66     46     38     15     40     19     24     38
                   vv
clus                CLUS_9
  6Q GAIN MUTATED       14
  6Q GAIN WILD-TYPE     44
D12V10, multiclass
        clus
vv       6Q GAIN MUTATED 6Q GAIN WILD-TYPE
  CLUS_1              13                66
  CLUS_2               9                46
  CLUS_3               8                38
  CLUS_4               2                15
  CLUS_5              15                40
  CLUS_6               1                19
  CLUS_7               2                24
  CLUS_8               4                38
  CLUS_9              14                44
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  6Q GAIN MUTATED        4      3      2      3      0      2
  6Q GAIN WILD-TYPE     14     17     14      8     11      7
D12V11, multiclass
        clus
vv       6Q GAIN MUTATED 6Q GAIN WILD-TYPE
  CLUS_1               4                14
  CLUS_2               3                17
  CLUS_3               2                14
  CLUS_4               3                 8
  CLUS_5               0                11
  CLUS_6               2                 7
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  6Q GAIN MUTATED        5      0      2      2      2      1      1      1
  6Q GAIN WILD-TYPE      7      9      6     10      7      6     12      8
                   vv
clus                CLUS_9
  6Q GAIN MUTATED        0
  6Q GAIN WILD-TYPE      6
D12V12, multiclass
        clus
vv       6Q GAIN MUTATED 6Q GAIN WILD-TYPE
  CLUS_1               5                 7
  CLUS_2               0                 9
  CLUS_3               2                 6
  CLUS_4               2                10
  CLUS_5               2                 7
  CLUS_6               1                 6
  CLUS_7               1                12
  CLUS_8               1                 8
  CLUS_9               0                 6
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(13) Variable = 7P GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  7P GAIN MUTATED        4     11     31     10     13
  7P GAIN WILD-TYPE     27      6     18     17     10
D13V1, multiclass
        clus
vv       7P GAIN MUTATED 7P GAIN WILD-TYPE
  CLUS_1               4                27
  CLUS_2              11                 6
  CLUS_3              31                18
  CLUS_4              10                17
  CLUS_5              13                10
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  7P GAIN MUTATED        9     33     27
  7P GAIN WILD-TYPE     33     35     10
D13V2, multiclass
        clus
vv       7P GAIN MUTATED 7P GAIN WILD-TYPE
  CLUS_1               9                33
  CLUS_2              33                35
  CLUS_3              27                10
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  7P GAIN MUTATED       40    157     49
  7P GAIN WILD-TYPE     13     64    128
D13V3, multiclass
        clus
vv       7P GAIN MUTATED 7P GAIN WILD-TYPE
  CLUS_1              40                13
  CLUS_2             157                64
  CLUS_3              49               128
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       45     79     48
  7P GAIN WILD-TYPE     40     24     58
D13V4, multiclass
        clus
vv       7P GAIN MUTATED 7P GAIN WILD-TYPE
  CLUS_1              45                40
  CLUS_2              79                24
  CLUS_3              48                58
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       55     74     58
  7P GAIN WILD-TYPE     30     71     67
D13V5, multiclass
        clus
vv       7P GAIN MUTATED 7P GAIN WILD-TYPE
  CLUS_1              55                30
  CLUS_2              74                71
  CLUS_3              58                67
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  7P GAIN MUTATED       37     11     20     16     27     38      9     11
  7P GAIN WILD-TYPE     14     22     15     23     16     48     13      9
                   vv
clus                CLUS_9
  7P GAIN MUTATED       18
  7P GAIN WILD-TYPE      8
D13V6, multiclass
        clus
vv       7P GAIN MUTATED 7P GAIN WILD-TYPE
  CLUS_1              37                14
  CLUS_2              11                22
  CLUS_3              20                15
  CLUS_4              16                23
  CLUS_5              27                16
  CLUS_6              38                48
  CLUS_7               9                13
  CLUS_8              11                 9
  CLUS_9              18                 8
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger 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       89     38     52     66
  7P GAIN WILD-TYPE     38     56     45     65
D13V7, multiclass
        clus
vv       7P GAIN MUTATED 7P GAIN WILD-TYPE
  CLUS_1              89                38
  CLUS_2              38                56
  CLUS_3              52                45
  CLUS_4              66                65
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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       58     71     33     75      8
  7P GAIN WILD-TYPE     21     37     63     54     29
D13V8, multiclass
        clus
vv       7P GAIN MUTATED 7P GAIN WILD-TYPE
  CLUS_1              58                21
  CLUS_2              71                37
  CLUS_3              33                63
  CLUS_4              75                54
  CLUS_5               8                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
  7P GAIN MUTATED       43     37     45     48     47
  7P GAIN WILD-TYPE     17     51     26     27     57
D13V9, multiclass
        clus
vv       7P GAIN MUTATED 7P GAIN WILD-TYPE
  CLUS_1              43                17
  CLUS_2              37                51
  CLUS_3              45                26
  CLUS_4              48                27
  CLUS_5              47                57
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  7P GAIN MUTATED       51     30     24      3     38     11     15     10
  7P GAIN WILD-TYPE     28     25     22     14     17      9     11     32
                   vv
clus                CLUS_9
  7P GAIN MUTATED       38
  7P GAIN WILD-TYPE     20
D13V10, multiclass
        clus
vv       7P GAIN MUTATED 7P GAIN WILD-TYPE
  CLUS_1              51                28
  CLUS_2              30                25
  CLUS_3              24                22
  CLUS_4               3                14
  CLUS_5              38                17
  CLUS_6              11                 9
  CLUS_7              15                11
  CLUS_8              10                32
  CLUS_9              38                20
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  7P GAIN MUTATED       12     14      9      9      3      8
  7P GAIN WILD-TYPE      6      6      7      2      8      1
D13V11, multiclass
        clus
vv       7P GAIN MUTATED 7P GAIN WILD-TYPE
  CLUS_1              12                 6
  CLUS_2              14                 6
  CLUS_3               9                 7
  CLUS_4               9                 2
  CLUS_5               3                 8
  CLUS_6               8                 1
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  7P GAIN MUTATED       12      4      7      7      5      5      5      6
  7P GAIN WILD-TYPE      0      5      1      5      4      2      8      3
                   vv
clus                CLUS_9
  7P GAIN MUTATED        4
  7P GAIN WILD-TYPE      2
D13V12, multiclass
        clus
vv       7P GAIN MUTATED 7P GAIN WILD-TYPE
  CLUS_1              12                 0
  CLUS_2               4                 5
  CLUS_3               7                 1
  CLUS_4               7                 5
  CLUS_5               5                 4
  CLUS_6               5                 2
  CLUS_7               5                 8
  CLUS_8               6                 3
  CLUS_9               4                 2
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(14) Variable = 7Q GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  7Q GAIN MUTATED        3      8     27      9     12
  7Q GAIN WILD-TYPE     28      9     22     18     11
D14V1, multiclass
        clus
vv       7Q GAIN MUTATED 7Q GAIN WILD-TYPE
  CLUS_1               3                28
  CLUS_2               8                 9
  CLUS_3              27                22
  CLUS_4               9                18
  CLUS_5              12                11
[1] 5 2
[1] TRUE
[1] "dimension of contingency table 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     28     24
  7Q GAIN WILD-TYPE     35     40     13
D14V2, multiclass
        clus
vv       7Q GAIN MUTATED 7Q GAIN WILD-TYPE
  CLUS_1               7                35
  CLUS_2              28                40
  CLUS_3              24                13
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  7Q GAIN MUTATED       36    141     46
  7Q GAIN WILD-TYPE     17     80    131
D14V3, multiclass
        clus
vv       7Q GAIN MUTATED 7Q GAIN WILD-TYPE
  CLUS_1              36                17
  CLUS_2             141                80
  CLUS_3              46               131
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       44     70     44
  7Q GAIN WILD-TYPE     41     33     62
D14V4, multiclass
        clus
vv       7Q GAIN MUTATED 7Q GAIN WILD-TYPE
  CLUS_1              44                41
  CLUS_2              70                33
  CLUS_3              44                62
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       50     65     54
  7Q GAIN WILD-TYPE     35     80     71
D14V5, multiclass
        clus
vv       7Q GAIN MUTATED 7Q GAIN WILD-TYPE
  CLUS_1              50                35
  CLUS_2              65                80
  CLUS_3              54                71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  7Q GAIN MUTATED       34      8     17     17     21     35      9     10
  7Q GAIN WILD-TYPE     17     25     18     22     22     51     13     10
                   vv
clus                CLUS_9
  7Q GAIN MUTATED       18
  7Q GAIN WILD-TYPE      8
D14V6, multiclass
        clus
vv       7Q GAIN MUTATED 7Q GAIN WILD-TYPE
  CLUS_1              34                17
  CLUS_2               8                25
  CLUS_3              17                18
  CLUS_4              17                22
  CLUS_5              21                22
  CLUS_6              35                51
  CLUS_7               9                13
  CLUS_8              10                10
  CLUS_9              18                 8
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger 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       78     36     48     60
  7Q GAIN WILD-TYPE     49     58     49     71
D14V7, multiclass
        clus
vv       7Q GAIN MUTATED 7Q GAIN WILD-TYPE
  CLUS_1              78                49
  CLUS_2              36                58
  CLUS_3              48                49
  CLUS_4              60                71
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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       54     64     32     67      5
  7Q GAIN WILD-TYPE     25     44     64     62     32
D14V8, multiclass
        clus
vv       7Q GAIN MUTATED 7Q GAIN WILD-TYPE
  CLUS_1              54                25
  CLUS_2              64                44
  CLUS_3              32                64
  CLUS_4              67                62
  CLUS_5               5                32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  7Q GAIN MUTATED       38     35     43     40     43
  7Q GAIN WILD-TYPE     22     53     28     35     61
D14V9, multiclass
        clus
vv       7Q GAIN MUTATED 7Q GAIN WILD-TYPE
  CLUS_1              38                22
  CLUS_2              35                53
  CLUS_3              43                28
  CLUS_4              40                35
  CLUS_5              43                61
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  7Q GAIN MUTATED       49     28     22      3     31      9     13      9
  7Q GAIN WILD-TYPE     30     27     24     14     24     11     13     33
                   vv
clus                CLUS_9
  7Q GAIN MUTATED       35
  7Q GAIN WILD-TYPE     23
D14V10, multiclass
        clus
vv       7Q GAIN MUTATED 7Q GAIN WILD-TYPE
  CLUS_1              49                30
  CLUS_2              28                27
  CLUS_3              22                24
  CLUS_4               3                14
  CLUS_5              31                24
  CLUS_6               9                11
  CLUS_7              13                13
  CLUS_8               9                33
  CLUS_9              35                23
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  7Q GAIN MUTATED        9     14      8      9      2      9
  7Q GAIN WILD-TYPE      9      6      8      2      9      0
D14V11, multiclass
        clus
vv       7Q GAIN MUTATED 7Q GAIN WILD-TYPE
  CLUS_1               9                 9
  CLUS_2              14                 6
  CLUS_3               8                 8
  CLUS_4               9                 2
  CLUS_5               2                 9
  CLUS_6               9                 0
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  7Q GAIN MUTATED       12      4      5      6      5      5      5      7
  7Q GAIN WILD-TYPE      0      5      3      6      4      2      8      2
                   vv
clus                CLUS_9
  7Q GAIN MUTATED        2
  7Q GAIN WILD-TYPE      4
D14V12, multiclass
        clus
vv       7Q GAIN MUTATED 7Q GAIN WILD-TYPE
  CLUS_1              12                 0
  CLUS_2               4                 5
  CLUS_3               5                 3
  CLUS_4               6                 6
  CLUS_5               5                 4
  CLUS_6               5                 2
  CLUS_7               5                 8
  CLUS_8               7                 2
  CLUS_9               2                 4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(15) Variable = 8P GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  8P GAIN MUTATED        4      6     10      8      7
  8P GAIN WILD-TYPE     27     11     39     19     16
D15V1, multiclass
        clus
vv       8P GAIN MUTATED 8P GAIN WILD-TYPE
  CLUS_1               4                27
  CLUS_2               6                11
  CLUS_3              10                39
  CLUS_4               8                19
  CLUS_5               7                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
  8P GAIN MUTATED        9     17      9
  8P GAIN WILD-TYPE     33     51     28
D15V2, multiclass
        clus
vv       8P GAIN MUTATED 8P GAIN WILD-TYPE
  CLUS_1               9                33
  CLUS_2              17                51
  CLUS_3               9                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
  8P GAIN MUTATED       32     59     43
  8P GAIN WILD-TYPE     21    162    134
D15V3, multiclass
        clus
vv       8P GAIN MUTATED 8P GAIN WILD-TYPE
  CLUS_1              32                21
  CLUS_2              59               162
  CLUS_3              43               134
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       29     34     34
  8P GAIN WILD-TYPE     56     69     72
D15V4, multiclass
        clus
vv       8P GAIN MUTATED 8P GAIN WILD-TYPE
  CLUS_1              29                56
  CLUS_2              34                69
  CLUS_3              34                72
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       28     42     31
  8P GAIN WILD-TYPE     57    103     94
D15V5, multiclass
        clus
vv       8P GAIN MUTATED 8P GAIN WILD-TYPE
  CLUS_1              28                57
  CLUS_2              42               103
  CLUS_3              31                94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  8P GAIN MUTATED       17      9      7     13     10     27      6      3
  8P GAIN WILD-TYPE     34     24     28     26     33     59     16     17
                   vv
clus                CLUS_9
  8P GAIN MUTATED        9
  8P GAIN WILD-TYPE     17
D15V6, multiclass
        clus
vv       8P GAIN MUTATED 8P GAIN WILD-TYPE
  CLUS_1              17                34
  CLUS_2               9                24
  CLUS_3               7                28
  CLUS_4              13                26
  CLUS_5              10                33
  CLUS_6              27                59
  CLUS_7               6                16
  CLUS_8               3                17
  CLUS_9               9                17
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger 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       43     27     34     28
  8P GAIN WILD-TYPE     84     67     63    103
D15V7, multiclass
        clus
vv       8P GAIN MUTATED 8P GAIN WILD-TYPE
  CLUS_1              43                84
  CLUS_2              27                67
  CLUS_3              34                63
  CLUS_4              28               103
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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       26     38     30     33      5
  8P GAIN WILD-TYPE     53     70     66     96     32
D15V8, multiclass
        clus
vv       8P GAIN MUTATED 8P GAIN WILD-TYPE
  CLUS_1              26                53
  CLUS_2              38                70
  CLUS_3              30                66
  CLUS_4              33                96
  CLUS_5               5                32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  8P GAIN MUTATED       16     33     20     21     28
  8P GAIN WILD-TYPE     44     55     51     54     76
D15V9, multiclass
        clus
vv       8P GAIN MUTATED 8P GAIN WILD-TYPE
  CLUS_1              16                44
  CLUS_2              33                55
  CLUS_3              20                51
  CLUS_4              21                54
  CLUS_5              28                76
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  8P GAIN MUTATED       17     22     17      7     18      7      6      9
  8P GAIN WILD-TYPE     62     33     29     10     37     13     20     33
                   vv
clus                CLUS_9
  8P GAIN MUTATED       15
  8P GAIN WILD-TYPE     43
D15V10, multiclass
        clus
vv       8P GAIN MUTATED 8P GAIN WILD-TYPE
  CLUS_1              17                62
  CLUS_2              22                33
  CLUS_3              17                29
  CLUS_4               7                10
  CLUS_5              18                37
  CLUS_6               7                13
  CLUS_7               6                20
  CLUS_8               9                33
  CLUS_9              15                43
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  8P GAIN MUTATED        5     10      5      5      2      2
  8P GAIN WILD-TYPE     13     10     11      6      9      7
D15V11, multiclass
        clus
vv       8P GAIN MUTATED 8P GAIN WILD-TYPE
  CLUS_1               5                13
  CLUS_2              10                10
  CLUS_3               5                11
  CLUS_4               5                 6
  CLUS_5               2                 9
  CLUS_6               2                 7
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  8P GAIN MUTATED        3      6      4      5      3      1      3      4
  8P GAIN WILD-TYPE      9      3      4      7      6      6     10      5
                   vv
clus                CLUS_9
  8P GAIN MUTATED        0
  8P GAIN WILD-TYPE      6
D15V12, multiclass
        clus
vv       8P GAIN MUTATED 8P GAIN WILD-TYPE
  CLUS_1               3                 9
  CLUS_2               6                 3
  CLUS_3               4                 4
  CLUS_4               5                 7
  CLUS_5               3                 6
  CLUS_6               1                 6
  CLUS_7               3                10
  CLUS_8               4                 5
  CLUS_9               0                 6
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(16) Variable = 8Q GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  8Q GAIN MUTATED        7     11     22     12     14
  8Q GAIN WILD-TYPE     24      6     27     15      9
D16V1, multiclass
        clus
vv       8Q GAIN MUTATED 8Q GAIN WILD-TYPE
  CLUS_1               7                24
  CLUS_2              11                 6
  CLUS_3              22                27
  CLUS_4              12                15
  CLUS_5              14                 9
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  8Q GAIN MUTATED       13     31     22
  8Q GAIN WILD-TYPE     29     37     15
D16V2, multiclass
        clus
vv       8Q GAIN MUTATED 8Q GAIN WILD-TYPE
  CLUS_1              13                29
  CLUS_2              31                37
  CLUS_3              22                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
  8Q GAIN MUTATED       38    132     57
  8Q GAIN WILD-TYPE     15     89    120
D16V3, multiclass
        clus
vv       8Q GAIN MUTATED 8Q GAIN WILD-TYPE
  CLUS_1              38                15
  CLUS_2             132                89
  CLUS_3              57               120
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       43     66     50
  8Q GAIN WILD-TYPE     42     37     56
D16V4, multiclass
        clus
vv       8Q GAIN MUTATED 8Q GAIN WILD-TYPE
  CLUS_1              43                42
  CLUS_2              66                37
  CLUS_3              50                56
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  8Q GAIN MUTATED       47     68     56
  8Q GAIN WILD-TYPE     38     77     69
D16V5, multiclass
        clus
vv       8Q GAIN MUTATED 8Q GAIN WILD-TYPE
  CLUS_1              47                38
  CLUS_2              68                77
  CLUS_3              56                69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  8Q GAIN MUTATED       32     13     13     18     19     41      8      9
  8Q GAIN WILD-TYPE     19     20     22     21     24     45     14     11
                   vv
clus                CLUS_9
  8Q GAIN MUTATED       18
  8Q GAIN WILD-TYPE      8
D16V6, multiclass
        clus
vv       8Q GAIN MUTATED 8Q GAIN WILD-TYPE
  CLUS_1              32                19
  CLUS_2              13                20
  CLUS_3              13                22
  CLUS_4              18                21
  CLUS_5              19                24
  CLUS_6              41                45
  CLUS_7               8                14
  CLUS_8               9                11
  CLUS_9              18                 8
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger 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       76     33     56     60
  8Q GAIN WILD-TYPE     51     61     41     71
D16V7, multiclass
        clus
vv       8Q GAIN MUTATED 8Q GAIN WILD-TYPE
  CLUS_1              76                51
  CLUS_2              33                61
  CLUS_3              56                41
  CLUS_4              60                71
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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       48     62     39     68      8
  8Q GAIN WILD-TYPE     31     46     57     61     29
D16V8, multiclass
        clus
vv       8Q GAIN MUTATED 8Q GAIN WILD-TYPE
  CLUS_1              48                31
  CLUS_2              62                46
  CLUS_3              39                57
  CLUS_4              68                61
  CLUS_5               8                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
  8Q GAIN MUTATED       36     43     36     41     44
  8Q GAIN WILD-TYPE     24     45     35     34     60
D16V9, multiclass
        clus
vv       8Q GAIN MUTATED 8Q GAIN WILD-TYPE
  CLUS_1              36                24
  CLUS_2              43                45
  CLUS_3              36                35
  CLUS_4              41                34
  CLUS_5              44                60
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  8Q GAIN MUTATED       29     34     27      8     36     10     12     13
  8Q GAIN WILD-TYPE     50     21     19      9     19     10     14     29
                   vv
clus                CLUS_9
  8Q GAIN MUTATED       31
  8Q GAIN WILD-TYPE     27
D16V10, multiclass
        clus
vv       8Q GAIN MUTATED 8Q GAIN WILD-TYPE
  CLUS_1              29                50
  CLUS_2              34                21
  CLUS_3              27                19
  CLUS_4               8                 9
  CLUS_5              36                19
  CLUS_6              10                10
  CLUS_7              12                14
  CLUS_8              13                29
  CLUS_9              31                27
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  8Q GAIN MUTATED       12     14      5      9      3      3
  8Q GAIN WILD-TYPE      6      6     11      2      8      6
D16V11, multiclass
        clus
vv       8Q GAIN MUTATED 8Q GAIN WILD-TYPE
  CLUS_1              12                 6
  CLUS_2              14                 6
  CLUS_3               5                11
  CLUS_4               9                 2
  CLUS_5               3                 8
  CLUS_6               3                 6
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  8Q GAIN MUTATED        4      7      7      8      4      4      5      6
  8Q GAIN WILD-TYPE      8      2      1      4      5      3      8      3
                   vv
clus                CLUS_9
  8Q GAIN MUTATED        1
  8Q GAIN WILD-TYPE      5
D16V12, multiclass
        clus
vv       8Q GAIN MUTATED 8Q GAIN WILD-TYPE
  CLUS_1               4                 8
  CLUS_2               7                 2
  CLUS_3               7                 1
  CLUS_4               8                 4
  CLUS_5               4                 5
  CLUS_6               4                 3
  CLUS_7               5                 8
  CLUS_8               6                 3
  CLUS_9               1                 5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(17) Variable = 9P GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  9P GAIN MUTATED        0      2     10      6      4
  9P GAIN WILD-TYPE     31     15     39     21     19
D17V1, multiclass
        clus
vv       9P GAIN MUTATED 9P GAIN WILD-TYPE
  CLUS_1               0                31
  CLUS_2               2                15
  CLUS_3              10                39
  CLUS_4               6                21
  CLUS_5               4                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
  9P GAIN MUTATED        5     15      2
  9P GAIN WILD-TYPE     37     53     35
D17V2, multiclass
        clus
vv       9P GAIN MUTATED 9P GAIN WILD-TYPE
  CLUS_1               5                37
  CLUS_2              15                53
  CLUS_3               2                35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  9P GAIN MUTATED       14     46     21
  9P GAIN WILD-TYPE     39    175    156
D17V3, multiclass
        clus
vv       9P GAIN MUTATED 9P GAIN WILD-TYPE
  CLUS_1              14                39
  CLUS_2              46               175
  CLUS_3              21               156
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       19     19     20
  9P GAIN WILD-TYPE     66     84     86
D17V4, multiclass
        clus
vv       9P GAIN MUTATED 9P GAIN WILD-TYPE
  CLUS_1              19                66
  CLUS_2              19                84
  CLUS_3              20                86
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       21     21     17
  9P GAIN WILD-TYPE     64    124    108
D17V5, multiclass
        clus
vv       9P GAIN MUTATED 9P GAIN WILD-TYPE
  CLUS_1              21                64
  CLUS_2              21               124
  CLUS_3              17               108
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  9P GAIN MUTATED        8      6      9      8      4     14      5      2
  9P GAIN WILD-TYPE     43     27     26     31     39     72     17     18
                   vv
clus                CLUS_9
  9P GAIN MUTATED        3
  9P GAIN WILD-TYPE     23
D17V6, multiclass
        clus
vv       9P GAIN MUTATED 9P GAIN WILD-TYPE
  CLUS_1               8                43
  CLUS_2               6                27
  CLUS_3               9                26
  CLUS_4               8                31
  CLUS_5               4                39
  CLUS_6              14                72
  CLUS_7               5                17
  CLUS_8               2                18
  CLUS_9               3                23
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger 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       25     17     16     22
  9P GAIN WILD-TYPE    102     77     81    109
D17V7, multiclass
        clus
vv       9P GAIN MUTATED 9P GAIN WILD-TYPE
  CLUS_1              25               102
  CLUS_2              17                77
  CLUS_3              16                81
  CLUS_4              22               109
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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       18     19     17     22      4
  9P GAIN WILD-TYPE     61     89     79    107     33
D17V8, multiclass
        clus
vv       9P GAIN MUTATED 9P GAIN WILD-TYPE
  CLUS_1              18                61
  CLUS_2              19                89
  CLUS_3              17                79
  CLUS_4              22               107
  CLUS_5               4                33
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  9P GAIN MUTATED       12     15     15      6     19
  9P GAIN WILD-TYPE     48     73     56     69     85
D17V9, multiclass
        clus
vv       9P GAIN MUTATED 9P GAIN WILD-TYPE
  CLUS_1              12                48
  CLUS_2              15                73
  CLUS_3              15                56
  CLUS_4               6                69
  CLUS_5              19                85
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  9P GAIN MUTATED       13     11      6      3      8      3      5      9
  9P GAIN WILD-TYPE     66     44     40     14     47     17     21     33
                   vv
clus                CLUS_9
  9P GAIN MUTATED        9
  9P GAIN WILD-TYPE     49
D17V10, multiclass
        clus
vv       9P GAIN MUTATED 9P GAIN WILD-TYPE
  CLUS_1              13                66
  CLUS_2              11                44
  CLUS_3               6                40
  CLUS_4               3                14
  CLUS_5               8                47
  CLUS_6               3                17
  CLUS_7               5                21
  CLUS_8               9                33
  CLUS_9               9                49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  9P GAIN MUTATED        3      4      1      3      1      4
  9P GAIN WILD-TYPE     15     16     15      8     10      5
D17V11, multiclass
        clus
vv       9P GAIN MUTATED 9P GAIN WILD-TYPE
  CLUS_1               3                15
  CLUS_2               4                16
  CLUS_3               1                15
  CLUS_4               3                 8
  CLUS_5               1                10
  CLUS_6               4                 5
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  9P GAIN MUTATED        4      2      2      1      2      3      1      1
  9P GAIN WILD-TYPE      8      7      6     11      7      4     12      8
                   vv
clus                CLUS_9
  9P GAIN MUTATED        0
  9P GAIN WILD-TYPE      6
D17V12, multiclass
        clus
vv       9P GAIN MUTATED 9P GAIN WILD-TYPE
  CLUS_1               4                 8
  CLUS_2               2                 7
  CLUS_3               2                 6
  CLUS_4               1                11
  CLUS_5               2                 7
  CLUS_6               3                 4
  CLUS_7               1                12
  CLUS_8               1                 8
  CLUS_9               0                 6
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(18) Variable = 9Q GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  9Q GAIN MUTATED        0      1     10      6      4
  9Q GAIN WILD-TYPE     31     16     39     21     19
D18V1, multiclass
        clus
vv       9Q GAIN MUTATED 9Q GAIN WILD-TYPE
  CLUS_1               0                31
  CLUS_2               1                16
  CLUS_3              10                39
  CLUS_4               6                21
  CLUS_5               4                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
  9Q GAIN MUTATED        5     14      2
  9Q GAIN WILD-TYPE     37     54     35
D18V2, multiclass
        clus
vv       9Q GAIN MUTATED 9Q GAIN WILD-TYPE
  CLUS_1               5                37
  CLUS_2              14                54
  CLUS_3               2                35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  9Q GAIN MUTATED       14     36     21
  9Q GAIN WILD-TYPE     39    185    156
D18V3, multiclass
        clus
vv       9Q GAIN MUTATED 9Q GAIN WILD-TYPE
  CLUS_1              14                39
  CLUS_2              36               185
  CLUS_3              21               156
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       17     15     17
  9Q GAIN WILD-TYPE     68     88     89
D18V4, multiclass
        clus
vv       9Q GAIN MUTATED 9Q GAIN WILD-TYPE
  CLUS_1              17                68
  CLUS_2              15                88
  CLUS_3              17                89
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       19     19     13
  9Q GAIN WILD-TYPE     66    126    112
D18V5, multiclass
        clus
vv       9Q GAIN MUTATED 9Q GAIN WILD-TYPE
  CLUS_1              19                66
  CLUS_2              19               126
  CLUS_3              13               112
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  9Q GAIN MUTATED        6      6      8      8      4     11      4      2
  9Q GAIN WILD-TYPE     45     27     27     31     39     75     18     18
                   vv
clus                CLUS_9
  9Q GAIN MUTATED        2
  9Q GAIN WILD-TYPE     24
D18V6, multiclass
        clus
vv       9Q GAIN MUTATED 9Q GAIN WILD-TYPE
  CLUS_1               6                45
  CLUS_2               6                27
  CLUS_3               8                27
  CLUS_4               8                31
  CLUS_5               4                39
  CLUS_6              11                75
  CLUS_7               4                18
  CLUS_8               2                18
  CLUS_9               2                24
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger 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       19     16     13     22
  9Q GAIN WILD-TYPE    108     78     84    109
D18V7, multiclass
        clus
vv       9Q GAIN MUTATED 9Q GAIN WILD-TYPE
  CLUS_1              19               108
  CLUS_2              16                78
  CLUS_3              13                84
  CLUS_4              22               109
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  9Q GAIN MUTATED       14     16     15     21      4
  9Q GAIN WILD-TYPE     65     92     81    108     33
D18V8, multiclass
        clus
vv       9Q GAIN MUTATED 9Q GAIN WILD-TYPE
  CLUS_1              14                65
  CLUS_2              16                92
  CLUS_3              15                81
  CLUS_4              21               108
  CLUS_5               4                33
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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       12     15      9      5     18
  9Q GAIN WILD-TYPE     48     73     62     70     86
D18V9, multiclass
        clus
vv       9Q GAIN MUTATED 9Q GAIN WILD-TYPE
  CLUS_1              12                48
  CLUS_2              15                73
  CLUS_3               9                62
  CLUS_4               5                70
  CLUS_5              18                86
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  9Q GAIN MUTATED       12      7      4      3      7      3      5      9
  9Q GAIN WILD-TYPE     67     48     42     14     48     17     21     33
                   vv
clus                CLUS_9
  9Q GAIN MUTATED        9
  9Q GAIN WILD-TYPE     49
D18V10, multiclass
        clus
vv       9Q GAIN MUTATED 9Q GAIN WILD-TYPE
  CLUS_1              12                67
  CLUS_2               7                48
  CLUS_3               4                42
  CLUS_4               3                14
  CLUS_5               7                48
  CLUS_6               3                17
  CLUS_7               5                21
  CLUS_8               9                33
  CLUS_9               9                49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  9Q GAIN MUTATED        2      4      1      1      1      2
  9Q GAIN WILD-TYPE     16     16     15     10     10      7
D18V11, multiclass
        clus
vv       9Q GAIN MUTATED 9Q GAIN WILD-TYPE
  CLUS_1               2                16
  CLUS_2               4                16
  CLUS_3               1                15
  CLUS_4               1                10
  CLUS_5               1                10
  CLUS_6               2                 7
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  9Q GAIN MUTATED        3      2      0      1      2      1      1      1
  9Q GAIN WILD-TYPE      9      7      8     11      7      6     12      8
                   vv
clus                CLUS_9
  9Q GAIN MUTATED        0
  9Q GAIN WILD-TYPE      6
D18V12, multiclass
        clus
vv       9Q GAIN MUTATED 9Q GAIN WILD-TYPE
  CLUS_1               3                 9
  CLUS_2               2                 7
  CLUS_3               0                 8
  CLUS_4               1                11
  CLUS_5               2                 7
  CLUS_6               1                 6
  CLUS_7               1                12
  CLUS_8               1                 8
  CLUS_9               0                 6
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(19) Variable = 10P GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  10P GAIN MUTATED        1      2      4      0      1
  10P GAIN WILD-TYPE     30     15     45     27     22
D19V1, multiclass
        clus
vv       10P GAIN MUTATED 10P GAIN WILD-TYPE
  CLUS_1                1                 30
  CLUS_2                2                 15
  CLUS_3                4                 45
  CLUS_4                0                 27
  CLUS_5                1                 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      7      0
  10P GAIN WILD-TYPE     41     61     37
D19V2, multiclass
        clus
vv       10P GAIN MUTATED 10P GAIN WILD-TYPE
  CLUS_1                1                 41
  CLUS_2                7                 61
  CLUS_3                0                 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
  10P GAIN MUTATED        8     22      8
  10P GAIN WILD-TYPE     45    199    169
D19V3, multiclass
        clus
vv       10P GAIN MUTATED 10P GAIN WILD-TYPE
  CLUS_1                8                 45
  CLUS_2               22                199
  CLUS_3                8                169
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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        6     12     12
  10P GAIN WILD-TYPE     79     91     94
D19V4, multiclass
        clus
vv       10P GAIN MUTATED 10P GAIN WILD-TYPE
  CLUS_1                6                 79
  CLUS_2               12                 91
  CLUS_3               12                 94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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        7     12     11
  10P GAIN WILD-TYPE     78    133    114
D19V5, multiclass
        clus
vv       10P GAIN MUTATED 10P GAIN WILD-TYPE
  CLUS_1                7                 78
  CLUS_2               12                133
  CLUS_3               11                114
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  10P GAIN MUTATED        8      2      3      4      2      7      1      0
  10P GAIN WILD-TYPE     43     31     32     35     41     79     21     20
                    vv
clus                 CLUS_9
  10P GAIN MUTATED        3
  10P GAIN WILD-TYPE     23
D19V6, multiclass
        clus
vv       10P GAIN MUTATED 10P GAIN WILD-TYPE
  CLUS_1                8                 43
  CLUS_2                2                 31
  CLUS_3                3                 32
  CLUS_4                4                 35
  CLUS_5                2                 41
  CLUS_6                7                 79
  CLUS_7                1                 21
  CLUS_8                0                 20
  CLUS_9                3                 23
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger 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       13      8      9      8
  10P GAIN WILD-TYPE    114     86     88    123
D19V7, multiclass
        clus
vv       10P GAIN MUTATED 10P GAIN WILD-TYPE
  CLUS_1               13                114
  CLUS_2                8                 86
  CLUS_3                9                 88
  CLUS_4                8                123
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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       10     11      7      9      1
  10P GAIN WILD-TYPE     69     97     89    120     36
D19V8, multiclass
        clus
vv       10P GAIN MUTATED 10P GAIN WILD-TYPE
  CLUS_1               10                 69
  CLUS_2               11                 97
  CLUS_3                7                 89
  CLUS_4                9                120
  CLUS_5                1                 36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  10P GAIN MUTATED        8      3      8      7      6
  10P GAIN WILD-TYPE     52     85     63     68     98
D19V9, multiclass
        clus
vv       10P GAIN MUTATED 10P GAIN WILD-TYPE
  CLUS_1                8                 52
  CLUS_2                3                 85
  CLUS_3                8                 63
  CLUS_4                7                 68
  CLUS_5                6                 98
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  10P GAIN MUTATED        9      5      3      1      5      1      2      2
  10P GAIN WILD-TYPE     70     50     43     16     50     19     24     40
                    vv
clus                 CLUS_9
  10P GAIN MUTATED        4
  10P GAIN WILD-TYPE     54
D19V10, multiclass
        clus
vv       10P GAIN MUTATED 10P GAIN WILD-TYPE
  CLUS_1                9                 70
  CLUS_2                5                 50
  CLUS_3                3                 43
  CLUS_4                1                 16
  CLUS_5                5                 50
  CLUS_6                1                 19
  CLUS_7                2                 24
  CLUS_8                2                 40
  CLUS_9                4                 54
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  10P GAIN MUTATED        3      1      2      4      0      3
  10P GAIN WILD-TYPE     15     19     14      7     11      6
D19V11, multiclass
        clus
vv       10P GAIN MUTATED 10P GAIN WILD-TYPE
  CLUS_1                3                 15
  CLUS_2                1                 19
  CLUS_3                2                 14
  CLUS_4                4                  7
  CLUS_5                0                 11
  CLUS_6                3                  6
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  10P GAIN MUTATED        2      0      1      2      2      2      2      2
  10P GAIN WILD-TYPE     10      9      7     10      7      5     11      7
                    vv
clus                 CLUS_9
  10P GAIN MUTATED        0
  10P GAIN WILD-TYPE      6
D19V12, multiclass
        clus
vv       10P GAIN MUTATED 10P GAIN WILD-TYPE
  CLUS_1                2                 10
  CLUS_2                0                  9
  CLUS_3                1                  7
  CLUS_4                2                 10
  CLUS_5                2                  7
  CLUS_6                2                  5
  CLUS_7                2                 11
  CLUS_8                2                  7
  CLUS_9                0                  6
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(20) Variable = 10Q GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  10Q GAIN MUTATED        0      0      2      0      2
  10Q GAIN WILD-TYPE     31     17     47     27     21
D20V1, multiclass
        clus
vv       10Q GAIN MUTATED 10Q GAIN WILD-TYPE
  CLUS_1                0                 31
  CLUS_2                0                 17
  CLUS_3                2                 47
  CLUS_4                0                 27
  CLUS_5                2                 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
  10Q GAIN MUTATED        0      3      1
  10Q GAIN WILD-TYPE     42     65     36
D20V2, multiclass
        clus
vv       10Q GAIN MUTATED 10Q GAIN WILD-TYPE
  CLUS_1                0                 42
  CLUS_2                3                 65
  CLUS_3                1                 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
  10Q GAIN MUTATED        8     11      4
  10Q GAIN WILD-TYPE     45    210    173
D20V3, multiclass
        clus
vv       10Q GAIN MUTATED 10Q GAIN WILD-TYPE
  CLUS_1                8                 45
  CLUS_2               11                210
  CLUS_3                4                173
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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        2      5     11
  10Q GAIN WILD-TYPE     83     98     95
D20V4, multiclass
        clus
vv       10Q GAIN MUTATED 10Q GAIN WILD-TYPE
  CLUS_1                2                 83
  CLUS_2                5                 98
  CLUS_3               11                 95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  10Q GAIN MUTATED        1      9      7
  10Q GAIN WILD-TYPE     84    136    118
D20V5, multiclass
        clus
vv       10Q GAIN MUTATED 10Q GAIN WILD-TYPE
  CLUS_1                1                 84
  CLUS_2                9                136
  CLUS_3                7                118
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  10Q GAIN MUTATED        2      1      2      4      1      5      1      0
  10Q GAIN WILD-TYPE     49     32     33     35     42     81     21     20
                    vv
clus                 CLUS_9
  10Q GAIN MUTATED        1
  10Q GAIN WILD-TYPE     25
D20V6, multiclass
        clus
vv       10Q GAIN MUTATED 10Q GAIN WILD-TYPE
  CLUS_1                2                 49
  CLUS_2                1                 32
  CLUS_3                2                 33
  CLUS_4                4                 35
  CLUS_5                1                 42
  CLUS_6                5                 81
  CLUS_7                1                 21
  CLUS_8                0                 20
  CLUS_9                1                 25
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger 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        7      7      4      5
  10Q GAIN WILD-TYPE    120     87     93    126
D20V7, multiclass
        clus
vv       10Q GAIN MUTATED 10Q GAIN WILD-TYPE
  CLUS_1                7                120
  CLUS_2                7                 87
  CLUS_3                4                 93
  CLUS_4                5                126
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  10Q GAIN MUTATED        3      9      5      5      1
  10Q GAIN WILD-TYPE     76     99     91    124     36
D20V8, multiclass
        clus
vv       10Q GAIN MUTATED 10Q GAIN WILD-TYPE
  CLUS_1                3                 76
  CLUS_2                9                 99
  CLUS_3                5                 91
  CLUS_4                5                124
  CLUS_5                1                 36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  10Q GAIN MUTATED        5      2      2      4      4
  10Q GAIN WILD-TYPE     55     86     69     71    100
D20V9, multiclass
        clus
vv       10Q GAIN MUTATED 10Q GAIN WILD-TYPE
  CLUS_1                5                 55
  CLUS_2                2                 86
  CLUS_3                2                 69
  CLUS_4                4                 71
  CLUS_5                4                100
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  10Q GAIN MUTATED        5      2      2      1      1      0      0      2
  10Q GAIN WILD-TYPE     74     53     44     16     54     20     26     40
                    vv
clus                 CLUS_9
  10Q GAIN MUTATED        4
  10Q GAIN WILD-TYPE     54
D20V10, multiclass
        clus
vv       10Q GAIN MUTATED 10Q GAIN WILD-TYPE
  CLUS_1                5                 74
  CLUS_2                2                 53
  CLUS_3                2                 44
  CLUS_4                1                 16
  CLUS_5                1                 54
  CLUS_6                0                 20
  CLUS_7                0                 26
  CLUS_8                2                 40
  CLUS_9                4                 54
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  10Q GAIN MUTATED        2      0      1      2      0      2
  10Q GAIN WILD-TYPE     16     20     15      9     11      7
D20V11, multiclass
        clus
vv       10Q GAIN MUTATED 10Q GAIN WILD-TYPE
  CLUS_1                2                 16
  CLUS_2                0                 20
  CLUS_3                1                 15
  CLUS_4                2                  9
  CLUS_5                0                 11
  CLUS_6                2                  7
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  10Q GAIN MUTATED        1      0      0      1      1      1      1      2
  10Q GAIN WILD-TYPE     11      9      8     11      8      6     12      7
                    vv
clus                 CLUS_9
  10Q GAIN MUTATED        0
  10Q GAIN WILD-TYPE      6
D20V12, multiclass
        clus
vv       10Q GAIN MUTATED 10Q GAIN WILD-TYPE
  CLUS_1                1                 11
  CLUS_2                0                  9
  CLUS_3                0                  8
  CLUS_4                1                 11
  CLUS_5                1                  8
  CLUS_6                1                  6
  CLUS_7                1                 12
  CLUS_8                2                  7
  CLUS_9                0                  6
[1] 9 2
[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 = 11P GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  11P GAIN MUTATED        0      2      6      0      9
  11P GAIN WILD-TYPE     31     15     43     27     14
D21V1, multiclass
        clus
vv       11P GAIN MUTATED 11P GAIN WILD-TYPE
  CLUS_1                0                 31
  CLUS_2                2                 15
  CLUS_3                6                 43
  CLUS_4                0                 27
  CLUS_5                9                 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
  11P GAIN MUTATED        1      5     11
  11P GAIN WILD-TYPE     41     63     26
D21V2, multiclass
        clus
vv       11P GAIN MUTATED 11P GAIN WILD-TYPE
  CLUS_1                1                 41
  CLUS_2                5                 63
  CLUS_3               11                 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
  11P GAIN MUTATED        7     47      0
  11P GAIN WILD-TYPE     46    174    177
D21V3, multiclass
        clus
vv       11P GAIN MUTATED 11P GAIN WILD-TYPE
  CLUS_1                7                 46
  CLUS_2               47                174
  CLUS_3                0                177
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       10     23      4
  11P GAIN WILD-TYPE     75     80    102
D21V4, multiclass
        clus
vv       11P GAIN MUTATED 11P GAIN WILD-TYPE
  CLUS_1               10                 75
  CLUS_2               23                 80
  CLUS_3                4                102
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  11P GAIN MUTATED        9     10     14
  11P GAIN WILD-TYPE     76    135    111
D21V5, multiclass
        clus
vv       11P GAIN MUTATED 11P GAIN WILD-TYPE
  CLUS_1                9                 76
  CLUS_2               10                135
  CLUS_3               14                111
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  11P GAIN MUTATED        9      1      5      1      3      8      2      0
  11P GAIN WILD-TYPE     42     32     30     38     40     78     20     20
                    vv
clus                 CLUS_9
  11P GAIN MUTATED        4
  11P GAIN WILD-TYPE     22
D21V6, multiclass
        clus
vv       11P GAIN MUTATED 11P GAIN WILD-TYPE
  CLUS_1                9                 42
  CLUS_2                1                 32
  CLUS_3                5                 30
  CLUS_4                1                 38
  CLUS_5                3                 40
  CLUS_6                8                 78
  CLUS_7                2                 20
  CLUS_8                0                 20
  CLUS_9                4                 22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger 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       24      3     10     17
  11P GAIN WILD-TYPE    103     91     87    114
D21V7, multiclass
        clus
vv       11P GAIN MUTATED 11P GAIN WILD-TYPE
  CLUS_1               24                103
  CLUS_2                3                 91
  CLUS_3               10                 87
  CLUS_4               17                114
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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       14     17      1     22      0
  11P GAIN WILD-TYPE     65     91     95    107     37
D21V8, multiclass
        clus
vv       11P GAIN MUTATED 11P GAIN WILD-TYPE
  CLUS_1               14                 65
  CLUS_2               17                 91
  CLUS_3                1                 95
  CLUS_4               22                107
  CLUS_5                0                 37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  11P GAIN MUTATED        8      6     10     16      8
  11P GAIN WILD-TYPE     52     82     61     59     96
D21V9, multiclass
        clus
vv       11P GAIN MUTATED 11P GAIN WILD-TYPE
  CLUS_1                8                 52
  CLUS_2                6                 82
  CLUS_3               10                 61
  CLUS_4               16                 59
  CLUS_5                8                 96
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  11P GAIN MUTATED        7      8      8      0     10      0      2      0
  11P GAIN WILD-TYPE     72     47     38     17     45     20     24     42
                    vv
clus                 CLUS_9
  11P GAIN MUTATED       13
  11P GAIN WILD-TYPE     45
D21V10, multiclass
        clus
vv       11P GAIN MUTATED 11P GAIN WILD-TYPE
  CLUS_1                7                 72
  CLUS_2                8                 47
  CLUS_3                8                 38
  CLUS_4                0                 17
  CLUS_5               10                 45
  CLUS_6                0                 20
  CLUS_7                2                 24
  CLUS_8                0                 42
  CLUS_9               13                 45
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  11P GAIN MUTATED        4      3      1      3      0      1
  11P GAIN WILD-TYPE     14     17     15      8     11      8
D21V11, multiclass
        clus
vv       11P GAIN MUTATED 11P GAIN WILD-TYPE
  CLUS_1                4                 14
  CLUS_2                3                 17
  CLUS_3                1                 15
  CLUS_4                3                  8
  CLUS_5                0                 11
  CLUS_6                1                  8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  11P GAIN MUTATED        4      1      2      1      0      1      2      1
  11P GAIN WILD-TYPE      8      8      6     11      9      6     11      8
                    vv
clus                 CLUS_9
  11P GAIN MUTATED        0
  11P GAIN WILD-TYPE      6
D21V12, multiclass
        clus
vv       11P GAIN MUTATED 11P GAIN WILD-TYPE
  CLUS_1                4                  8
  CLUS_2                1                  8
  CLUS_3                2                  6
  CLUS_4                1                 11
  CLUS_5                0                  9
  CLUS_6                1                  6
  CLUS_7                2                 11
  CLUS_8                1                  8
  CLUS_9                0                  6
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(22) Variable = 11Q GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  11Q GAIN MUTATED        0      2      5      0     11
  11Q GAIN WILD-TYPE     31     15     44     27     12
D22V1, multiclass
        clus
vv       11Q GAIN MUTATED 11Q GAIN WILD-TYPE
  CLUS_1                0                 31
  CLUS_2                2                 15
  CLUS_3                5                 44
  CLUS_4                0                 27
  CLUS_5               11                 12
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  11Q GAIN MUTATED        1      4     13
  11Q GAIN WILD-TYPE     41     64     24
D22V2, multiclass
        clus
vv       11Q GAIN MUTATED 11Q GAIN WILD-TYPE
  CLUS_1                1                 41
  CLUS_2                4                 64
  CLUS_3               13                 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
  11Q GAIN MUTATED        8     43      0
  11Q GAIN WILD-TYPE     45    178    177
D22V3, multiclass
        clus
vv       11Q GAIN MUTATED 11Q GAIN WILD-TYPE
  CLUS_1                8                 45
  CLUS_2               43                178
  CLUS_3                0                177
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  11Q GAIN MUTATED        8     20      5
  11Q GAIN WILD-TYPE     77     83    101
D22V4, multiclass
        clus
vv       11Q GAIN MUTATED 11Q GAIN WILD-TYPE
  CLUS_1                8                 77
  CLUS_2               20                 83
  CLUS_3                5                101
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  11Q GAIN MUTATED       10     10     13
  11Q GAIN WILD-TYPE     75    135    112
D22V5, multiclass
        clus
vv       11Q GAIN MUTATED 11Q GAIN WILD-TYPE
  CLUS_1               10                 75
  CLUS_2               10                135
  CLUS_3               13                112
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  11Q GAIN MUTATED        7      0      5      1      4      9      2      0
  11Q GAIN WILD-TYPE     44     33     30     38     39     77     20     20
                    vv
clus                 CLUS_9
  11Q GAIN MUTATED        5
  11Q GAIN WILD-TYPE     21
D22V6, multiclass
        clus
vv       11Q GAIN MUTATED 11Q GAIN WILD-TYPE
  CLUS_1                7                 44
  CLUS_2                0                 33
  CLUS_3                5                 30
  CLUS_4                1                 38
  CLUS_5                4                 39
  CLUS_6                9                 77
  CLUS_7                2                 20
  CLUS_8                0                 20
  CLUS_9                5                 21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  11Q GAIN MUTATED       25      2      8     16
  11Q GAIN WILD-TYPE    102     92     89    115
D22V7, multiclass
        clus
vv       11Q GAIN MUTATED 11Q GAIN WILD-TYPE
  CLUS_1               25                102
  CLUS_2                2                 92
  CLUS_3                8                 89
  CLUS_4               16                115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  11Q GAIN MUTATED       13     18      0     20      0
  11Q GAIN WILD-TYPE     66     90     96    109     37
D22V8, multiclass
        clus
vv       11Q GAIN MUTATED 11Q GAIN WILD-TYPE
  CLUS_1               13                 66
  CLUS_2               18                 90
  CLUS_3                0                 96
  CLUS_4               20                109
  CLUS_5                0                 37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  11Q GAIN MUTATED        7      5      9     15      9
  11Q GAIN WILD-TYPE     53     83     62     60     95
D22V9, multiclass
        clus
vv       11Q GAIN MUTATED 11Q GAIN WILD-TYPE
  CLUS_1                7                 53
  CLUS_2                5                 83
  CLUS_3                9                 62
  CLUS_4               15                 60
  CLUS_5                9                 95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  11Q GAIN MUTATED        5      7      7      0     11      0      1      1
  11Q GAIN WILD-TYPE     74     48     39     17     44     20     25     41
                    vv
clus                 CLUS_9
  11Q GAIN MUTATED       13
  11Q GAIN WILD-TYPE     45
D22V10, multiclass
        clus
vv       11Q GAIN MUTATED 11Q GAIN WILD-TYPE
  CLUS_1                5                 74
  CLUS_2                7                 48
  CLUS_3                7                 39
  CLUS_4                0                 17
  CLUS_5               11                 44
  CLUS_6                0                 20
  CLUS_7                1                 25
  CLUS_8                1                 41
  CLUS_9               13                 45
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  11Q GAIN MUTATED        5      3      1      2      0      0
  11Q GAIN WILD-TYPE     13     17     15      9     11      9
D22V11, multiclass
        clus
vv       11Q GAIN MUTATED 11Q GAIN WILD-TYPE
  CLUS_1                5                 13
  CLUS_2                3                 17
  CLUS_3                1                 15
  CLUS_4                2                  9
  CLUS_5                0                 11
  CLUS_6                0                  9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  11Q GAIN MUTATED        3      0      3      1      0      1      1      2
  11Q GAIN WILD-TYPE      9      9      5     11      9      6     12      7
                    vv
clus                 CLUS_9
  11Q GAIN MUTATED        0
  11Q GAIN WILD-TYPE      6
D22V12, multiclass
        clus
vv       11Q GAIN MUTATED 11Q GAIN WILD-TYPE
  CLUS_1                3                  9
  CLUS_2                0                  9
  CLUS_3                3                  5
  CLUS_4                1                 11
  CLUS_5                0                  9
  CLUS_6                1                  6
  CLUS_7                1                 12
  CLUS_8                2                  7
  CLUS_9                0                  6
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(23) Variable = 12P GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  12P GAIN MUTATED        9      3      5     10      5
  12P GAIN WILD-TYPE     22     14     44     17     18
D23V1, multiclass
        clus
vv       12P GAIN MUTATED 12P GAIN WILD-TYPE
  CLUS_1                9                 22
  CLUS_2                3                 14
  CLUS_3                5                 44
  CLUS_4               10                 17
  CLUS_5                5                 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
  12P GAIN MUTATED       10     15      7
  12P GAIN WILD-TYPE     32     53     30
D23V2, multiclass
        clus
vv       12P GAIN MUTATED 12P GAIN WILD-TYPE
  CLUS_1               10                 32
  CLUS_2               15                 53
  CLUS_3                7                 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
  12P GAIN MUTATED       16     35     42
  12P GAIN WILD-TYPE     37    186    135
D23V3, multiclass
        clus
vv       12P GAIN MUTATED 12P GAIN WILD-TYPE
  CLUS_1               16                 37
  CLUS_2               35                186
  CLUS_3               42                135
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       17     13     28
  12P GAIN WILD-TYPE     68     90     78
D23V4, multiclass
        clus
vv       12P GAIN MUTATED 12P GAIN WILD-TYPE
  CLUS_1               17                 68
  CLUS_2               13                 90
  CLUS_3               28                 78
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       19     28     22
  12P GAIN WILD-TYPE     66    117    103
D23V5, multiclass
        clus
vv       12P GAIN MUTATED 12P GAIN WILD-TYPE
  CLUS_1               19                 66
  CLUS_2               28                117
  CLUS_3               22                103
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  12P GAIN MUTATED       11      3      9      6     11     19      4      1
  12P GAIN WILD-TYPE     40     30     26     33     32     67     18     19
                    vv
clus                 CLUS_9
  12P GAIN MUTATED        5
  12P GAIN WILD-TYPE     21
D23V6, multiclass
        clus
vv       12P GAIN MUTATED 12P GAIN WILD-TYPE
  CLUS_1               11                 40
  CLUS_2                3                 30
  CLUS_3                9                 26
  CLUS_4                6                 33
  CLUS_5               11                 32
  CLUS_6               19                 67
  CLUS_7                4                 18
  CLUS_8                1                 19
  CLUS_9                5                 21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger 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       24     21     18     30
  12P GAIN WILD-TYPE    103     73     79    101
D23V7, multiclass
        clus
vv       12P GAIN MUTATED 12P GAIN WILD-TYPE
  CLUS_1               24                103
  CLUS_2               21                 73
  CLUS_3               18                 79
  CLUS_4               30                101
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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       11     25     21     26     10
  12P GAIN WILD-TYPE     68     83     75    103     27
D23V8, multiclass
        clus
vv       12P GAIN MUTATED 12P GAIN WILD-TYPE
  CLUS_1               11                 68
  CLUS_2               25                 83
  CLUS_3               21                 75
  CLUS_4               26                103
  CLUS_5               10                 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
  12P GAIN MUTATED       11     22      9     14     29
  12P GAIN WILD-TYPE     49     66     62     61     75
D23V9, multiclass
        clus
vv       12P GAIN MUTATED 12P GAIN WILD-TYPE
  CLUS_1               11                 49
  CLUS_2               22                 66
  CLUS_3                9                 62
  CLUS_4               14                 61
  CLUS_5               29                 75
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  12P GAIN MUTATED       15      9      7      3     16      5      7     10
  12P GAIN WILD-TYPE     64     46     39     14     39     15     19     32
                    vv
clus                 CLUS_9
  12P GAIN MUTATED       13
  12P GAIN WILD-TYPE     45
D23V10, multiclass
        clus
vv       12P GAIN MUTATED 12P GAIN WILD-TYPE
  CLUS_1               15                 64
  CLUS_2                9                 46
  CLUS_3                7                 39
  CLUS_4                3                 14
  CLUS_5               16                 39
  CLUS_6                5                 15
  CLUS_7                7                 19
  CLUS_8               10                 32
  CLUS_9               13                 45
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  12P GAIN MUTATED        2      4      2      4      1      1
  12P GAIN WILD-TYPE     16     16     14      7     10      8
D23V11, multiclass
        clus
vv       12P GAIN MUTATED 12P GAIN WILD-TYPE
  CLUS_1                2                 16
  CLUS_2                4                 16
  CLUS_3                2                 14
  CLUS_4                4                  7
  CLUS_5                1                 10
  CLUS_6                1                  8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  12P GAIN MUTATED        2      1      1      3      1      2      2      1
  12P GAIN WILD-TYPE     10      8      7      9      8      5     11      8
                    vv
clus                 CLUS_9
  12P GAIN MUTATED        1
  12P GAIN WILD-TYPE      5
D23V12, multiclass
        clus
vv       12P GAIN MUTATED 12P GAIN WILD-TYPE
  CLUS_1                2                 10
  CLUS_2                1                  8
  CLUS_3                1                  7
  CLUS_4                3                  9
  CLUS_5                1                  8
  CLUS_6                2                  5
  CLUS_7                2                 11
  CLUS_8                1                  8
  CLUS_9                1                  5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(24) Variable = 12Q GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  12Q GAIN MUTATED       10      3      5      9      5
  12Q GAIN WILD-TYPE     21     14     44     18     18
D24V1, multiclass
        clus
vv       12Q GAIN MUTATED 12Q GAIN WILD-TYPE
  CLUS_1               10                 21
  CLUS_2                3                 14
  CLUS_3                5                 44
  CLUS_4                9                 18
  CLUS_5                5                 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
  12Q GAIN MUTATED       11     15      6
  12Q GAIN WILD-TYPE     31     53     31
D24V2, multiclass
        clus
vv       12Q GAIN MUTATED 12Q GAIN WILD-TYPE
  CLUS_1               11                 31
  CLUS_2               15                 53
  CLUS_3                6                 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
  12Q GAIN MUTATED       14     32     42
  12Q GAIN WILD-TYPE     39    189    135
D24V3, multiclass
        clus
vv       12Q GAIN MUTATED 12Q GAIN WILD-TYPE
  CLUS_1               14                 39
  CLUS_2               32                189
  CLUS_3               42                135
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       14     11     28
  12Q GAIN WILD-TYPE     71     92     78
D24V4, multiclass
        clus
vv       12Q GAIN MUTATED 12Q GAIN WILD-TYPE
  CLUS_1               14                 71
  CLUS_2               11                 92
  CLUS_3               28                 78
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       19     26     21
  12Q GAIN WILD-TYPE     66    119    104
D24V5, multiclass
        clus
vv       12Q GAIN MUTATED 12Q GAIN WILD-TYPE
  CLUS_1               19                 66
  CLUS_2               26                119
  CLUS_3               21                104
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  12Q GAIN MUTATED       11      2      9      7     10     17      4      1
  12Q GAIN WILD-TYPE     40     31     26     32     33     69     18     19
                    vv
clus                 CLUS_9
  12Q GAIN MUTATED        5
  12Q GAIN WILD-TYPE     21
D24V6, multiclass
        clus
vv       12Q GAIN MUTATED 12Q GAIN WILD-TYPE
  CLUS_1               11                 40
  CLUS_2                2                 31
  CLUS_3                9                 26
  CLUS_4                7                 32
  CLUS_5               10                 33
  CLUS_6               17                 69
  CLUS_7                4                 18
  CLUS_8                1                 19
  CLUS_9                5                 21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger 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       21     20     17     30
  12Q GAIN WILD-TYPE    106     74     80    101
D24V7, multiclass
        clus
vv       12Q GAIN MUTATED 12Q GAIN WILD-TYPE
  CLUS_1               21                106
  CLUS_2               20                 74
  CLUS_3               17                 80
  CLUS_4               30                101
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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       11     23     18     25     11
  12Q GAIN WILD-TYPE     68     85     78    104     26
D24V8, multiclass
        clus
vv       12Q GAIN MUTATED 12Q GAIN WILD-TYPE
  CLUS_1               11                 68
  CLUS_2               23                 85
  CLUS_3               18                 78
  CLUS_4               25                104
  CLUS_5               11                 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
  12Q GAIN MUTATED       10     19      8     15     27
  12Q GAIN WILD-TYPE     50     69     63     60     77
D24V9, multiclass
        clus
vv       12Q GAIN MUTATED 12Q GAIN WILD-TYPE
  CLUS_1               10                 50
  CLUS_2               19                 69
  CLUS_3                8                 63
  CLUS_4               15                 60
  CLUS_5               27                 77
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  12Q GAIN MUTATED       13      7      8      3     15      4      7     10
  12Q GAIN WILD-TYPE     66     48     38     14     40     16     19     32
                    vv
clus                 CLUS_9
  12Q GAIN MUTATED       12
  12Q GAIN WILD-TYPE     46
D24V10, multiclass
        clus
vv       12Q GAIN MUTATED 12Q GAIN WILD-TYPE
  CLUS_1               13                 66
  CLUS_2                7                 48
  CLUS_3                8                 38
  CLUS_4                3                 14
  CLUS_5               15                 40
  CLUS_6                4                 16
  CLUS_7                7                 19
  CLUS_8               10                 32
  CLUS_9               12                 46
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  12Q GAIN MUTATED        2      2      1      3      1      1
  12Q GAIN WILD-TYPE     16     18     15      8     10      8
D24V11, multiclass
        clus
vv       12Q GAIN MUTATED 12Q GAIN WILD-TYPE
  CLUS_1                2                 16
  CLUS_2                2                 18
  CLUS_3                1                 15
  CLUS_4                3                  8
  CLUS_5                1                 10
  CLUS_6                1                  8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  12Q GAIN MUTATED        1      1      0      3      0      1      2      1
  12Q GAIN WILD-TYPE     11      8      8      9      9      6     11      8
                    vv
clus                 CLUS_9
  12Q GAIN MUTATED        1
  12Q GAIN WILD-TYPE      5
D24V12, multiclass
        clus
vv       12Q GAIN MUTATED 12Q GAIN WILD-TYPE
  CLUS_1                1                 11
  CLUS_2                1                  8
  CLUS_3                0                  8
  CLUS_4                3                  9
  CLUS_5                0                  9
  CLUS_6                1                  6
  CLUS_7                2                 11
  CLUS_8                1                  8
  CLUS_9                1                  5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(25) Variable = 13Q GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  13Q GAIN MUTATED        7     13     38     10     17
  13Q GAIN WILD-TYPE     24      4     11     17      6
D25V1, multiclass
        clus
vv       13Q GAIN MUTATED 13Q GAIN WILD-TYPE
  CLUS_1                7                 24
  CLUS_2               13                  4
  CLUS_3               38                 11
  CLUS_4               10                 17
  CLUS_5               17                  6
[1] 5 2
[1] TRUE
[1] "dimension of contingency table 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       11     45     29
  13Q GAIN WILD-TYPE     31     23      8
D25V2, multiclass
        clus
vv       13Q GAIN MUTATED 13Q GAIN WILD-TYPE
  CLUS_1               11                 31
  CLUS_2               45                 23
  CLUS_3               29                  8
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  13Q GAIN MUTATED       37    181     37
  13Q GAIN WILD-TYPE     16     40    140
D25V3, multiclass
        clus
vv       13Q GAIN MUTATED 13Q GAIN WILD-TYPE
  CLUS_1               37                 16
  CLUS_2              181                 40
  CLUS_3               37                140
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       39     79     49
  13Q GAIN WILD-TYPE     46     24     57
D25V4, multiclass
        clus
vv       13Q GAIN MUTATED 13Q GAIN WILD-TYPE
  CLUS_1               39                 46
  CLUS_2               79                 24
  CLUS_3               49                 57
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  13Q GAIN MUTATED       48     88     65
  13Q GAIN WILD-TYPE     37     57     60
D25V5, multiclass
        clus
vv       13Q GAIN MUTATED 13Q GAIN WILD-TYPE
  CLUS_1               48                 37
  CLUS_2               88                 57
  CLUS_3               65                 60
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  13Q GAIN MUTATED       31     13     25     24     25     42     13     12
  13Q GAIN WILD-TYPE     20     20     10     15     18     44      9      8
                    vv
clus                 CLUS_9
  13Q GAIN MUTATED       16
  13Q GAIN WILD-TYPE     10
D25V6, multiclass
        clus
vv       13Q GAIN MUTATED 13Q GAIN WILD-TYPE
  CLUS_1               31                 20
  CLUS_2               13                 20
  CLUS_3               25                 10
  CLUS_4               24                 15
  CLUS_5               25                 18
  CLUS_6               42                 44
  CLUS_7               13                  9
  CLUS_8               12                  8
  CLUS_9               16                 10
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger 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       89     33     54     77
  13Q GAIN WILD-TYPE     38     61     43     54
D25V7, multiclass
        clus
vv       13Q GAIN MUTATED 13Q GAIN WILD-TYPE
  CLUS_1               89                 38
  CLUS_2               33                 61
  CLUS_3               54                 43
  CLUS_4               77                 54
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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       61     71     26     87      8
  13Q GAIN WILD-TYPE     18     37     70     42     29
D25V8, multiclass
        clus
vv       13Q GAIN MUTATED 13Q GAIN WILD-TYPE
  CLUS_1               61                 18
  CLUS_2               71                 37
  CLUS_3               26                 70
  CLUS_4               87                 42
  CLUS_5                8                 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
  13Q GAIN MUTATED       48     36     42     53     49
  13Q GAIN WILD-TYPE     12     52     29     22     55
D25V9, multiclass
        clus
vv       13Q GAIN MUTATED 13Q GAIN WILD-TYPE
  CLUS_1               48                 12
  CLUS_2               36                 52
  CLUS_3               42                 29
  CLUS_4               53                 22
  CLUS_5               49                 55
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  13Q GAIN MUTATED       48     31     24      5     36     11     16     13
  13Q GAIN WILD-TYPE     31     24     22     12     19      9     10     29
                    vv
clus                 CLUS_9
  13Q GAIN MUTATED       44
  13Q GAIN WILD-TYPE     14
D25V10, multiclass
        clus
vv       13Q GAIN MUTATED 13Q GAIN WILD-TYPE
  CLUS_1               48                 31
  CLUS_2               31                 24
  CLUS_3               24                 22
  CLUS_4                5                 12
  CLUS_5               36                 19
  CLUS_6               11                  9
  CLUS_7               16                 10
  CLUS_8               13                 29
  CLUS_9               44                 14
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  13Q GAIN MUTATED       13     11      9     10      4      7
  13Q GAIN WILD-TYPE      5      9      7      1      7      2
D25V11, multiclass
        clus
vv       13Q GAIN MUTATED 13Q GAIN WILD-TYPE
  CLUS_1               13                  5
  CLUS_2               11                  9
  CLUS_3                9                  7
  CLUS_4               10                  1
  CLUS_5                4                  7
  CLUS_6                7                  2
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  13Q GAIN MUTATED        9      5      7      9      7      3      5      5
  13Q GAIN WILD-TYPE      3      4      1      3      2      4      8      4
                    vv
clus                 CLUS_9
  13Q GAIN MUTATED        4
  13Q GAIN WILD-TYPE      2
D25V12, multiclass
        clus
vv       13Q GAIN MUTATED 13Q GAIN WILD-TYPE
  CLUS_1                9                  3
  CLUS_2                5                  4
  CLUS_3                7                  1
  CLUS_4                9                  3
  CLUS_5                7                  2
  CLUS_6                3                  4
  CLUS_7                5                  8
  CLUS_8                5                  4
  CLUS_9                4                  2
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(26) Variable = 14Q GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  14Q GAIN MUTATED        2      3      1      3      1
  14Q GAIN WILD-TYPE     29     14     48     24     22
D26V1, multiclass
        clus
vv       14Q GAIN MUTATED 14Q GAIN WILD-TYPE
  CLUS_1                2                 29
  CLUS_2                3                 14
  CLUS_3                1                 48
  CLUS_4                3                 24
  CLUS_5                1                 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
  14Q GAIN MUTATED        4      4      2
  14Q GAIN WILD-TYPE     38     64     35
D26V2, multiclass
        clus
vv       14Q GAIN MUTATED 14Q GAIN WILD-TYPE
  CLUS_1                4                 38
  CLUS_2                4                 64
  CLUS_3                2                 35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  14Q GAIN MUTATED       11     16      8
  14Q GAIN WILD-TYPE     42    205    169
D26V3, multiclass
        clus
vv       14Q GAIN MUTATED 14Q GAIN WILD-TYPE
  CLUS_1               11                 42
  CLUS_2               16                205
  CLUS_3                8                169
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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        4     10     10
  14Q GAIN WILD-TYPE     81     93     96
D26V4, multiclass
        clus
vv       14Q GAIN MUTATED 14Q GAIN WILD-TYPE
  CLUS_1                4                 81
  CLUS_2               10                 93
  CLUS_3               10                 96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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        6     11      7
  14Q GAIN WILD-TYPE     79    134    118
D26V5, multiclass
        clus
vv       14Q GAIN MUTATED 14Q GAIN WILD-TYPE
  CLUS_1                6                 79
  CLUS_2               11                134
  CLUS_3                7                118
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  14Q GAIN MUTATED        4      1      3      5      3      7      0      0
  14Q GAIN WILD-TYPE     47     32     32     34     40     79     22     20
                    vv
clus                 CLUS_9
  14Q GAIN MUTATED        1
  14Q GAIN WILD-TYPE     25
D26V6, multiclass
        clus
vv       14Q GAIN MUTATED 14Q GAIN WILD-TYPE
  CLUS_1                4                 47
  CLUS_2                1                 32
  CLUS_3                3                 32
  CLUS_4                5                 34
  CLUS_5                3                 40
  CLUS_6                7                 79
  CLUS_7                0                 22
  CLUS_8                0                 20
  CLUS_9                1                 25
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  14Q GAIN MUTATED       13      7      5      9
  14Q GAIN WILD-TYPE    114     87     92    122
D26V7, multiclass
        clus
vv       14Q GAIN MUTATED 14Q GAIN WILD-TYPE
  CLUS_1               13                114
  CLUS_2                7                 87
  CLUS_3                5                 92
  CLUS_4                9                122
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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        4     12      7      8      3
  14Q GAIN WILD-TYPE     75     96     89    121     34
D26V8, multiclass
        clus
vv       14Q GAIN MUTATED 14Q GAIN WILD-TYPE
  CLUS_1                4                 75
  CLUS_2               12                 96
  CLUS_3                7                 89
  CLUS_4                8                121
  CLUS_5                3                 34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  14Q GAIN MUTATED        7      4      8      4     10
  14Q GAIN WILD-TYPE     53     84     63     71     94
D26V9, multiclass
        clus
vv       14Q GAIN MUTATED 14Q GAIN WILD-TYPE
  CLUS_1                7                 53
  CLUS_2                4                 84
  CLUS_3                8                 63
  CLUS_4                4                 71
  CLUS_5               10                 94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  14Q GAIN MUTATED        6      7      2      0      9      1      2      2
  14Q GAIN WILD-TYPE     73     48     44     17     46     19     24     40
                    vv
clus                 CLUS_9
  14Q GAIN MUTATED        4
  14Q GAIN WILD-TYPE     54
D26V10, multiclass
        clus
vv       14Q GAIN MUTATED 14Q GAIN WILD-TYPE
  CLUS_1                6                 73
  CLUS_2                7                 48
  CLUS_3                2                 44
  CLUS_4                0                 17
  CLUS_5                9                 46
  CLUS_6                1                 19
  CLUS_7                2                 24
  CLUS_8                2                 40
  CLUS_9                4                 54
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  14Q GAIN MUTATED        1      4      0      2      0      2
  14Q GAIN WILD-TYPE     17     16     16      9     11      7
D26V11, multiclass
        clus
vv       14Q GAIN MUTATED 14Q GAIN WILD-TYPE
  CLUS_1                1                 17
  CLUS_2                4                 16
  CLUS_3                0                 16
  CLUS_4                2                  9
  CLUS_5                0                 11
  CLUS_6                2                  7
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  14Q GAIN MUTATED        0      1      2      0      0      3      2      0
  14Q GAIN WILD-TYPE     12      8      6     12      9      4     11      9
                    vv
clus                 CLUS_9
  14Q GAIN MUTATED        1
  14Q GAIN WILD-TYPE      5
D26V12, multiclass
        clus
vv       14Q GAIN MUTATED 14Q GAIN WILD-TYPE
  CLUS_1                0                 12
  CLUS_2                1                  8
  CLUS_3                2                  6
  CLUS_4                0                 12
  CLUS_5                0                  9
  CLUS_6                3                  4
  CLUS_7                2                 11
  CLUS_8                0                  9
  CLUS_9                1                  5
[1] 9 2
[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 = 15Q GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  15Q GAIN MUTATED        0      0      1      1      1
  15Q GAIN WILD-TYPE     31     17     48     26     22
D27V1, multiclass
        clus
vv       15Q GAIN MUTATED 15Q GAIN WILD-TYPE
  CLUS_1                0                 31
  CLUS_2                0                 17
  CLUS_3                1                 48
  CLUS_4                1                 26
  CLUS_5                1                 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
  15Q GAIN MUTATED        1      2      0
  15Q GAIN WILD-TYPE     41     66     37
D27V2, multiclass
        clus
vv       15Q GAIN MUTATED 15Q GAIN WILD-TYPE
  CLUS_1                1                 41
  CLUS_2                2                 66
  CLUS_3                0                 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
  15Q GAIN MUTATED        3      5      3
  15Q GAIN WILD-TYPE     50    216    174
D27V3, multiclass
        clus
vv       15Q GAIN MUTATED 15Q GAIN WILD-TYPE
  CLUS_1                3                 50
  CLUS_2                5                216
  CLUS_3                3                174
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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        2      3      3
  15Q GAIN WILD-TYPE     83    100    103
D27V4, multiclass
        clus
vv       15Q GAIN MUTATED 15Q GAIN WILD-TYPE
  CLUS_1                2                 83
  CLUS_2                3                100
  CLUS_3                3                103
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  15Q GAIN MUTATED        4      5      0
  15Q GAIN WILD-TYPE     81    140    125
D27V5, multiclass
        clus
vv       15Q GAIN MUTATED 15Q GAIN WILD-TYPE
  CLUS_1                4                 81
  CLUS_2                5                140
  CLUS_3                0                125
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  15Q GAIN MUTATED        2      0      0      2      0      0      2      2
  15Q GAIN WILD-TYPE     49     33     35     37     43     86     20     18
                    vv
clus                 CLUS_9
  15Q GAIN MUTATED        1
  15Q GAIN WILD-TYPE     25
D27V6, multiclass
        clus
vv       15Q GAIN MUTATED 15Q GAIN WILD-TYPE
  CLUS_1                2                 49
  CLUS_2                0                 33
  CLUS_3                0                 35
  CLUS_4                2                 37
  CLUS_5                0                 43
  CLUS_6                0                 86
  CLUS_7                2                 20
  CLUS_8                2                 18
  CLUS_9                1                 25
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger 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        4      3      2      2
  15Q GAIN WILD-TYPE    123     91     95    129
D27V7, multiclass
        clus
vv       15Q GAIN MUTATED 15Q GAIN WILD-TYPE
  CLUS_1                4                123
  CLUS_2                3                 91
  CLUS_3                2                 95
  CLUS_4                2                129
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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        3      2      3      3      0
  15Q GAIN WILD-TYPE     76    106     93    126     37
D27V8, multiclass
        clus
vv       15Q GAIN MUTATED 15Q GAIN WILD-TYPE
  CLUS_1                3                 76
  CLUS_2                2                106
  CLUS_3                3                 93
  CLUS_4                3                126
  CLUS_5                0                 37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  15Q GAIN MUTATED        3      2      1      1      3
  15Q GAIN WILD-TYPE     57     86     70     74    101
D27V9, multiclass
        clus
vv       15Q GAIN MUTATED 15Q GAIN WILD-TYPE
  CLUS_1                3                 57
  CLUS_2                2                 86
  CLUS_3                1                 70
  CLUS_4                1                 74
  CLUS_5                3                101
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  15Q GAIN MUTATED        1      2      2      0      1      1      1      1
  15Q GAIN WILD-TYPE     78     53     44     17     54     19     25     41
                    vv
clus                 CLUS_9
  15Q GAIN MUTATED        1
  15Q GAIN WILD-TYPE     57
D27V10, multiclass
        clus
vv       15Q GAIN MUTATED 15Q GAIN WILD-TYPE
  CLUS_1                1                 78
  CLUS_2                2                 53
  CLUS_3                2                 44
  CLUS_4                0                 17
  CLUS_5                1                 54
  CLUS_6                1                 19
  CLUS_7                1                 25
  CLUS_8                1                 41
  CLUS_9                1                 57
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  15Q GAIN MUTATED        0      0      0      1      0      0
  15Q GAIN WILD-TYPE     18     20     16     10     11      9
D27V11, multiclass
[1] "Remove cluster labels:" "15Q GAIN MUTATED"      
clus
  15Q GAIN MUTATED 15Q GAIN WILD-TYPE 
                 1                 84 
        TCGA-A6-2675         TCGA-A6-5657         TCGA-A6-5667 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-A6-6137         TCGA-A6-6138         TCGA-A6-6140 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-A6-6141         TCGA-A6-6142         TCGA-A6-6650 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-A6-6651         TCGA-A6-6653         TCGA-A6-6654 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-A6-6781         TCGA-A6-6782         TCGA-AA-3489 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AA-3511         TCGA-AD-5900         TCGA-AD-6548 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AD-6889         TCGA-AD-6901         TCGA-AD-6963 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AD-6964         TCGA-AD-6965         TCGA-AY-6196 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AZ-4323         TCGA-AZ-4616         TCGA-AZ-5403 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AZ-6598         TCGA-AZ-6600         TCGA-AZ-6601 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AZ-6603         TCGA-AZ-6605         TCGA-AZ-6607 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-CA-6718         TCGA-CA-6719         TCGA-CK-5916 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-CK-6748         TCGA-CM-4751         TCGA-CM-5860 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-CM-6167         TCGA-CM-6674         TCGA-CM-6676 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-CM-6677         TCGA-CM-6678         TCGA-CM-6679 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-CM-6680         TCGA-D5-5537         TCGA-D5-6533 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-D5-6534         TCGA-D5-6536         TCGA-D5-6922 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-D5-6924         TCGA-DM-A0XD         TCGA-DM-A0XF 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-DM-A1D0         TCGA-DM-A1D7         TCGA-DM-A1D8 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-DM-A1D9         TCGA-DM-A1DA         TCGA-DM-A1HA 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-DM-A280         TCGA-DM-A282         TCGA-DM-A285 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-DM-A28F         TCGA-F4-6459         TCGA-F4-6460 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-F4-6569         TCGA-F4-6570         TCGA-F4-6704 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-F4-6805         TCGA-F4-6807         TCGA-F4-6808 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-F4-6809         TCGA-G4-6294         TCGA-G4-6295 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-G4-6299         TCGA-G4-6302         TCGA-G4-6303 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-G4-6306         TCGA-G4-6309         TCGA-G4-6314 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-G4-6625         TCGA-G4-6627         TCGA-G4-6628 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  15Q GAIN MUTATED        0      0      0      0      0      0      1      0
  15Q GAIN WILD-TYPE     12      9      8     12      9      7     12      9
                    vv
clus                 CLUS_9
  15Q GAIN MUTATED        0
  15Q GAIN WILD-TYPE      6
D27V12, multiclass
[1] "Remove cluster labels:" "15Q GAIN MUTATED"      
clus
  15Q GAIN MUTATED 15Q GAIN WILD-TYPE 
                 1                 84 
        TCGA-A6-2675         TCGA-A6-5657         TCGA-A6-5667 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-A6-6137         TCGA-A6-6138         TCGA-A6-6140 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-A6-6141         TCGA-A6-6142         TCGA-A6-6650 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-A6-6651         TCGA-A6-6653         TCGA-A6-6654 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-A6-6781         TCGA-A6-6782         TCGA-AA-3489 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AA-3511         TCGA-AD-5900         TCGA-AD-6548 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AD-6889         TCGA-AD-6901         TCGA-AD-6963 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AD-6964         TCGA-AD-6965         TCGA-AY-6196 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AZ-4323         TCGA-AZ-4616         TCGA-AZ-5403 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AZ-6598         TCGA-AZ-6600         TCGA-AZ-6601 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-AZ-6603         TCGA-AZ-6605         TCGA-AZ-6607 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-CA-6718         TCGA-CA-6719         TCGA-CK-5916 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-CK-6748         TCGA-CM-4751         TCGA-CM-5860 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-CM-6167         TCGA-CM-6674         TCGA-CM-6676 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-CM-6677         TCGA-CM-6678         TCGA-CM-6679 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-CM-6680         TCGA-D5-5537         TCGA-D5-6533 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-D5-6534         TCGA-D5-6536         TCGA-D5-6922 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-D5-6924         TCGA-DM-A0XD         TCGA-DM-A0XF 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-DM-A1D0         TCGA-DM-A1D7         TCGA-DM-A1D8 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-DM-A1D9         TCGA-DM-A1DA         TCGA-DM-A1HA 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-DM-A280         TCGA-DM-A282         TCGA-DM-A285 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-DM-A28F         TCGA-F4-6459         TCGA-F4-6460 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-F4-6569         TCGA-F4-6570         TCGA-F4-6704 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-F4-6805         TCGA-F4-6807         TCGA-F4-6808 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-F4-6809         TCGA-G4-6294         TCGA-G4-6295 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-G4-6299         TCGA-G4-6302         TCGA-G4-6303 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-G4-6306         TCGA-G4-6309         TCGA-G4-6314 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-G4-6625         TCGA-G4-6627         TCGA-G4-6628 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 

Clustering(28) Variable = 16P GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  16P GAIN MUTATED        0      8     17      2     14
  16P GAIN WILD-TYPE     31      9     32     25      9
D28V1, multiclass
        clus
vv       16P GAIN MUTATED 16P GAIN WILD-TYPE
  CLUS_1                0                 31
  CLUS_2                8                  9
  CLUS_3               17                 32
  CLUS_4                2                 25
  CLUS_5               14                  9
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  16P GAIN MUTATED        3     17     21
  16P GAIN WILD-TYPE     39     51     16
D28V2, multiclass
        clus
vv       16P GAIN MUTATED 16P GAIN WILD-TYPE
  CLUS_1                3                 39
  CLUS_2               17                 51
  CLUS_3               21                 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
  16P GAIN MUTATED       15     85      6
  16P GAIN WILD-TYPE     38    136    171
D28V3, multiclass
        clus
vv       16P GAIN MUTATED 16P GAIN WILD-TYPE
  CLUS_1               15                 38
  CLUS_2               85                136
  CLUS_3                6                171
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       21     28     15
  16P GAIN WILD-TYPE     64     75     91
D28V4, multiclass
        clus
vv       16P GAIN MUTATED 16P GAIN WILD-TYPE
  CLUS_1               21                 64
  CLUS_2               28                 75
  CLUS_3               15                 91
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       27     25     26
  16P GAIN WILD-TYPE     58    120     99
D28V5, multiclass
        clus
vv       16P GAIN MUTATED 16P GAIN WILD-TYPE
  CLUS_1               27                 58
  CLUS_2               25                120
  CLUS_3               26                 99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  16P GAIN MUTATED       15      3     13      6     11     18      2      5
  16P GAIN WILD-TYPE     36     30     22     33     32     68     20     15
                    vv
clus                 CLUS_9
  16P GAIN MUTATED        5
  16P GAIN WILD-TYPE     21
D28V6, multiclass
        clus
vv       16P GAIN MUTATED 16P GAIN WILD-TYPE
  CLUS_1               15                 36
  CLUS_2                3                 30
  CLUS_3               13                 22
  CLUS_4                6                 33
  CLUS_5               11                 32
  CLUS_6               18                 68
  CLUS_7                2                 20
  CLUS_8                5                 15
  CLUS_9                5                 21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger 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       35     12     18     41
  16P GAIN WILD-TYPE     92     82     79     90
D28V7, multiclass
        clus
vv       16P GAIN MUTATED 16P GAIN WILD-TYPE
  CLUS_1               35                 92
  CLUS_2               12                 82
  CLUS_3               18                 79
  CLUS_4               41                 90
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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       25     22      9     50      0
  16P GAIN WILD-TYPE     54     86     87     79     37
D28V8, multiclass
        clus
vv       16P GAIN MUTATED 16P GAIN WILD-TYPE
  CLUS_1               25                 54
  CLUS_2               22                 86
  CLUS_3                9                 87
  CLUS_4               50                 79
  CLUS_5                0                 37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  16P GAIN MUTATED       18     14     21     26     19
  16P GAIN WILD-TYPE     42     74     50     49     85
D28V9, multiclass
        clus
vv       16P GAIN MUTATED 16P GAIN WILD-TYPE
  CLUS_1               18                 42
  CLUS_2               14                 74
  CLUS_3               21                 50
  CLUS_4               26                 49
  CLUS_5               19                 85
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  16P GAIN MUTATED       18     14     10      0     14      3     10      4
  16P GAIN WILD-TYPE     61     41     36     17     41     17     16     38
                    vv
clus                 CLUS_9
  16P GAIN MUTATED       25
  16P GAIN WILD-TYPE     33
D28V10, multiclass
        clus
vv       16P GAIN MUTATED 16P GAIN WILD-TYPE
  CLUS_1               18                 61
  CLUS_2               14                 41
  CLUS_3               10                 36
  CLUS_4                0                 17
  CLUS_5               14                 41
  CLUS_6                3                 17
  CLUS_7               10                 16
  CLUS_8                4                 38
  CLUS_9               25                 33
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  16P GAIN MUTATED        6      5      3      2      0      5
  16P GAIN WILD-TYPE     12     15     13      9     11      4
D28V11, multiclass
        clus
vv       16P GAIN MUTATED 16P GAIN WILD-TYPE
  CLUS_1                6                 12
  CLUS_2                5                 15
  CLUS_3                3                 13
  CLUS_4                2                  9
  CLUS_5                0                 11
  CLUS_6                5                  4
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  16P GAIN MUTATED        6      2      4      2      2      1      1      2
  16P GAIN WILD-TYPE      6      7      4     10      7      6     12      7
                    vv
clus                 CLUS_9
  16P GAIN MUTATED        1
  16P GAIN WILD-TYPE      5
D28V12, multiclass
        clus
vv       16P GAIN MUTATED 16P GAIN WILD-TYPE
  CLUS_1                6                  6
  CLUS_2                2                  7
  CLUS_3                4                  4
  CLUS_4                2                 10
  CLUS_5                2                  7
  CLUS_6                1                  6
  CLUS_7                1                 12
  CLUS_8                2                  7
  CLUS_9                1                  5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(29) Variable = 16Q GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  16Q GAIN MUTATED        0      6     17      2     13
  16Q GAIN WILD-TYPE     31     11     32     25     10
D29V1, multiclass
        clus
vv       16Q GAIN MUTATED 16Q GAIN WILD-TYPE
  CLUS_1                0                 31
  CLUS_2                6                 11
  CLUS_3               17                 32
  CLUS_4                2                 25
  CLUS_5               13                 10
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  16Q GAIN MUTATED        2     16     20
  16Q GAIN WILD-TYPE     40     52     17
D29V2, multiclass
        clus
vv       16Q GAIN MUTATED 16Q GAIN WILD-TYPE
  CLUS_1                2                 40
  CLUS_2               16                 52
  CLUS_3               20                 17
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  16Q GAIN MUTATED       14     85      5
  16Q GAIN WILD-TYPE     39    136    172
D29V3, multiclass
        clus
vv       16Q GAIN MUTATED 16Q GAIN WILD-TYPE
  CLUS_1               14                 39
  CLUS_2               85                136
  CLUS_3                5                172
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       21     29     15
  16Q GAIN WILD-TYPE     64     74     91
D29V4, multiclass
        clus
vv       16Q GAIN MUTATED 16Q GAIN WILD-TYPE
  CLUS_1               21                 64
  CLUS_2               29                 74
  CLUS_3               15                 91
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       27     26     25
  16Q GAIN WILD-TYPE     58    119    100
D29V5, multiclass
        clus
vv       16Q GAIN MUTATED 16Q GAIN WILD-TYPE
  CLUS_1               27                 58
  CLUS_2               26                119
  CLUS_3               25                100
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  16Q GAIN MUTATED       15      3     13      7     11     18      2      5
  16Q GAIN WILD-TYPE     36     30     22     32     32     68     20     15
                    vv
clus                 CLUS_9
  16Q GAIN MUTATED        4
  16Q GAIN WILD-TYPE     22
D29V6, multiclass
        clus
vv       16Q GAIN MUTATED 16Q GAIN WILD-TYPE
  CLUS_1               15                 36
  CLUS_2                3                 30
  CLUS_3               13                 22
  CLUS_4                7                 32
  CLUS_5               11                 32
  CLUS_6               18                 68
  CLUS_7                2                 20
  CLUS_8                5                 15
  CLUS_9                4                 22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger 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       37     12     16     39
  16Q GAIN WILD-TYPE     90     82     81     92
D29V7, multiclass
        clus
vv       16Q GAIN MUTATED 16Q GAIN WILD-TYPE
  CLUS_1               37                 90
  CLUS_2               12                 82
  CLUS_3               16                 81
  CLUS_4               39                 92
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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       25     23      9     47      0
  16Q GAIN WILD-TYPE     54     85     87     82     37
D29V8, multiclass
        clus
vv       16Q GAIN MUTATED 16Q GAIN WILD-TYPE
  CLUS_1               25                 54
  CLUS_2               23                 85
  CLUS_3                9                 87
  CLUS_4               47                 82
  CLUS_5                0                 37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  16Q GAIN MUTATED       18     14     22     25     17
  16Q GAIN WILD-TYPE     42     74     49     50     87
D29V9, multiclass
        clus
vv       16Q GAIN MUTATED 16Q GAIN WILD-TYPE
  CLUS_1               18                 42
  CLUS_2               14                 74
  CLUS_3               22                 49
  CLUS_4               25                 50
  CLUS_5               17                 87
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  16Q GAIN MUTATED       17     14     11      0     14      3      9      4
  16Q GAIN WILD-TYPE     62     41     35     17     41     17     17     38
                    vv
clus                 CLUS_9
  16Q GAIN MUTATED       24
  16Q GAIN WILD-TYPE     34
D29V10, multiclass
        clus
vv       16Q GAIN MUTATED 16Q GAIN WILD-TYPE
  CLUS_1               17                 62
  CLUS_2               14                 41
  CLUS_3               11                 35
  CLUS_4                0                 17
  CLUS_5               14                 41
  CLUS_6                3                 17
  CLUS_7                9                 17
  CLUS_8                4                 38
  CLUS_9               24                 34
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  16Q GAIN MUTATED        7      4      3      3      0      5
  16Q GAIN WILD-TYPE     11     16     13      8     11      4
D29V11, multiclass
        clus
vv       16Q GAIN MUTATED 16Q GAIN WILD-TYPE
  CLUS_1                7                 11
  CLUS_2                4                 16
  CLUS_3                3                 13
  CLUS_4                3                  8
  CLUS_5                0                 11
  CLUS_6                5                  4
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  16Q GAIN MUTATED        6      2      4      3      2      1      1      2
  16Q GAIN WILD-TYPE      6      7      4      9      7      6     12      7
                    vv
clus                 CLUS_9
  16Q GAIN MUTATED        1
  16Q GAIN WILD-TYPE      5
D29V12, multiclass
        clus
vv       16Q GAIN MUTATED 16Q GAIN WILD-TYPE
  CLUS_1                6                  6
  CLUS_2                2                  7
  CLUS_3                4                  4
  CLUS_4                3                  9
  CLUS_5                2                  7
  CLUS_6                1                  6
  CLUS_7                1                 12
  CLUS_8                2                  7
  CLUS_9                1                  5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(30) Variable = 17P GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  17P GAIN MUTATED        2      3      1      0      2
  17P GAIN WILD-TYPE     29     14     48     27     21
D30V1, multiclass
        clus
vv       17P GAIN MUTATED 17P GAIN WILD-TYPE
  CLUS_1                2                 29
  CLUS_2                3                 14
  CLUS_3                1                 48
  CLUS_4                0                 27
  CLUS_5                2                 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 GAIN MUTATED        2      3      3
  17P GAIN WILD-TYPE     40     65     34
D30V2, multiclass
        clus
vv       17P GAIN MUTATED 17P GAIN WILD-TYPE
  CLUS_1                2                 40
  CLUS_2                3                 65
  CLUS_3                3                 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
  17P GAIN MUTATED        4     15     10
  17P GAIN WILD-TYPE     49    206    167
D30V3, multiclass
        clus
vv       17P GAIN MUTATED 17P GAIN WILD-TYPE
  CLUS_1                4                 49
  CLUS_2               15                206
  CLUS_3               10                167
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  17P GAIN MUTATED        7      8      7
  17P GAIN WILD-TYPE     78     95     99
D30V4, multiclass
        clus
vv       17P GAIN MUTATED 17P GAIN WILD-TYPE
  CLUS_1                7                 78
  CLUS_2                8                 95
  CLUS_3                7                 99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  17P GAIN MUTATED        4     12      7
  17P GAIN WILD-TYPE     81    133    118
D30V5, multiclass
        clus
vv       17P GAIN MUTATED 17P GAIN WILD-TYPE
  CLUS_1                4                 81
  CLUS_2               12                133
  CLUS_3                7                118
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  17P GAIN MUTATED        3      2      2      3      5      6      0      1
  17P GAIN WILD-TYPE     48     31     33     36     38     80     22     19
                    vv
clus                 CLUS_9
  17P GAIN MUTATED        1
  17P GAIN WILD-TYPE     25
D30V6, multiclass
        clus
vv       17P GAIN MUTATED 17P GAIN WILD-TYPE
  CLUS_1                3                 48
  CLUS_2                2                 31
  CLUS_3                2                 33
  CLUS_4                3                 36
  CLUS_5                5                 38
  CLUS_6                6                 80
  CLUS_7                0                 22
  CLUS_8                1                 19
  CLUS_9                1                 25
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  17P GAIN MUTATED       13      5      5      6
  17P GAIN WILD-TYPE    114     89     92    125
D30V7, multiclass
        clus
vv       17P GAIN MUTATED 17P GAIN WILD-TYPE
  CLUS_1               13                114
  CLUS_2                5                 89
  CLUS_3                5                 92
  CLUS_4                6                125
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  17P GAIN MUTATED        5     13      3      6      2
  17P GAIN WILD-TYPE     74     95     93    123     35
D30V8, multiclass
        clus
vv       17P GAIN MUTATED 17P GAIN WILD-TYPE
  CLUS_1                5                 74
  CLUS_2               13                 95
  CLUS_3                3                 93
  CLUS_4                6                123
  CLUS_5                2                 35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  17P GAIN MUTATED        3      6      5      8      3
  17P GAIN WILD-TYPE     57     82     66     67    101
D30V9, multiclass
        clus
vv       17P GAIN MUTATED 17P GAIN WILD-TYPE
  CLUS_1                3                 57
  CLUS_2                6                 82
  CLUS_3                5                 66
  CLUS_4                8                 67
  CLUS_5                3                101
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  17P GAIN MUTATED        7      2      4      0      4      0      3      2
  17P GAIN WILD-TYPE     72     53     42     17     51     20     23     40
                    vv
clus                 CLUS_9
  17P GAIN MUTATED        3
  17P GAIN WILD-TYPE     55
D30V10, multiclass
        clus
vv       17P GAIN MUTATED 17P GAIN WILD-TYPE
  CLUS_1                7                 72
  CLUS_2                2                 53
  CLUS_3                4                 42
  CLUS_4                0                 17
  CLUS_5                4                 51
  CLUS_6                0                 20
  CLUS_7                3                 23
  CLUS_8                2                 40
  CLUS_9                3                 55
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  17P GAIN MUTATED        0      0      1      2      0      1
  17P GAIN WILD-TYPE     18     20     15      9     11      8
D30V11, multiclass
        clus
vv       17P GAIN MUTATED 17P GAIN WILD-TYPE
  CLUS_1                0                 18
  CLUS_2                0                 20
  CLUS_3                1                 15
  CLUS_4                2                  9
  CLUS_5                0                 11
  CLUS_6                1                  8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  17P GAIN MUTATED        0      0      0      0      1      2      1      0
  17P GAIN WILD-TYPE     12      9      8     12      8      5     12      9
                    vv
clus                 CLUS_9
  17P GAIN MUTATED        0
  17P GAIN WILD-TYPE      6
D30V12, multiclass
        clus
vv       17P GAIN MUTATED 17P GAIN WILD-TYPE
  CLUS_1                0                 12
  CLUS_2                0                  9
  CLUS_3                0                  8
  CLUS_4                0                 12
  CLUS_5                1                  8
  CLUS_6                2                  5
  CLUS_7                1                 12
  CLUS_8                0                  9
  CLUS_9                0                  6
[1] 9 2
[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 = 17Q GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  17Q GAIN MUTATED        2      5     10      2      6
  17Q GAIN WILD-TYPE     29     12     39     25     17
D31V1, multiclass
        clus
vv       17Q GAIN MUTATED 17Q GAIN WILD-TYPE
  CLUS_1                2                 29
  CLUS_2                5                 12
  CLUS_3               10                 39
  CLUS_4                2                 25
  CLUS_5                6                 17
[1] 5 2
[1] TRUE
[1] "dimension of contingency table 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     11     11
  17Q GAIN WILD-TYPE     39     57     26
D31V2, multiclass
        clus
vv       17Q GAIN MUTATED 17Q GAIN WILD-TYPE
  CLUS_1                3                 39
  CLUS_2               11                 57
  CLUS_3               11                 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
  17Q GAIN MUTATED       10     60     14
  17Q GAIN WILD-TYPE     43    161    163
D31V3, multiclass
        clus
vv       17Q GAIN MUTATED 17Q GAIN WILD-TYPE
  CLUS_1               10                 43
  CLUS_2               60                161
  CLUS_3               14                163
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       12     33     15
  17Q GAIN WILD-TYPE     73     70     91
D31V4, multiclass
        clus
vv       17Q GAIN MUTATED 17Q GAIN WILD-TYPE
  CLUS_1               12                 73
  CLUS_2               33                 70
  CLUS_3               15                 91
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       16     27     18
  17Q GAIN WILD-TYPE     69    118    107
D31V5, multiclass
        clus
vv       17Q GAIN MUTATED 17Q GAIN WILD-TYPE
  CLUS_1               16                 69
  CLUS_2               27                118
  CLUS_3               18                107
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  17Q GAIN MUTATED       11      4      4      7     11     13      0      4
  17Q GAIN WILD-TYPE     40     29     31     32     32     73     22     16
                    vv
clus                 CLUS_9
  17Q GAIN MUTATED        7
  17Q GAIN WILD-TYPE     19
D31V6, multiclass
        clus
vv       17Q GAIN MUTATED 17Q GAIN WILD-TYPE
  CLUS_1               11                 40
  CLUS_2                4                 29
  CLUS_3                4                 31
  CLUS_4                7                 32
  CLUS_5               11                 32
  CLUS_6               13                 73
  CLUS_7                0                 22
  CLUS_8                4                 16
  CLUS_9                7                 19
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger 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       46      9     11     18
  17Q GAIN WILD-TYPE     81     85     86    113
D31V7, multiclass
        clus
vv       17Q GAIN MUTATED 17Q GAIN WILD-TYPE
  CLUS_1               46                 81
  CLUS_2                9                 85
  CLUS_3               11                 86
  CLUS_4               18                113
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  17Q GAIN MUTATED       17     32      6     26      3
  17Q GAIN WILD-TYPE     62     76     90    103     34
D31V8, multiclass
        clus
vv       17Q GAIN MUTATED 17Q GAIN WILD-TYPE
  CLUS_1               17                 62
  CLUS_2               32                 76
  CLUS_3                6                 90
  CLUS_4               26                103
  CLUS_5                3                 34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  17Q GAIN MUTATED       16     14     13     20     12
  17Q GAIN WILD-TYPE     44     74     58     55     92
D31V9, multiclass
        clus
vv       17Q GAIN MUTATED 17Q GAIN WILD-TYPE
  CLUS_1               16                 44
  CLUS_2               14                 74
  CLUS_3               13                 58
  CLUS_4               20                 55
  CLUS_5               12                 92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  17Q GAIN MUTATED       18     10     11      0     16      2      6      2
  17Q GAIN WILD-TYPE     61     45     35     17     39     18     20     40
                    vv
clus                 CLUS_9
  17Q GAIN MUTATED       10
  17Q GAIN WILD-TYPE     48
D31V10, multiclass
        clus
vv       17Q GAIN MUTATED 17Q GAIN WILD-TYPE
  CLUS_1               18                 61
  CLUS_2               10                 45
  CLUS_3               11                 35
  CLUS_4                0                 17
  CLUS_5               16                 39
  CLUS_6                2                 18
  CLUS_7                6                 20
  CLUS_8                2                 40
  CLUS_9               10                 48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  17Q GAIN MUTATED        5      3      2      4      0      1
  17Q GAIN WILD-TYPE     13     17     14      7     11      8
D31V11, multiclass
        clus
vv       17Q GAIN MUTATED 17Q GAIN WILD-TYPE
  CLUS_1                5                 13
  CLUS_2                3                 17
  CLUS_3                2                 14
  CLUS_4                4                  7
  CLUS_5                0                 11
  CLUS_6                1                  8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  17Q GAIN MUTATED        1      1      3      1      2      3      1      2
  17Q GAIN WILD-TYPE     11      8      5     11      7      4     12      7
                    vv
clus                 CLUS_9
  17Q GAIN MUTATED        1
  17Q GAIN WILD-TYPE      5
D31V12, multiclass
        clus
vv       17Q GAIN MUTATED 17Q GAIN WILD-TYPE
  CLUS_1                1                 11
  CLUS_2                1                  8
  CLUS_3                3                  5
  CLUS_4                1                 11
  CLUS_5                2                  7
  CLUS_6                3                  4
  CLUS_7                1                 12
  CLUS_8                2                  7
  CLUS_9                1                  5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(32) Variable = 18P GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  18P GAIN MUTATED        1      1      0      2      0
  18P GAIN WILD-TYPE     30     16     49     25     23
D32V1, multiclass
        clus
vv       18P GAIN MUTATED 18P GAIN WILD-TYPE
  CLUS_1                1                 30
  CLUS_2                1                 16
  CLUS_3                0                 49
  CLUS_4                2                 25
  CLUS_5                0                 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
  18P GAIN MUTATED        2      2      0
  18P GAIN WILD-TYPE     40     66     37
D32V2, multiclass
        clus
vv       18P GAIN MUTATED 18P GAIN WILD-TYPE
  CLUS_1                2                 40
  CLUS_2                2                 66
  CLUS_3                0                 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
  18P GAIN MUTATED        3      6     14
  18P GAIN WILD-TYPE     50    215    163
D32V3, multiclass
        clus
vv       18P GAIN MUTATED 18P GAIN WILD-TYPE
  CLUS_1                3                 50
  CLUS_2                6                215
  CLUS_3               14                163
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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        4      2     11
  18P GAIN WILD-TYPE     81    101     95
D32V4, multiclass
        clus
vv       18P GAIN MUTATED 18P GAIN WILD-TYPE
  CLUS_1                4                 81
  CLUS_2                2                101
  CLUS_3               11                 95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  18P GAIN MUTATED        7      6      6
  18P GAIN WILD-TYPE     78    139    119
D32V5, multiclass
        clus
vv       18P GAIN MUTATED 18P GAIN WILD-TYPE
  CLUS_1                7                 78
  CLUS_2                6                139
  CLUS_3                6                119
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  18P GAIN MUTATED        5      1      1      3      2      5      1      1
  18P GAIN WILD-TYPE     46     32     34     36     41     81     21     19
                    vv
clus                 CLUS_9
  18P GAIN MUTATED        0
  18P GAIN WILD-TYPE     26
D32V6, multiclass
        clus
vv       18P GAIN MUTATED 18P GAIN WILD-TYPE
  CLUS_1                5                 46
  CLUS_2                1                 32
  CLUS_3                1                 34
  CLUS_4                3                 36
  CLUS_5                2                 41
  CLUS_6                5                 81
  CLUS_7                1                 21
  CLUS_8                1                 19
  CLUS_9                0                 26
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger 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      8      8      5
  18P GAIN WILD-TYPE    125     86     89    126
D32V7, multiclass
        clus
vv       18P GAIN MUTATED 18P GAIN WILD-TYPE
  CLUS_1                2                125
  CLUS_2                8                 86
  CLUS_3                8                 89
  CLUS_4                5                126
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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      2     13      1      4
  18P GAIN WILD-TYPE     76    106     83    128     33
D32V8, multiclass
        clus
vv       18P GAIN MUTATED 18P GAIN WILD-TYPE
  CLUS_1                3                 76
  CLUS_2                2                106
  CLUS_3               13                 83
  CLUS_4                1                128
  CLUS_5                4                 33
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  18P GAIN MUTATED        0      9      5      4      4
  18P GAIN WILD-TYPE     60     79     66     71    100
D32V9, multiclass
        clus
vv       18P GAIN MUTATED 18P GAIN WILD-TYPE
  CLUS_1                0                 60
  CLUS_2                9                 79
  CLUS_3                5                 66
  CLUS_4                4                 71
  CLUS_5                4                100
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  18P GAIN MUTATED        5      6      0      3      3      1      0      4
  18P GAIN WILD-TYPE     74     49     46     14     52     19     26     38
                    vv
clus                 CLUS_9
  18P GAIN MUTATED        0
  18P GAIN WILD-TYPE     58
D32V10, multiclass
        clus
vv       18P GAIN MUTATED 18P GAIN WILD-TYPE
  CLUS_1                5                 74
  CLUS_2                6                 49
  CLUS_3                0                 46
  CLUS_4                3                 14
  CLUS_5                3                 52
  CLUS_6                1                 19
  CLUS_7                0                 26
  CLUS_8                4                 38
  CLUS_9                0                 58
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  18P GAIN MUTATED        1      3      2      3      0      1
  18P GAIN WILD-TYPE     17     17     14      8     11      8
D32V11, multiclass
        clus
vv       18P GAIN MUTATED 18P GAIN WILD-TYPE
  CLUS_1                1                 17
  CLUS_2                3                 17
  CLUS_3                2                 14
  CLUS_4                3                  8
  CLUS_5                0                 11
  CLUS_6                1                  8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  18P GAIN MUTATED        1      0      1      1      1      2      3      1
  18P GAIN WILD-TYPE     11      9      7     11      8      5     10      8
                    vv
clus                 CLUS_9
  18P GAIN MUTATED        0
  18P GAIN WILD-TYPE      6
D32V12, multiclass
        clus
vv       18P GAIN MUTATED 18P GAIN WILD-TYPE
  CLUS_1                1                 11
  CLUS_2                0                  9
  CLUS_3                1                  7
  CLUS_4                1                 11
  CLUS_5                1                  8
  CLUS_6                2                  5
  CLUS_7                3                 10
  CLUS_8                1                  8
  CLUS_9                0                  6
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(33) Variable = 18Q GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  18Q GAIN MUTATED        1      0      0      2      0
  18Q GAIN WILD-TYPE     30     17     49     25     23
D33V1, multiclass
        clus
vv       18Q GAIN MUTATED 18Q GAIN WILD-TYPE
  CLUS_1                1                 30
  CLUS_2                0                 17
  CLUS_3                0                 49
  CLUS_4                2                 25
  CLUS_5                0                 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 GAIN MUTATED        1      2      0
  18Q GAIN WILD-TYPE     41     66     37
D33V2, multiclass
        clus
vv       18Q GAIN MUTATED 18Q GAIN WILD-TYPE
  CLUS_1                1                 41
  CLUS_2                2                 66
  CLUS_3                0                 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
  18Q GAIN MUTATED        2      3      9
  18Q GAIN WILD-TYPE     51    218    168
D33V3, multiclass
        clus
vv       18Q GAIN MUTATED 18Q GAIN WILD-TYPE
  CLUS_1                2                 51
  CLUS_2                3                218
  CLUS_3                9                168
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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      1      6
  18Q GAIN WILD-TYPE     82    102    100
D33V4, multiclass
        clus
vv       18Q GAIN MUTATED 18Q GAIN WILD-TYPE
  CLUS_1                3                 82
  CLUS_2                1                102
  CLUS_3                6                100
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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        4      3      6
  18Q GAIN WILD-TYPE     81    142    119
D33V5, multiclass
        clus
vv       18Q GAIN MUTATED 18Q GAIN WILD-TYPE
  CLUS_1                4                 81
  CLUS_2                3                142
  CLUS_3                6                119
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  18Q GAIN MUTATED        3      0      1      1      2      5      1      0
  18Q GAIN WILD-TYPE     48     33     34     38     41     81     21     20
                    vv
clus                 CLUS_9
  18Q GAIN MUTATED        0
  18Q GAIN WILD-TYPE     26
D33V6, multiclass
        clus
vv       18Q GAIN MUTATED 18Q GAIN WILD-TYPE
  CLUS_1                3                 48
  CLUS_2                0                 33
  CLUS_3                1                 34
  CLUS_4                1                 38
  CLUS_5                2                 41
  CLUS_6                5                 81
  CLUS_7                1                 21
  CLUS_8                0                 20
  CLUS_9                0                 26
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  18Q GAIN MUTATED        0      3      7      4
  18Q GAIN WILD-TYPE    127     91     90    127
D33V7, multiclass
        clus
vv       18Q GAIN MUTATED 18Q GAIN WILD-TYPE
  CLUS_1                0                127
  CLUS_2                3                 91
  CLUS_3                7                 90
  CLUS_4                4                127
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  18Q GAIN MUTATED        2      0      8      0      4
  18Q GAIN WILD-TYPE     77    108     88    129     33
D33V8, multiclass
        clus
vv       18Q GAIN MUTATED 18Q GAIN WILD-TYPE
  CLUS_1                2                 77
  CLUS_2                0                108
  CLUS_3                8                 88
  CLUS_4                0                129
  CLUS_5                4                 33
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  18Q GAIN MUTATED        0      6      3      2      3
  18Q GAIN WILD-TYPE     60     82     68     73    101
D33V9, multiclass
        clus
vv       18Q GAIN MUTATED 18Q GAIN WILD-TYPE
  CLUS_1                0                 60
  CLUS_2                6                 82
  CLUS_3                3                 68
  CLUS_4                2                 73
  CLUS_5                3                101
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  18Q GAIN MUTATED        1      5      0      2      2      1      0      3
  18Q GAIN WILD-TYPE     78     50     46     15     53     19     26     39
                    vv
clus                 CLUS_9
  18Q GAIN MUTATED        0
  18Q GAIN WILD-TYPE     58
D33V10, multiclass
        clus
vv       18Q GAIN MUTATED 18Q GAIN WILD-TYPE
  CLUS_1                1                 78
  CLUS_2                5                 50
  CLUS_3                0                 46
  CLUS_4                2                 15
  CLUS_5                2                 53
  CLUS_6                1                 19
  CLUS_7                0                 26
  CLUS_8                3                 39
  CLUS_9                0                 58
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  18Q GAIN MUTATED        0      3      1      1      0      0
  18Q GAIN WILD-TYPE     18     17     15     10     11      9
D33V11, multiclass
        clus
vv       18Q GAIN MUTATED 18Q GAIN WILD-TYPE
  CLUS_1                0                 18
  CLUS_2                3                 17
  CLUS_3                1                 15
  CLUS_4                1                 10
  CLUS_5                0                 11
  CLUS_6                0                  9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  18Q GAIN MUTATED        1      0      1      0      1      1      1      0
  18Q GAIN WILD-TYPE     11      9      7     12      8      6     12      9
                    vv
clus                 CLUS_9
  18Q GAIN MUTATED        0
  18Q GAIN WILD-TYPE      6
D33V12, multiclass
        clus
vv       18Q GAIN MUTATED 18Q GAIN WILD-TYPE
  CLUS_1                1                 11
  CLUS_2                0                  9
  CLUS_3                1                  7
  CLUS_4                0                 12
  CLUS_5                1                  8
  CLUS_6                1                  6
  CLUS_7                1                 12
  CLUS_8                0                  9
  CLUS_9                0                  6
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(34) Variable = 19P GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  19P GAIN MUTATED        0      4      6      4      2
  19P GAIN WILD-TYPE     31     13     43     23     21
D34V1, multiclass
        clus
vv       19P GAIN MUTATED 19P GAIN WILD-TYPE
  CLUS_1                0                 31
  CLUS_2                4                 13
  CLUS_3                6                 43
  CLUS_4                4                 23
  CLUS_5                2                 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
  19P GAIN MUTATED        1     10      5
  19P GAIN WILD-TYPE     41     58     32
D34V2, multiclass
        clus
vv       19P GAIN MUTATED 19P GAIN WILD-TYPE
  CLUS_1                1                 41
  CLUS_2               10                 58
  CLUS_3                5                 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
  19P GAIN MUTATED       13     48     12
  19P GAIN WILD-TYPE     40    173    165
D34V3, multiclass
        clus
vv       19P GAIN MUTATED 19P GAIN WILD-TYPE
  CLUS_1               13                 40
  CLUS_2               48                173
  CLUS_3               12                165
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       13     24     20
  19P GAIN WILD-TYPE     72     79     86
D34V4, multiclass
        clus
vv       19P GAIN MUTATED 19P GAIN WILD-TYPE
  CLUS_1               13                 72
  CLUS_2               24                 79
  CLUS_3               20                 86
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       18     30     15
  19P GAIN WILD-TYPE     67    115    110
D34V5, multiclass
        clus
vv       19P GAIN MUTATED 19P GAIN WILD-TYPE
  CLUS_1               18                 67
  CLUS_2               30                115
  CLUS_3               15                110
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  19P GAIN MUTATED       13      6      8      6      8     12      0      6
  19P GAIN WILD-TYPE     38     27     27     33     35     74     22     14
                    vv
clus                 CLUS_9
  19P GAIN MUTATED        4
  19P GAIN WILD-TYPE     22
D34V6, multiclass
        clus
vv       19P GAIN MUTATED 19P GAIN WILD-TYPE
  CLUS_1               13                 38
  CLUS_2                6                 27
  CLUS_3                8                 27
  CLUS_4                6                 33
  CLUS_5                8                 35
  CLUS_6               12                 74
  CLUS_7                0                 22
  CLUS_8                6                 14
  CLUS_9                4                 22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger 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       26     12     18     17
  19P GAIN WILD-TYPE    101     82     79    114
D34V7, multiclass
        clus
vv       19P GAIN MUTATED 19P GAIN WILD-TYPE
  CLUS_1               26                101
  CLUS_2               12                 82
  CLUS_3               18                 79
  CLUS_4               17                114
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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       26     18      9     19      1
  19P GAIN WILD-TYPE     53     90     87    110     36
D34V8, multiclass
        clus
vv       19P GAIN MUTATED 19P GAIN WILD-TYPE
  CLUS_1               26                 53
  CLUS_2               18                 90
  CLUS_3                9                 87
  CLUS_4               19                110
  CLUS_5                1                 36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  19P GAIN MUTATED       19     11     17     10      5
  19P GAIN WILD-TYPE     41     77     54     65     99
D34V9, multiclass
        clus
vv       19P GAIN MUTATED 19P GAIN WILD-TYPE
  CLUS_1               19                 41
  CLUS_2               11                 77
  CLUS_3               17                 54
  CLUS_4               10                 65
  CLUS_5                5                 99
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  19P GAIN MUTATED       12     14      6      0      8      4      8      2
  19P GAIN WILD-TYPE     67     41     40     17     47     16     18     40
                    vv
clus                 CLUS_9
  19P GAIN MUTATED        8
  19P GAIN WILD-TYPE     50
D34V10, multiclass
        clus
vv       19P GAIN MUTATED 19P GAIN WILD-TYPE
  CLUS_1               12                 67
  CLUS_2               14                 41
  CLUS_3                6                 40
  CLUS_4                0                 17
  CLUS_5                8                 47
  CLUS_6                4                 16
  CLUS_7                8                 18
  CLUS_8                2                 40
  CLUS_9                8                 50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  19P GAIN MUTATED        4      6      1      3      0      2
  19P GAIN WILD-TYPE     14     14     15      8     11      7
D34V11, multiclass
        clus
vv       19P GAIN MUTATED 19P GAIN WILD-TYPE
  CLUS_1                4                 14
  CLUS_2                6                 14
  CLUS_3                1                 15
  CLUS_4                3                  8
  CLUS_5                0                 11
  CLUS_6                2                  7
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  19P GAIN MUTATED        3      4      5      1      1      0      0      1
  19P GAIN WILD-TYPE      9      5      3     11      8      7     13      8
                    vv
clus                 CLUS_9
  19P GAIN MUTATED        1
  19P GAIN WILD-TYPE      5
D34V12, multiclass
        clus
vv       19P GAIN MUTATED 19P GAIN WILD-TYPE
  CLUS_1                3                  9
  CLUS_2                4                  5
  CLUS_3                5                  3
  CLUS_4                1                 11
  CLUS_5                1                  8
  CLUS_6                0                  7
  CLUS_7                0                 13
  CLUS_8                1                  8
  CLUS_9                1                  5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(35) Variable = 19Q GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  19Q GAIN MUTATED        0      4      7      5      2
  19Q GAIN WILD-TYPE     31     13     42     22     21
D35V1, multiclass
        clus
vv       19Q GAIN MUTATED 19Q GAIN WILD-TYPE
  CLUS_1                0                 31
  CLUS_2                4                 13
  CLUS_3                7                 42
  CLUS_4                5                 22
  CLUS_5                2                 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
  19Q GAIN MUTATED        1     13      4
  19Q GAIN WILD-TYPE     41     55     33
D35V2, multiclass
        clus
vv       19Q GAIN MUTATED 19Q GAIN WILD-TYPE
  CLUS_1                1                 41
  CLUS_2               13                 55
  CLUS_3                4                 33
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  19Q GAIN MUTATED       15     48     21
  19Q GAIN WILD-TYPE     38    173    156
D35V3, multiclass
        clus
vv       19Q GAIN MUTATED 19Q GAIN WILD-TYPE
  CLUS_1               15                 38
  CLUS_2               48                173
  CLUS_3               21                156
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       18     25     23
  19Q GAIN WILD-TYPE     67     78     83
D35V4, multiclass
        clus
vv       19Q GAIN MUTATED 19Q GAIN WILD-TYPE
  CLUS_1               18                 67
  CLUS_2               25                 78
  CLUS_3               23                 83
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       23     33     15
  19Q GAIN WILD-TYPE     62    112    110
D35V5, multiclass
        clus
vv       19Q GAIN MUTATED 19Q GAIN WILD-TYPE
  CLUS_1               23                 62
  CLUS_2               33                112
  CLUS_3               15                110
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  19Q GAIN MUTATED       15      5      9      6      9     17      0      6
  19Q GAIN WILD-TYPE     36     28     26     33     34     69     22     14
                    vv
clus                 CLUS_9
  19Q GAIN MUTATED        4
  19Q GAIN WILD-TYPE     22
D35V6, multiclass
        clus
vv       19Q GAIN MUTATED 19Q GAIN WILD-TYPE
  CLUS_1               15                 36
  CLUS_2                5                 28
  CLUS_3                9                 26
  CLUS_4                6                 33
  CLUS_5                9                 34
  CLUS_6               17                 69
  CLUS_7                0                 22
  CLUS_8                6                 14
  CLUS_9                4                 22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger 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       27     18     21     18
  19Q GAIN WILD-TYPE    100     76     76    113
D35V7, multiclass
        clus
vv       19Q GAIN MUTATED 19Q GAIN WILD-TYPE
  CLUS_1               27                100
  CLUS_2               18                 76
  CLUS_3               21                 76
  CLUS_4               18                113
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  19Q GAIN MUTATED       28     20     12     23      1
  19Q GAIN WILD-TYPE     51     88     84    106     36
D35V8, multiclass
        clus
vv       19Q GAIN MUTATED 19Q GAIN WILD-TYPE
  CLUS_1               28                 51
  CLUS_2               20                 88
  CLUS_3               12                 84
  CLUS_4               23                106
  CLUS_5                1                 36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  19Q GAIN MUTATED       17     13     21      9     12
  19Q GAIN WILD-TYPE     43     75     50     66     92
D35V9, multiclass
        clus
vv       19Q GAIN MUTATED 19Q GAIN WILD-TYPE
  CLUS_1               17                 43
  CLUS_2               13                 75
  CLUS_3               21                 50
  CLUS_4                9                 66
  CLUS_5               12                 92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  19Q GAIN MUTATED       15     14      7      0     11      4      8      4
  19Q GAIN WILD-TYPE     64     41     39     17     44     16     18     38
                    vv
clus                 CLUS_9
  19Q GAIN MUTATED        9
  19Q GAIN WILD-TYPE     49
D35V10, multiclass
        clus
vv       19Q GAIN MUTATED 19Q GAIN WILD-TYPE
  CLUS_1               15                 64
  CLUS_2               14                 41
  CLUS_3                7                 39
  CLUS_4                0                 17
  CLUS_5               11                 44
  CLUS_6                4                 16
  CLUS_7                8                 18
  CLUS_8                4                 38
  CLUS_9                9                 49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  19Q GAIN MUTATED        4      7      0      4      0      2
  19Q GAIN WILD-TYPE     14     13     16      7     11      7
D35V11, multiclass
        clus
vv       19Q GAIN MUTATED 19Q GAIN WILD-TYPE
  CLUS_1                4                 14
  CLUS_2                7                 13
  CLUS_3                0                 16
  CLUS_4                4                  7
  CLUS_5                0                 11
  CLUS_6                2                  7
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  19Q GAIN MUTATED        4      4      5      1      0      1      0      1
  19Q GAIN WILD-TYPE      8      5      3     11      9      6     13      8
                    vv
clus                 CLUS_9
  19Q GAIN MUTATED        1
  19Q GAIN WILD-TYPE      5
D35V12, multiclass
        clus
vv       19Q GAIN MUTATED 19Q GAIN WILD-TYPE
  CLUS_1                4                  8
  CLUS_2                4                  5
  CLUS_3                5                  3
  CLUS_4                1                 11
  CLUS_5                0                  9
  CLUS_6                1                  6
  CLUS_7                0                 13
  CLUS_8                1                  8
  CLUS_9                1                  5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(36) Variable = 20P GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  20P GAIN MUTATED        4     11     34     15     19
  20P GAIN WILD-TYPE     27      6     15     12      4
D36V1, multiclass
        clus
vv       20P GAIN MUTATED 20P GAIN WILD-TYPE
  CLUS_1                4                 27
  CLUS_2               11                  6
  CLUS_3               34                 15
  CLUS_4               15                 12
  CLUS_5               19                  4
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  20P GAIN MUTATED        9     51     23
  20P GAIN WILD-TYPE     33     17     14
D36V2, multiclass
        clus
vv       20P GAIN MUTATED 20P GAIN WILD-TYPE
  CLUS_1                9                 33
  CLUS_2               51                 17
  CLUS_3               23                 14
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  20P GAIN MUTATED       52    144     48
  20P GAIN WILD-TYPE      1     77    129
D36V3, multiclass
        clus
vv       20P GAIN MUTATED 20P GAIN WILD-TYPE
  CLUS_1               52                  1
  CLUS_2              144                 77
  CLUS_3               48                129
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       42     69     47
  20P GAIN WILD-TYPE     43     34     59
D36V4, multiclass
        clus
vv       20P GAIN MUTATED 20P GAIN WILD-TYPE
  CLUS_1               42                 43
  CLUS_2               69                 34
  CLUS_3               47                 59
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       51     78     54
  20P GAIN WILD-TYPE     34     67     71
D36V5, multiclass
        clus
vv       20P GAIN MUTATED 20P GAIN WILD-TYPE
  CLUS_1               51                 34
  CLUS_2               78                 67
  CLUS_3               54                 71
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  20P GAIN MUTATED       32     16     18     19     25     37      9     12
  20P GAIN WILD-TYPE     19     17     17     20     18     49     13      8
                    vv
clus                 CLUS_9
  20P GAIN MUTATED       15
  20P GAIN WILD-TYPE     11
D36V6, multiclass
        clus
vv       20P GAIN MUTATED 20P GAIN WILD-TYPE
  CLUS_1               32                 19
  CLUS_2               16                 17
  CLUS_3               18                 17
  CLUS_4               19                 20
  CLUS_5               25                 18
  CLUS_6               37                 49
  CLUS_7                9                 13
  CLUS_8               12                  8
  CLUS_9               15                 11
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger 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       85     36     48     73
  20P GAIN WILD-TYPE     42     58     49     58
D36V7, multiclass
        clus
vv       20P GAIN MUTATED 20P GAIN WILD-TYPE
  CLUS_1               85                 42
  CLUS_2               36                 58
  CLUS_3               48                 49
  CLUS_4               73                 58
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  20P GAIN MUTATED       48     71     30     88      5
  20P GAIN WILD-TYPE     31     37     66     41     32
D36V8, multiclass
        clus
vv       20P GAIN MUTATED 20P GAIN WILD-TYPE
  CLUS_1               48                 31
  CLUS_2               71                 37
  CLUS_3               30                 66
  CLUS_4               88                 41
  CLUS_5                5                 32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  20P GAIN MUTATED       36     35     44     52     49
  20P GAIN WILD-TYPE     24     53     27     23     55
D36V9, multiclass
        clus
vv       20P GAIN MUTATED 20P GAIN WILD-TYPE
  CLUS_1               36                 24
  CLUS_2               35                 53
  CLUS_3               44                 27
  CLUS_4               52                 23
  CLUS_5               49                 55
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  20P GAIN MUTATED       42     29     31      4     35     11     13      7
  20P GAIN WILD-TYPE     37     26     15     13     20      9     13     35
                    vv
clus                 CLUS_9
  20P GAIN MUTATED       44
  20P GAIN WILD-TYPE     14
D36V10, multiclass
        clus
vv       20P GAIN MUTATED 20P GAIN WILD-TYPE
  CLUS_1               42                 37
  CLUS_2               29                 26
  CLUS_3               31                 15
  CLUS_4                4                 13
  CLUS_5               35                 20
  CLUS_6               11                  9
  CLUS_7               13                 13
  CLUS_8                7                 35
  CLUS_9               44                 14
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  20P GAIN MUTATED       12     12      7      8      3      7
  20P GAIN WILD-TYPE      6      8      9      3      8      2
D36V11, multiclass
        clus
vv       20P GAIN MUTATED 20P GAIN WILD-TYPE
  CLUS_1               12                  6
  CLUS_2               12                  8
  CLUS_3                7                  9
  CLUS_4                8                  3
  CLUS_5                3                  8
  CLUS_6                7                  2
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  20P GAIN MUTATED        9      4      5      4      4      4      7      7
  20P GAIN WILD-TYPE      3      5      3      8      5      3      6      2
                    vv
clus                 CLUS_9
  20P GAIN MUTATED        5
  20P GAIN WILD-TYPE      1
D36V12, multiclass
        clus
vv       20P GAIN MUTATED 20P GAIN WILD-TYPE
  CLUS_1                9                  3
  CLUS_2                4                  5
  CLUS_3                5                  3
  CLUS_4                4                  8
  CLUS_5                4                  5
  CLUS_6                4                  3
  CLUS_7                7                  6
  CLUS_8                7                  2
  CLUS_9                5                  1
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(37) Variable = 20Q GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  20Q GAIN MUTATED        5     14     48     16     21
  20Q GAIN WILD-TYPE     26      3      1     11      2
D37V1, multiclass
        clus
vv       20Q GAIN MUTATED 20Q GAIN WILD-TYPE
  CLUS_1                5                 26
  CLUS_2               14                  3
  CLUS_3               48                  1
  CLUS_4               16                 11
  CLUS_5               21                  2
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  20Q GAIN MUTATED       11     58     35
  20Q GAIN WILD-TYPE     31     10      2
D37V2, multiclass
        clus
vv       20Q GAIN MUTATED 20Q GAIN WILD-TYPE
  CLUS_1               11                 31
  CLUS_2               58                 10
  CLUS_3               35                  2
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  20Q GAIN MUTATED       53    210     58
  20Q GAIN WILD-TYPE      0     11    119
D37V3, multiclass
        clus
vv       20Q GAIN MUTATED 20Q GAIN WILD-TYPE
  CLUS_1               53                  0
  CLUS_2              210                 11
  CLUS_3               58                119
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       52    100     59
  20Q GAIN WILD-TYPE     33      3     47
D37V4, multiclass
        clus
vv       20Q GAIN MUTATED 20Q GAIN WILD-TYPE
  CLUS_1               52                 33
  CLUS_2              100                  3
  CLUS_3               59                 47
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  20Q GAIN MUTATED       67    106     75
  20Q GAIN WILD-TYPE     18     39     50
D37V5, multiclass
        clus
vv       20Q GAIN MUTATED 20Q GAIN WILD-TYPE
  CLUS_1               67                 18
  CLUS_2              106                 39
  CLUS_3               75                 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 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  20Q GAIN MUTATED       46     20     29     25     31     47     11     16
  20Q GAIN WILD-TYPE      5     13      6     14     12     39     11      4
                    vv
clus                 CLUS_9
  20Q GAIN MUTATED       23
  20Q GAIN WILD-TYPE      3
D37V6, multiclass
        clus
vv       20Q GAIN MUTATED 20Q GAIN WILD-TYPE
  CLUS_1               46                  5
  CLUS_2               20                 13
  CLUS_3               29                  6
  CLUS_4               25                 14
  CLUS_5               31                 12
  CLUS_6               47                 39
  CLUS_7               11                 11
  CLUS_8               16                  4
  CLUS_9               23                  3
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger 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      122     41     67     89
  20Q GAIN WILD-TYPE      5     53     30     42
D37V7, multiclass
        clus
vv       20Q GAIN MUTATED 20Q GAIN WILD-TYPE
  CLUS_1              122                  5
  CLUS_2               41                 53
  CLUS_3               67                 30
  CLUS_4               89                 42
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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       73     95     34    111      6
  20Q GAIN WILD-TYPE      6     13     62     18     31
D37V8, multiclass
        clus
vv       20Q GAIN MUTATED 20Q GAIN WILD-TYPE
  CLUS_1               73                  6
  CLUS_2               95                 13
  CLUS_3               34                 62
  CLUS_4              111                 18
  CLUS_5                6                 31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  20Q GAIN MUTATED       54     45     57     69     58
  20Q GAIN WILD-TYPE      6     43     14      6     46
D37V9, multiclass
        clus
vv       20Q GAIN MUTATED 20Q GAIN WILD-TYPE
  CLUS_1               54                  6
  CLUS_2               45                 43
  CLUS_3               57                 14
  CLUS_4               69                  6
  CLUS_5               58                 46
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  20Q GAIN MUTATED       59     40     42      4     44     13     16     12
  20Q GAIN WILD-TYPE     20     15      4     13     11      7     10     30
                    vv
clus                 CLUS_9
  20Q GAIN MUTATED       53
  20Q GAIN WILD-TYPE      5
D37V10, multiclass
        clus
vv       20Q GAIN MUTATED 20Q GAIN WILD-TYPE
  CLUS_1               59                 20
  CLUS_2               40                 15
  CLUS_3               42                  4
  CLUS_4                4                 13
  CLUS_5               44                 11
  CLUS_6               13                  7
  CLUS_7               16                 10
  CLUS_8               12                 30
  CLUS_9               53                  5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  20Q GAIN MUTATED       17     18      9     11      3      9
  20Q GAIN WILD-TYPE      1      2      7      0      8      0
D37V11, multiclass
        clus
vv       20Q GAIN MUTATED 20Q GAIN WILD-TYPE
  CLUS_1               17                  1
  CLUS_2               18                  2
  CLUS_3                9                  7
  CLUS_4               11                  0
  CLUS_5                3                  8
  CLUS_6                9                  0
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  20Q GAIN MUTATED       12      7      8      8      6      5      7      8
  20Q GAIN WILD-TYPE      0      2      0      4      3      2      6      1
                    vv
clus                 CLUS_9
  20Q GAIN MUTATED        6
  20Q GAIN WILD-TYPE      0
D37V12, multiclass
        clus
vv       20Q GAIN MUTATED 20Q GAIN WILD-TYPE
  CLUS_1               12                  0
  CLUS_2                7                  2
  CLUS_3                8                  0
  CLUS_4                8                  4
  CLUS_5                6                  3
  CLUS_6                5                  2
  CLUS_7                7                  6
  CLUS_8                8                  1
  CLUS_9                6                  0
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(38) Variable = 21Q GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  21Q GAIN MUTATED        0      0      3      0      2
  21Q GAIN WILD-TYPE     31     17     46     27     21
D38V1, multiclass
        clus
vv       21Q GAIN MUTATED 21Q GAIN WILD-TYPE
  CLUS_1                0                 31
  CLUS_2                0                 17
  CLUS_3                3                 46
  CLUS_4                0                 27
  CLUS_5                2                 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
  21Q GAIN MUTATED        0      2      3
  21Q GAIN WILD-TYPE     42     66     34
D38V2, multiclass
        clus
vv       21Q GAIN MUTATED 21Q GAIN WILD-TYPE
  CLUS_1                0                 42
  CLUS_2                2                 66
  CLUS_3                3                 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
  21Q GAIN MUTATED        3     17      4
  21Q GAIN WILD-TYPE     50    204    173
D38V3, multiclass
        clus
vv       21Q GAIN MUTATED 21Q GAIN WILD-TYPE
  CLUS_1                3                 50
  CLUS_2               17                204
  CLUS_3                4                173
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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      9      9
  21Q GAIN WILD-TYPE     84     94     97
D38V4, multiclass
        clus
vv       21Q GAIN MUTATED 21Q GAIN WILD-TYPE
  CLUS_1                1                 84
  CLUS_2                9                 94
  CLUS_3                9                 97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  21Q GAIN MUTATED        2     10      7
  21Q GAIN WILD-TYPE     83    135    118
D38V5, multiclass
        clus
vv       21Q GAIN MUTATED 21Q GAIN WILD-TYPE
  CLUS_1                2                 83
  CLUS_2               10                135
  CLUS_3                7                118
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  21Q GAIN MUTATED        2      1      2      4      2      4      0      3
  21Q GAIN WILD-TYPE     49     32     33     35     41     82     22     17
                    vv
clus                 CLUS_9
  21Q GAIN MUTATED        1
  21Q GAIN WILD-TYPE     25
D38V6, multiclass
        clus
vv       21Q GAIN MUTATED 21Q GAIN WILD-TYPE
  CLUS_1                2                 49
  CLUS_2                1                 32
  CLUS_3                2                 33
  CLUS_4                4                 35
  CLUS_5                2                 41
  CLUS_6                4                 82
  CLUS_7                0                 22
  CLUS_8                3                 17
  CLUS_9                1                 25
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger 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        7      8      4      5
  21Q GAIN WILD-TYPE    120     86     93    126
D38V7, multiclass
        clus
vv       21Q GAIN MUTATED 21Q GAIN WILD-TYPE
  CLUS_1                7                120
  CLUS_2                8                 86
  CLUS_3                4                 93
  CLUS_4                5                126
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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        5     11      3      5      0
  21Q GAIN WILD-TYPE     74     97     93    124     37
D38V8, multiclass
        clus
vv       21Q GAIN MUTATED 21Q GAIN WILD-TYPE
  CLUS_1                5                 74
  CLUS_2               11                 97
  CLUS_3                3                 93
  CLUS_4                5                124
  CLUS_5                0                 37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  21Q GAIN MUTATED        3      3      6      5      2
  21Q GAIN WILD-TYPE     57     85     65     70    102
D38V9, multiclass
        clus
vv       21Q GAIN MUTATED 21Q GAIN WILD-TYPE
  CLUS_1                3                 57
  CLUS_2                3                 85
  CLUS_3                6                 65
  CLUS_4                5                 70
  CLUS_5                2                102
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  21Q GAIN MUTATED        4      5      2      0      3      1      0      1
  21Q GAIN WILD-TYPE     75     50     44     17     52     19     26     41
                    vv
clus                 CLUS_9
  21Q GAIN MUTATED        3
  21Q GAIN WILD-TYPE     55
D38V10, multiclass
        clus
vv       21Q GAIN MUTATED 21Q GAIN WILD-TYPE
  CLUS_1                4                 75
  CLUS_2                5                 50
  CLUS_3                2                 44
  CLUS_4                0                 17
  CLUS_5                3                 52
  CLUS_6                1                 19
  CLUS_7                0                 26
  CLUS_8                1                 41
  CLUS_9                3                 55
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  21Q GAIN MUTATED        1      0      0      0      0      1
  21Q GAIN WILD-TYPE     17     20     16     11     11      8
D38V11, multiclass
[1] "Remove cluster labels:" "21Q GAIN MUTATED"      
clus
  21Q GAIN MUTATED 21Q GAIN WILD-TYPE 
                 2                 83 
        TCGA-A6-2675         TCGA-A6-5657         TCGA-A6-5667 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-A6-6137         TCGA-A6-6138         TCGA-A6-6140 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-A6-6141         TCGA-A6-6142         TCGA-A6-6649 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-A6-6650         TCGA-A6-6651         TCGA-A6-6653 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-A6-6654         TCGA-A6-6781         TCGA-A6-6782 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-AA-3489         TCGA-AA-3511         TCGA-AD-5900 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-AD-6548         TCGA-AD-6889         TCGA-AD-6901 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-AD-6963         TCGA-AD-6964         TCGA-AD-6965 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-AY-6196         TCGA-AZ-4323         TCGA-AZ-4616 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-AZ-5403         TCGA-AZ-6598         TCGA-AZ-6600 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-AZ-6601         TCGA-AZ-6603         TCGA-AZ-6605 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-AZ-6607         TCGA-CA-6718         TCGA-CA-6719 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-CK-5916         TCGA-CK-6748         TCGA-CM-4751 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-CM-5860         TCGA-CM-6167         TCGA-CM-6674 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-CM-6676         TCGA-CM-6677         TCGA-CM-6678 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-CM-6679         TCGA-CM-6680         TCGA-D5-5537 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-D5-6533         TCGA-D5-6534         TCGA-D5-6536 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-D5-6922         TCGA-D5-6924         TCGA-DM-A0XD 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-DM-A0XF         TCGA-DM-A1D0         TCGA-DM-A1D7 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-DM-A1D8         TCGA-DM-A1D9         TCGA-DM-A1DA 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-DM-A1HA         TCGA-DM-A280         TCGA-DM-A282 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-F4-6459         TCGA-F4-6460         TCGA-F4-6569 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-F4-6570         TCGA-F4-6704         TCGA-F4-6805 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-F4-6807         TCGA-F4-6808         TCGA-F4-6809 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-G4-6294         TCGA-G4-6295         TCGA-G4-6299 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-G4-6302         TCGA-G4-6303         TCGA-G4-6306 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-G4-6309         TCGA-G4-6314         TCGA-G4-6625 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-G4-6627         TCGA-G4-6628 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  21Q GAIN MUTATED        0      0      0      1      0      1      0      0
  21Q GAIN WILD-TYPE     12      9      8     11      9      6     13      9
                    vv
clus                 CLUS_9
  21Q GAIN MUTATED        0
  21Q GAIN WILD-TYPE      6
D38V12, multiclass
[1] "Remove cluster labels:" "21Q GAIN MUTATED"      
clus
  21Q GAIN MUTATED 21Q GAIN WILD-TYPE 
                 2                 83 
        TCGA-A6-2675         TCGA-A6-5657         TCGA-A6-5667 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-A6-6137         TCGA-A6-6138         TCGA-A6-6140 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-A6-6141         TCGA-A6-6142         TCGA-A6-6649 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-A6-6650         TCGA-A6-6651         TCGA-A6-6653 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-A6-6654         TCGA-A6-6781         TCGA-A6-6782 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-AA-3489         TCGA-AA-3511         TCGA-AD-5900 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-AD-6548         TCGA-AD-6889         TCGA-AD-6901 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-AD-6963         TCGA-AD-6964         TCGA-AD-6965 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-AY-6196         TCGA-AZ-4323         TCGA-AZ-4616 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-AZ-5403         TCGA-AZ-6598         TCGA-AZ-6600 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-AZ-6601         TCGA-AZ-6603         TCGA-AZ-6605 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-AZ-6607         TCGA-CA-6718         TCGA-CA-6719 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-CK-5916         TCGA-CK-6748         TCGA-CM-4751 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-CM-5860         TCGA-CM-6167         TCGA-CM-6674 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-CM-6676         TCGA-CM-6677         TCGA-CM-6678 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-CM-6679         TCGA-CM-6680         TCGA-D5-5537 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-D5-6533         TCGA-D5-6534         TCGA-D5-6536 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-D5-6922         TCGA-D5-6924         TCGA-DM-A0XD 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-DM-A0XF         TCGA-DM-A1D0         TCGA-DM-A1D7 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-DM-A1D8         TCGA-DM-A1D9         TCGA-DM-A1DA 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-DM-A1HA         TCGA-DM-A280         TCGA-DM-A282 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-F4-6459         TCGA-F4-6460         TCGA-F4-6569 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-F4-6570         TCGA-F4-6704         TCGA-F4-6805 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-F4-6807         TCGA-F4-6808         TCGA-F4-6809 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-G4-6294         TCGA-G4-6295         TCGA-G4-6299 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-G4-6302         TCGA-G4-6303         TCGA-G4-6306 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-G4-6309         TCGA-G4-6314         TCGA-G4-6625 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-G4-6627         TCGA-G4-6628 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 

Clustering(39) Variable = 22Q GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  22Q GAIN MUTATED        1      0      2      0      0
  22Q GAIN WILD-TYPE     30     17     47     27     23
D39V1, multiclass
        clus
vv       22Q GAIN MUTATED 22Q GAIN WILD-TYPE
  CLUS_1                1                 30
  CLUS_2                0                 17
  CLUS_3                2                 47
  CLUS_4                0                 27
  CLUS_5                0                 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
  22Q GAIN MUTATED        1      1      1
  22Q GAIN WILD-TYPE     41     67     36
D39V2, multiclass
        clus
vv       22Q GAIN MUTATED 22Q GAIN WILD-TYPE
  CLUS_1                1                 41
  CLUS_2                1                 67
  CLUS_3                1                 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
  22Q GAIN MUTATED        1     10      1
  22Q GAIN WILD-TYPE     52    211    176
D39V3, multiclass
        clus
vv       22Q GAIN MUTATED 22Q GAIN WILD-TYPE
  CLUS_1                1                 52
  CLUS_2               10                211
  CLUS_3                1                176
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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      5      1
  22Q GAIN WILD-TYPE     82     98    105
D39V4, multiclass
        clus
vv       22Q GAIN MUTATED 22Q GAIN WILD-TYPE
  CLUS_1                3                 82
  CLUS_2                5                 98
  CLUS_3                1                105
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  22Q GAIN MUTATED        4      2      3
  22Q GAIN WILD-TYPE     81    143    122
D39V5, multiclass
        clus
vv       22Q GAIN MUTATED 22Q GAIN WILD-TYPE
  CLUS_1                4                 81
  CLUS_2                2                143
  CLUS_3                3                122
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  22Q GAIN MUTATED        2      1      1      0      1      2      0      2
  22Q GAIN WILD-TYPE     49     32     34     39     42     84     22     18
                    vv
clus                 CLUS_9
  22Q GAIN MUTATED        0
  22Q GAIN WILD-TYPE     26
D39V6, multiclass
        clus
vv       22Q GAIN MUTATED 22Q GAIN WILD-TYPE
  CLUS_1                2                 49
  CLUS_2                1                 32
  CLUS_3                1                 34
  CLUS_4                0                 39
  CLUS_5                1                 42
  CLUS_6                2                 84
  CLUS_7                0                 22
  CLUS_8                2                 18
  CLUS_9                0                 26
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger 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        6      0      2      4
  22Q GAIN WILD-TYPE    121     94     95    127
D39V7, multiclass
        clus
vv       22Q GAIN MUTATED 22Q GAIN WILD-TYPE
  CLUS_1                6                121
  CLUS_2                0                 94
  CLUS_3                2                 95
  CLUS_4                4                127
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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        4      3      0      4      1
  22Q GAIN WILD-TYPE     75    105     96    125     36
D39V8, multiclass
        clus
vv       22Q GAIN MUTATED 22Q GAIN WILD-TYPE
  CLUS_1                4                 75
  CLUS_2                3                105
  CLUS_3                0                 96
  CLUS_4                4                125
  CLUS_5                1                 36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  22Q GAIN MUTATED        1      1      3      3      3
  22Q GAIN WILD-TYPE     59     87     68     72    101
D39V9, multiclass
        clus
vv       22Q GAIN MUTATED 22Q GAIN WILD-TYPE
  CLUS_1                1                 59
  CLUS_2                1                 87
  CLUS_3                3                 68
  CLUS_4                3                 72
  CLUS_5                3                101
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  22Q GAIN MUTATED        4      0      1      0      2      0      0      1
  22Q GAIN WILD-TYPE     75     55     45     17     53     20     26     41
                    vv
clus                 CLUS_9
  22Q GAIN MUTATED        3
  22Q GAIN WILD-TYPE     55
D39V10, multiclass
        clus
vv       22Q GAIN MUTATED 22Q GAIN WILD-TYPE
  CLUS_1                4                 75
  CLUS_2                0                 55
  CLUS_3                1                 45
  CLUS_4                0                 17
  CLUS_5                2                 53
  CLUS_6                0                 20
  CLUS_7                0                 26
  CLUS_8                1                 41
  CLUS_9                3                 55
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  22Q GAIN MUTATED        1      1      0      1      0      1
  22Q GAIN WILD-TYPE     17     19     16     10     11      8
D39V11, multiclass
        clus
vv       22Q GAIN MUTATED 22Q GAIN WILD-TYPE
  CLUS_1                1                 17
  CLUS_2                1                 19
  CLUS_3                0                 16
  CLUS_4                1                 10
  CLUS_5                0                 11
  CLUS_6                1                  8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  22Q GAIN MUTATED        1      0      0      1      0      0      1      1
  22Q GAIN WILD-TYPE     11      9      8     11      9      7     12      8
                    vv
clus                 CLUS_9
  22Q GAIN MUTATED        0
  22Q GAIN WILD-TYPE      6
D39V12, multiclass
        clus
vv       22Q GAIN MUTATED 22Q GAIN WILD-TYPE
  CLUS_1                1                 11
  CLUS_2                0                  9
  CLUS_3                0                  8
  CLUS_4                1                 11
  CLUS_5                0                  9
  CLUS_6                0                  7
  CLUS_7                1                 12
  CLUS_8                1                  8
  CLUS_9                0                  6
[1] 9 2
[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 = XP GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  XP GAIN MUTATED        1      2      9      9      0
  XP GAIN WILD-TYPE     30     15     40     18     23
D40V1, multiclass
        clus
vv       XP GAIN MUTATED XP GAIN WILD-TYPE
  CLUS_1               1                30
  CLUS_2               2                15
  CLUS_3               9                40
  CLUS_4               9                18
  CLUS_5               0                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
  XP GAIN MUTATED        3     12      6
  XP GAIN WILD-TYPE     39     56     31
D40V2, multiclass
        clus
vv       XP GAIN MUTATED XP GAIN WILD-TYPE
  CLUS_1               3                39
  CLUS_2              12                56
  CLUS_3               6                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
  XP GAIN MUTATED       13     41     14
  XP GAIN WILD-TYPE     40    180    163
D40V3, multiclass
        clus
vv       XP GAIN MUTATED XP GAIN WILD-TYPE
  CLUS_1              13                40
  CLUS_2              41               180
  CLUS_3              14               163
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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        7     20     18
  XP GAIN WILD-TYPE     78     83     88
D40V4, multiclass
        clus
vv       XP GAIN MUTATED XP GAIN WILD-TYPE
  CLUS_1               7                78
  CLUS_2              20                83
  CLUS_3              18                88
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       14     35     11
  XP GAIN WILD-TYPE     71    110    114
D40V5, multiclass
        clus
vv       XP GAIN MUTATED XP GAIN WILD-TYPE
  CLUS_1              14                71
  CLUS_2              35               110
  CLUS_3              11               114
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  XP GAIN MUTATED       10      3     11     10      6     15      2      1
  XP GAIN WILD-TYPE     41     30     24     29     37     71     20     19
                   vv
clus                CLUS_9
  XP GAIN MUTATED        2
  XP GAIN WILD-TYPE     24
D40V6, multiclass
        clus
vv       XP GAIN MUTATED XP GAIN WILD-TYPE
  CLUS_1              10                41
  CLUS_2               3                30
  CLUS_3              11                24
  CLUS_4              10                29
  CLUS_5               6                37
  CLUS_6              15                71
  CLUS_7               2                20
  CLUS_8               1                19
  CLUS_9               2                24
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger 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       23     14     10     20
  XP GAIN WILD-TYPE    104     80     87    111
D40V7, multiclass
        clus
vv       XP GAIN MUTATED XP GAIN WILD-TYPE
  CLUS_1              23               104
  CLUS_2              14                80
  CLUS_3              10                87
  CLUS_4              20               111
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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       11     25      7     19      5
  XP GAIN WILD-TYPE     68     83     89    110     32
D40V8, multiclass
        clus
vv       XP GAIN MUTATED XP GAIN WILD-TYPE
  CLUS_1              11                68
  CLUS_2              25                83
  CLUS_3               7                89
  CLUS_4              19               110
  CLUS_5               5                32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  XP GAIN MUTATED       11     11     10     11     17
  XP GAIN WILD-TYPE     49     77     61     64     87
D40V9, multiclass
        clus
vv       XP GAIN MUTATED XP GAIN WILD-TYPE
  CLUS_1              11                49
  CLUS_2              11                77
  CLUS_3              10                61
  CLUS_4              11                64
  CLUS_5              17                87
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  XP GAIN MUTATED       12      7      6      2      9      4      4      4
  XP GAIN WILD-TYPE     67     48     40     15     46     16     22     38
                   vv
clus                CLUS_9
  XP GAIN MUTATED       12
  XP GAIN WILD-TYPE     46
D40V10, multiclass
        clus
vv       XP GAIN MUTATED XP GAIN WILD-TYPE
  CLUS_1              12                67
  CLUS_2               7                48
  CLUS_3               6                40
  CLUS_4               2                15
  CLUS_5               9                46
  CLUS_6               4                16
  CLUS_7               4                22
  CLUS_8               4                38
  CLUS_9              12                46
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  XP GAIN MUTATED        4      4      1      3      1      1
  XP GAIN WILD-TYPE     14     16     15      8     10      8
D40V11, multiclass
        clus
vv       XP GAIN MUTATED XP GAIN WILD-TYPE
  CLUS_1               4                14
  CLUS_2               4                16
  CLUS_3               1                15
  CLUS_4               3                 8
  CLUS_5               1                10
  CLUS_6               1                 8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  XP GAIN MUTATED        2      2      3      5      1      1      0      0
  XP GAIN WILD-TYPE     10      7      5      7      8      6     13      9
                   vv
clus                CLUS_9
  XP GAIN MUTATED        0
  XP GAIN WILD-TYPE      6
D40V12, multiclass
        clus
vv       XP GAIN MUTATED XP GAIN WILD-TYPE
  CLUS_1               2                10
  CLUS_2               2                 7
  CLUS_3               3                 5
  CLUS_4               5                 7
  CLUS_5               1                 8
  CLUS_6               1                 6
  CLUS_7               0                13
  CLUS_8               0                 9
  CLUS_9               0                 6
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(41) Variable = XQ GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  XQ GAIN MUTATED        1      2      9      9      1
  XQ GAIN WILD-TYPE     30     15     40     18     22
D41V1, multiclass
        clus
vv       XQ GAIN MUTATED XQ GAIN WILD-TYPE
  CLUS_1               1                30
  CLUS_2               2                15
  CLUS_3               9                40
  CLUS_4               9                18
  CLUS_5               1                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
  XQ GAIN MUTATED        3     12      7
  XQ GAIN WILD-TYPE     39     56     30
D41V2, multiclass
        clus
vv       XQ GAIN MUTATED XQ GAIN WILD-TYPE
  CLUS_1               3                39
  CLUS_2              12                56
  CLUS_3               7                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
  XQ GAIN MUTATED       16     45     18
  XQ GAIN WILD-TYPE     37    176    159
D41V3, multiclass
        clus
vv       XQ GAIN MUTATED XQ GAIN WILD-TYPE
  CLUS_1              16                37
  CLUS_2              45               176
  CLUS_3              18               159
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       10     21     23
  XQ GAIN WILD-TYPE     75     82     83
D41V4, multiclass
        clus
vv       XQ GAIN MUTATED XQ GAIN WILD-TYPE
  CLUS_1              10                75
  CLUS_2              21                82
  CLUS_3              23                83
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       18     38     12
  XQ GAIN WILD-TYPE     67    107    113
D41V5, multiclass
        clus
vv       XQ GAIN MUTATED XQ GAIN WILD-TYPE
  CLUS_1              18                67
  CLUS_2              38               107
  CLUS_3              12               113
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  XQ GAIN MUTATED        9      6     10     12      9     16      2      1
  XQ GAIN WILD-TYPE     42     27     25     27     34     70     20     19
                   vv
clus                CLUS_9
  XQ GAIN MUTATED        3
  XQ GAIN WILD-TYPE     23
D41V6, multiclass
        clus
vv       XQ GAIN MUTATED XQ GAIN WILD-TYPE
  CLUS_1               9                42
  CLUS_2               6                27
  CLUS_3              10                25
  CLUS_4              12                27
  CLUS_5               9                34
  CLUS_6              16                70
  CLUS_7               2                20
  CLUS_8               1                19
  CLUS_9               3                23
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger 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       24     16     15     23
  XQ GAIN WILD-TYPE    103     78     82    108
D41V7, multiclass
        clus
vv       XQ GAIN MUTATED XQ GAIN WILD-TYPE
  CLUS_1              24               103
  CLUS_2              16                78
  CLUS_3              15                82
  CLUS_4              23               108
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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       12     26     14     21      5
  XQ GAIN WILD-TYPE     67     82     82    108     32
D41V8, multiclass
        clus
vv       XQ GAIN MUTATED XQ GAIN WILD-TYPE
  CLUS_1              12                67
  CLUS_2              26                82
  CLUS_3              14                82
  CLUS_4              21               108
  CLUS_5               5                32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  XQ GAIN MUTATED       10     15     12     12     19
  XQ GAIN WILD-TYPE     50     73     59     63     85
D41V9, multiclass
        clus
vv       XQ GAIN MUTATED XQ GAIN WILD-TYPE
  CLUS_1              10                50
  CLUS_2              15                73
  CLUS_3              12                59
  CLUS_4              12                63
  CLUS_5              19                85
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  XQ GAIN MUTATED       14      7      6      3     12      4      5      4
  XQ GAIN WILD-TYPE     65     48     40     14     43     16     21     38
                   vv
clus                CLUS_9
  XQ GAIN MUTATED       13
  XQ GAIN WILD-TYPE     45
D41V10, multiclass
        clus
vv       XQ GAIN MUTATED XQ GAIN WILD-TYPE
  CLUS_1              14                65
  CLUS_2               7                48
  CLUS_3               6                40
  CLUS_4               3                14
  CLUS_5              12                43
  CLUS_6               4                16
  CLUS_7               5                21
  CLUS_8               4                38
  CLUS_9              13                45
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  XQ GAIN MUTATED        4      4      1      2      3      2
  XQ GAIN WILD-TYPE     14     16     15      9      8      7
D41V11, multiclass
        clus
vv       XQ GAIN MUTATED XQ GAIN WILD-TYPE
  CLUS_1               4                14
  CLUS_2               4                16
  CLUS_3               1                15
  CLUS_4               2                 9
  CLUS_5               3                 8
  CLUS_6               2                 7
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  XQ GAIN MUTATED        2      2      2      5      2      2      1      0
  XQ GAIN WILD-TYPE     10      7      6      7      7      5     12      9
                   vv
clus                CLUS_9
  XQ GAIN MUTATED        0
  XQ GAIN WILD-TYPE      6
D41V12, multiclass
        clus
vv       XQ GAIN MUTATED XQ GAIN WILD-TYPE
  CLUS_1               2                10
  CLUS_2               2                 7
  CLUS_3               2                 6
  CLUS_4               5                 7
  CLUS_5               2                 7
  CLUS_6               2                 5
  CLUS_7               1                12
  CLUS_8               0                 9
  CLUS_9               0                 6
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(42) Variable = 1P LOSS MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  1P LOSS MUTATED        2      6     12      2      6
  1P LOSS WILD-TYPE     29     11     37     25     17
D42V1, multiclass
        clus
vv       1P LOSS MUTATED 1P LOSS WILD-TYPE
  CLUS_1               2                29
  CLUS_2               6                11
  CLUS_3              12                37
  CLUS_4               2                25
  CLUS_5               6                17
[1] 5 2
[1] TRUE
[1] "dimension of contingency table 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        4     16      8
  1P LOSS WILD-TYPE     38     52     29
D42V2, multiclass
        clus
vv       1P LOSS MUTATED 1P LOSS WILD-TYPE
  CLUS_1               4                38
  CLUS_2              16                52
  CLUS_3               8                29
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  1P LOSS MUTATED       16     70      6
  1P LOSS WILD-TYPE     37    151    171
D42V3, multiclass
        clus
vv       1P LOSS MUTATED 1P LOSS WILD-TYPE
  CLUS_1              16                37
  CLUS_2              70               151
  CLUS_3               6               171
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       14     32     15
  1P LOSS WILD-TYPE     71     71     91
D42V4, multiclass
        clus
vv       1P LOSS MUTATED 1P LOSS WILD-TYPE
  CLUS_1              14                71
  CLUS_2              32                71
  CLUS_3              15                91
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       15     30     26
  1P LOSS WILD-TYPE     70    115     99
D42V5, multiclass
        clus
vv       1P LOSS MUTATED 1P LOSS WILD-TYPE
  CLUS_1              15                70
  CLUS_2              30               115
  CLUS_3              26                99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  1P LOSS MUTATED       16      4     10      7      6     10      5      5
  1P LOSS WILD-TYPE     35     29     25     32     37     76     17     15
                   vv
clus                CLUS_9
  1P LOSS MUTATED        8
  1P LOSS WILD-TYPE     18
D42V6, multiclass
        clus
vv       1P LOSS MUTATED 1P LOSS WILD-TYPE
  CLUS_1              16                35
  CLUS_2               4                29
  CLUS_3              10                25
  CLUS_4               7                32
  CLUS_5               6                37
  CLUS_6              10                76
  CLUS_7               5                17
  CLUS_8               5                15
  CLUS_9               8                18
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger 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       38      6     23     24
  1P LOSS WILD-TYPE     89     88     74    107
D42V7, multiclass
        clus
vv       1P LOSS MUTATED 1P LOSS WILD-TYPE
  CLUS_1              38                89
  CLUS_2               6                88
  CLUS_3              23                74
  CLUS_4              24               107
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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       29     23      8     28      3
  1P LOSS WILD-TYPE     50     85     88    101     34
D42V8, multiclass
        clus
vv       1P LOSS MUTATED 1P LOSS WILD-TYPE
  CLUS_1              29                50
  CLUS_2              23                85
  CLUS_3               8                88
  CLUS_4              28               101
  CLUS_5               3                34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  1P LOSS MUTATED       20     12     18     19     11
  1P LOSS WILD-TYPE     40     76     53     56     93
D42V9, multiclass
        clus
vv       1P LOSS MUTATED 1P LOSS WILD-TYPE
  CLUS_1              20                40
  CLUS_2              12                76
  CLUS_3              18                53
  CLUS_4              19                56
  CLUS_5              11                93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  1P LOSS MUTATED       19     11     18      0     14      2      2      4
  1P LOSS WILD-TYPE     60     44     28     17     41     18     24     38
                   vv
clus                CLUS_9
  1P LOSS MUTATED       10
  1P LOSS WILD-TYPE     48
D42V10, multiclass
        clus
vv       1P LOSS MUTATED 1P LOSS WILD-TYPE
  CLUS_1              19                60
  CLUS_2              11                44
  CLUS_3              18                28
  CLUS_4               0                17
  CLUS_5              14                41
  CLUS_6               2                18
  CLUS_7               2                24
  CLUS_8               4                38
  CLUS_9              10                48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  1P LOSS MUTATED        4      4      4      5      0      4
  1P LOSS WILD-TYPE     14     16     12      6     11      5
D42V11, multiclass
        clus
vv       1P LOSS MUTATED 1P LOSS WILD-TYPE
  CLUS_1               4                14
  CLUS_2               4                16
  CLUS_3               4                12
  CLUS_4               5                 6
  CLUS_5               0                11
  CLUS_6               4                 5
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  1P LOSS MUTATED        4      1      3      1      3      3      2      3
  1P LOSS WILD-TYPE      8      8      5     11      6      4     11      6
                   vv
clus                CLUS_9
  1P LOSS MUTATED        1
  1P LOSS WILD-TYPE      5
D42V12, multiclass
        clus
vv       1P LOSS MUTATED 1P LOSS WILD-TYPE
  CLUS_1               4                 8
  CLUS_2               1                 8
  CLUS_3               3                 5
  CLUS_4               1                11
  CLUS_5               3                 6
  CLUS_6               3                 4
  CLUS_7               2                11
  CLUS_8               3                 6
  CLUS_9               1                 5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(43) Variable = 1Q LOSS MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  1Q LOSS MUTATED        2      2      6      2      3
  1Q LOSS WILD-TYPE     29     15     43     25     20
D43V1, multiclass
        clus
vv       1Q LOSS MUTATED 1Q LOSS WILD-TYPE
  CLUS_1               2                29
  CLUS_2               2                15
  CLUS_3               6                43
  CLUS_4               2                25
  CLUS_5               3                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
  1Q LOSS MUTATED        3      9      3
  1Q LOSS WILD-TYPE     39     59     34
D43V2, multiclass
        clus
vv       1Q LOSS MUTATED 1Q LOSS WILD-TYPE
  CLUS_1               3                39
  CLUS_2               9                59
  CLUS_3               3                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
  1Q LOSS MUTATED        8     42      4
  1Q LOSS WILD-TYPE     45    179    173
D43V3, multiclass
        clus
vv       1Q LOSS MUTATED 1Q LOSS WILD-TYPE
  CLUS_1               8                45
  CLUS_2              42               179
  CLUS_3               4               173
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       10     18      9
  1Q LOSS WILD-TYPE     75     85     97
D43V4, multiclass
        clus
vv       1Q LOSS MUTATED 1Q LOSS WILD-TYPE
  CLUS_1              10                75
  CLUS_2              18                85
  CLUS_3               9                97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       10     15     15
  1Q LOSS WILD-TYPE     75    130    110
D43V5, multiclass
        clus
vv       1Q LOSS MUTATED 1Q LOSS WILD-TYPE
  CLUS_1              10                75
  CLUS_2              15               130
  CLUS_3              15               110
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  1Q LOSS MUTATED        7      1      6      4      5      6      4      2
  1Q LOSS WILD-TYPE     44     32     29     35     38     80     18     18
                   vv
clus                CLUS_9
  1Q LOSS MUTATED        5
  1Q LOSS WILD-TYPE     21
D43V6, multiclass
        clus
vv       1Q LOSS MUTATED 1Q LOSS WILD-TYPE
  CLUS_1               7                44
  CLUS_2               1                32
  CLUS_3               6                29
  CLUS_4               4                35
  CLUS_5               5                38
  CLUS_6               6                80
  CLUS_7               4                18
  CLUS_8               2                18
  CLUS_9               5                21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger 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       23      3     14     13
  1Q LOSS WILD-TYPE    104     91     83    118
D43V7, multiclass
        clus
vv       1Q LOSS MUTATED 1Q LOSS WILD-TYPE
  CLUS_1              23               104
  CLUS_2               3                91
  CLUS_3              14                83
  CLUS_4              13               118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  1Q LOSS MUTATED       16     15      4     16      2
  1Q LOSS WILD-TYPE     63     93     92    113     35
D43V8, multiclass
        clus
vv       1Q LOSS MUTATED 1Q LOSS WILD-TYPE
  CLUS_1              16                63
  CLUS_2              15                93
  CLUS_3               4                92
  CLUS_4              16               113
  CLUS_5               2                35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  1Q LOSS MUTATED       13      6      9     10      9
  1Q LOSS WILD-TYPE     47     82     62     65     95
D43V9, multiclass
        clus
vv       1Q LOSS MUTATED 1Q LOSS WILD-TYPE
  CLUS_1              13                47
  CLUS_2               6                82
  CLUS_3               9                62
  CLUS_4              10                65
  CLUS_5               9                95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  1Q LOSS MUTATED       11      8     11      0     10      0      1      3
  1Q LOSS WILD-TYPE     68     47     35     17     45     20     25     39
                   vv
clus                CLUS_9
  1Q LOSS MUTATED        3
  1Q LOSS WILD-TYPE     55
D43V10, multiclass
        clus
vv       1Q LOSS MUTATED 1Q LOSS WILD-TYPE
  CLUS_1              11                68
  CLUS_2               8                47
  CLUS_3              11                35
  CLUS_4               0                17
  CLUS_5              10                45
  CLUS_6               0                20
  CLUS_7               1                25
  CLUS_8               3                39
  CLUS_9               3                55
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  1Q LOSS MUTATED        3      1      4      3      0      4
  1Q LOSS WILD-TYPE     15     19     12      8     11      5
D43V11, multiclass
        clus
vv       1Q LOSS MUTATED 1Q LOSS WILD-TYPE
  CLUS_1               3                15
  CLUS_2               1                19
  CLUS_3               4                12
  CLUS_4               3                 8
  CLUS_5               0                11
  CLUS_6               4                 5
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  1Q LOSS MUTATED        3      0      2      1      3      3      0      2
  1Q LOSS WILD-TYPE      9      9      6     11      6      4     13      7
                   vv
clus                CLUS_9
  1Q LOSS MUTATED        1
  1Q LOSS WILD-TYPE      5
D43V12, multiclass
        clus
vv       1Q LOSS MUTATED 1Q LOSS WILD-TYPE
  CLUS_1               3                 9
  CLUS_2               0                 9
  CLUS_3               2                 6
  CLUS_4               1                11
  CLUS_5               3                 6
  CLUS_6               3                 4
  CLUS_7               0                13
  CLUS_8               2                 7
  CLUS_9               1                 5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(44) Variable = 2P LOSS MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  2P LOSS MUTATED        0      1      2      0      1
  2P LOSS WILD-TYPE     31     16     47     27     22
D44V1, multiclass
        clus
vv       2P LOSS MUTATED 2P LOSS WILD-TYPE
  CLUS_1               0                31
  CLUS_2               1                16
  CLUS_3               2                47
  CLUS_4               0                27
  CLUS_5               1                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
  2P LOSS MUTATED        1      3      0
  2P LOSS WILD-TYPE     41     65     37
D44V2, multiclass
        clus
vv       2P LOSS MUTATED 2P LOSS WILD-TYPE
  CLUS_1               1                41
  CLUS_2               3                65
  CLUS_3               0                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
  2P LOSS MUTATED        2      4      0
  2P LOSS WILD-TYPE     51    217    177
D44V3, multiclass
        clus
vv       2P LOSS MUTATED 2P LOSS WILD-TYPE
  CLUS_1               2                51
  CLUS_2               4               217
  CLUS_3               0               177
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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        1      1      0
  2P LOSS WILD-TYPE     84    102    106
D44V4, multiclass
[1] "Remove cluster labels:" "2P LOSS MUTATED"       
clus
  2P LOSS MUTATED 2P LOSS WILD-TYPE 
                2               292 
       TCGA-3L-AA1B        TCGA-4N-A93T        TCGA-4T-AA8H        TCGA-5M-AAT4 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-5M-AAT5        TCGA-5M-AAT6        TCGA-5M-AATA        TCGA-5M-AATE 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-A6-2671        TCGA-A6-2675        TCGA-A6-2677        TCGA-A6-2679 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-A6-2680        TCGA-A6-2681        TCGA-A6-2682        TCGA-A6-2684 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-A6-2685        TCGA-A6-2686        TCGA-A6-3809        TCGA-A6-3810 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-A6-4105        TCGA-A6-4107        TCGA-A6-5656        TCGA-A6-5657 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-A6-5659        TCGA-A6-5660        TCGA-A6-5661        TCGA-A6-5662 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-A6-5664        TCGA-A6-5665        TCGA-A6-5666        TCGA-A6-5667 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6140        TCGA-A6-6141 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6648        TCGA-A6-6649        TCGA-A6-6650 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-A6-6651        TCGA-A6-6652        TCGA-A6-6653        TCGA-A6-6654 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-A6-6780        TCGA-A6-6781        TCGA-A6-6782        TCGA-A6-A565 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-A6-A566        TCGA-A6-A567        TCGA-A6-A56B        TCGA-A6-A5ZU 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-AA-3488        TCGA-AA-3489        TCGA-AA-3492        TCGA-AA-3494 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-AA-3495        TCGA-AA-3496        TCGA-AA-3502        TCGA-AA-3506 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-AA-3510        TCGA-AA-3655        TCGA-AA-3660        TCGA-AA-3662 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-AA-3663        TCGA-AA-3697        TCGA-AA-3712        TCGA-AA-3713 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6888        TCGA-AD-6889 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-AD-6890        TCGA-AD-6895        TCGA-AD-6899        TCGA-AD-6901 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965        TCGA-AD-A5EJ 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-AD-A5EK        TCGA-AM-5820        TCGA-AM-5821        TCGA-AU-3779 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-AU-6004        TCGA-AY-5543        TCGA-AY-6196        TCGA-AY-6197 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-AY-6386        TCGA-AY-A54L        TCGA-AY-A69D        TCGA-AY-A71X 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-AY-A8YK        TCGA-AZ-4308        TCGA-AZ-4313        TCGA-AZ-4315 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-AZ-4323        TCGA-AZ-4614        TCGA-AZ-4615        TCGA-AZ-4616 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-AZ-4681        TCGA-AZ-4682        TCGA-AZ-4684        TCGA-AZ-5403 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-AZ-5407        TCGA-AZ-6598        TCGA-AZ-6599        TCGA-AZ-6600 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-AZ-6601        TCGA-AZ-6603        TCGA-AZ-6605        TCGA-AZ-6606 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-AZ-6607        TCGA-AZ-6608        TCGA-CA-5254        TCGA-CA-5255 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-CA-5256        TCGA-CA-5796        TCGA-CA-6715        TCGA-CA-6716 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-CA-6717        TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-4947 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-CK-4948        TCGA-CK-4950        TCGA-CK-4951        TCGA-CK-4952 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-CK-5912        TCGA-CK-5913        TCGA-CK-5914        TCGA-CK-5915 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-CK-5916        TCGA-CK-6746        TCGA-CK-6747        TCGA-CK-6748 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-CK-6751        TCGA-CM-4743        TCGA-CM-4744        TCGA-CM-4746 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-CM-4747        TCGA-CM-4748        TCGA-CM-4750        TCGA-CM-4751 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-CM-4752        TCGA-CM-5341        TCGA-CM-5344        TCGA-CM-5348 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-CM-5349        TCGA-CM-5860        TCGA-CM-5861        TCGA-CM-5862 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-CM-5863        TCGA-CM-5864        TCGA-CM-5868        TCGA-CM-6161 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-CM-6162        TCGA-CM-6163        TCGA-CM-6164        TCGA-CM-6165 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-CM-6166        TCGA-CM-6167        TCGA-CM-6168        TCGA-CM-6169 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-CM-6170        TCGA-CM-6171        TCGA-CM-6172        TCGA-CM-6674 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-CM-6675        TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-CM-6679        TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-5538 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-D5-5539        TCGA-D5-5540        TCGA-D5-5541        TCGA-D5-6529 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-D5-6530        TCGA-D5-6531        TCGA-D5-6532        TCGA-D5-6533 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-D5-6534        TCGA-D5-6535        TCGA-D5-6536        TCGA-D5-6537 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-D5-6538        TCGA-D5-6539        TCGA-D5-6540        TCGA-D5-6541 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-D5-6898        TCGA-D5-6920        TCGA-D5-6922        TCGA-D5-6923 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-D5-6924        TCGA-D5-6926        TCGA-D5-6927        TCGA-D5-6928 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-D5-6929        TCGA-D5-6930        TCGA-D5-6931        TCGA-D5-6932 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-D5-7000        TCGA-DM-A0X9        TCGA-DM-A0XD        TCGA-DM-A0XF 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-DM-A1D0        TCGA-DM-A1D4        TCGA-DM-A1D6        TCGA-DM-A1D7 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-DM-A1D8        TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1DB 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-DM-A1HA        TCGA-DM-A1HB        TCGA-DM-A280        TCGA-DM-A282 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-DM-A285        TCGA-DM-A288        TCGA-DM-A28A        TCGA-DM-A28C 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-DM-A28E        TCGA-DM-A28F        TCGA-DM-A28G        TCGA-DM-A28H 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-DM-A28K        TCGA-DM-A28M        TCGA-F4-6459        TCGA-F4-6460 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-F4-6461        TCGA-F4-6463        TCGA-F4-6569        TCGA-F4-6570 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-F4-6703        TCGA-F4-6704        TCGA-F4-6805        TCGA-F4-6806 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809        TCGA-F4-6854 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-F4-6855        TCGA-F4-6856        TCGA-G4-6293        TCGA-G4-6294 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-G4-6295        TCGA-G4-6297        TCGA-G4-6298        TCGA-G4-6299 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-G4-6302        TCGA-G4-6303        TCGA-G4-6304        TCGA-G4-6306 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-G4-6307        TCGA-G4-6309        TCGA-G4-6310        TCGA-G4-6311 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-G4-6314        TCGA-G4-6315        TCGA-G4-6317        TCGA-G4-6320 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-G4-6321        TCGA-G4-6322        TCGA-G4-6323        TCGA-G4-6586 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-G4-6588        TCGA-G4-6625        TCGA-G4-6626        TCGA-G4-6627 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-G4-6628        TCGA-NH-A50T        TCGA-NH-A50U        TCGA-NH-A50V 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-NH-A5IV        TCGA-NH-A6GA        TCGA-NH-A6GB        TCGA-NH-A6GC 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-NH-A8F7        TCGA-NH-A8F8        TCGA-QG-A5YV        TCGA-QG-A5YW 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-QG-A5YX        TCGA-QG-A5Z1        TCGA-QG-A5Z2        TCGA-QL-A97D 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-RU-A8FL        TCGA-SS-A7HO        TCGA-T9-A92H        TCGA-WS-AB45 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  2P LOSS MUTATED        1      1      1
  2P LOSS WILD-TYPE     84    144    124
D44V5, multiclass
        clus
vv       2P LOSS MUTATED 2P LOSS WILD-TYPE
  CLUS_1               1                84
  CLUS_2               1               144
  CLUS_3               1               124
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  2P LOSS MUTATED        1      0      0      0      1      1      0      0
  2P LOSS WILD-TYPE     50     33     35     39     42     85     22     20
                   vv
clus                CLUS_9
  2P LOSS MUTATED        0
  2P LOSS WILD-TYPE     26
D44V6, multiclass
        clus
vv       2P LOSS MUTATED 2P LOSS WILD-TYPE
  CLUS_1               1                50
  CLUS_2               0                33
  CLUS_3               0                35
  CLUS_4               0                39
  CLUS_5               1                42
  CLUS_6               1                85
  CLUS_7               0                22
  CLUS_8               0                20
  CLUS_9               0                26
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger 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      0      0      4
  2P LOSS WILD-TYPE    125     94     97    127
D44V7, multiclass
        clus
vv       2P LOSS MUTATED 2P LOSS WILD-TYPE
  CLUS_1               2               125
  CLUS_2               0                94
  CLUS_3               0                97
  CLUS_4               4               127
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  2P LOSS MUTATED        2      0      0      4      0
  2P LOSS WILD-TYPE     77    108     96    125     37
D44V8, multiclass
        clus
vv       2P LOSS MUTATED 2P LOSS WILD-TYPE
  CLUS_1               2                77
  CLUS_2               0               108
  CLUS_3               0                96
  CLUS_4               4               125
  CLUS_5               0                37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  2P LOSS MUTATED        1      0      0      3      2
  2P LOSS WILD-TYPE     59     88     71     72    102
D44V9, multiclass
        clus
vv       2P LOSS MUTATED 2P LOSS WILD-TYPE
  CLUS_1               1                59
  CLUS_2               0                88
  CLUS_3               0                71
  CLUS_4               3                72
  CLUS_5               2               102
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  2P LOSS MUTATED        1      0      0      0      1      0      1      2
  2P LOSS WILD-TYPE     78     55     46     17     54     20     25     40
                   vv
clus                CLUS_9
  2P LOSS MUTATED        1
  2P LOSS WILD-TYPE     57
D44V10, multiclass
        clus
vv       2P LOSS MUTATED 2P LOSS WILD-TYPE
  CLUS_1               1                78
  CLUS_2               0                55
  CLUS_3               0                46
  CLUS_4               0                17
  CLUS_5               1                54
  CLUS_6               0                20
  CLUS_7               1                25
  CLUS_8               2                40
  CLUS_9               1                57
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  2P LOSS MUTATED        0      0      0      0      0      1
  2P LOSS WILD-TYPE     18     20     16     11     11      8
D44V11, multiclass
[1] "Remove cluster labels:" "2P LOSS MUTATED"       
clus
  2P LOSS MUTATED 2P LOSS WILD-TYPE 
                1                84 
       TCGA-A6-2675        TCGA-A6-5657        TCGA-A6-5667        TCGA-A6-6137 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-A6-6138        TCGA-A6-6140        TCGA-A6-6141        TCGA-A6-6142 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-A6-6649        TCGA-A6-6650        TCGA-A6-6651        TCGA-A6-6653 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889        TCGA-AD-6901 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965        TCGA-AY-6196 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403        TCGA-AZ-6598 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603        TCGA-AZ-6605 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-CK-6748        TCGA-CM-4751        TCGA-CM-5860        TCGA-CM-6167 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-CM-6674        TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-CM-6679        TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-D5-6534        TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-DM-A0XD        TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-DM-A1D8        TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-DM-A280        TCGA-DM-A282        TCGA-DM-A285        TCGA-DM-A28F 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-F4-6459        TCGA-F4-6460        TCGA-F4-6569        TCGA-F4-6570 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-F4-6704        TCGA-F4-6805        TCGA-F4-6807        TCGA-F4-6808 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-F4-6809        TCGA-G4-6294        TCGA-G4-6295        TCGA-G4-6299 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-G4-6302        TCGA-G4-6303        TCGA-G4-6306        TCGA-G4-6309 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-G4-6314        TCGA-G4-6625        TCGA-G4-6627        TCGA-G4-6628 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  2P LOSS MUTATED        0      0      0      0      0      0      0      1
  2P LOSS WILD-TYPE     12      9      8     12      9      7     13      8
                   vv
clus                CLUS_9
  2P LOSS MUTATED        0
  2P LOSS WILD-TYPE      6
D44V12, multiclass
[1] "Remove cluster labels:" "2P LOSS MUTATED"       
clus
  2P LOSS MUTATED 2P LOSS WILD-TYPE 
                1                84 
       TCGA-A6-2675        TCGA-A6-5657        TCGA-A6-5667        TCGA-A6-6137 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-A6-6138        TCGA-A6-6140        TCGA-A6-6141        TCGA-A6-6142 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-A6-6649        TCGA-A6-6650        TCGA-A6-6651        TCGA-A6-6653 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889        TCGA-AD-6901 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965        TCGA-AY-6196 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403        TCGA-AZ-6598 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603        TCGA-AZ-6605 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-CK-6748        TCGA-CM-4751        TCGA-CM-5860        TCGA-CM-6167 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-CM-6674        TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-CM-6679        TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-D5-6534        TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-DM-A0XD        TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-DM-A1D8        TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-DM-A280        TCGA-DM-A282        TCGA-DM-A285        TCGA-DM-A28F 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-F4-6459        TCGA-F4-6460        TCGA-F4-6569        TCGA-F4-6570 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-F4-6704        TCGA-F4-6805        TCGA-F4-6807        TCGA-F4-6808 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-F4-6809        TCGA-G4-6294        TCGA-G4-6295        TCGA-G4-6299 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-G4-6302        TCGA-G4-6303        TCGA-G4-6306        TCGA-G4-6309 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-G4-6314        TCGA-G4-6625        TCGA-G4-6627        TCGA-G4-6628 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 

Clustering(45) Variable = 2Q LOSS MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  2Q LOSS MUTATED        0      1      2      1      1
  2Q LOSS WILD-TYPE     31     16     47     26     22
D45V1, multiclass
        clus
vv       2Q LOSS MUTATED 2Q LOSS WILD-TYPE
  CLUS_1               0                31
  CLUS_2               1                16
  CLUS_3               2                47
  CLUS_4               1                26
  CLUS_5               1                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
  2Q LOSS MUTATED        1      4      0
  2Q LOSS WILD-TYPE     41     64     37
D45V2, multiclass
        clus
vv       2Q LOSS MUTATED 2Q LOSS WILD-TYPE
  CLUS_1               1                41
  CLUS_2               4                64
  CLUS_3               0                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
  2Q LOSS MUTATED        2      4      1
  2Q LOSS WILD-TYPE     51    217    176
D45V3, multiclass
        clus
vv       2Q LOSS MUTATED 2Q LOSS WILD-TYPE
  CLUS_1               2                51
  CLUS_2               4               217
  CLUS_3               1               176
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  2Q LOSS MUTATED        1      1      0
  2Q LOSS WILD-TYPE     84    102    106
D45V4, multiclass
[1] "Remove cluster labels:" "2Q LOSS MUTATED"       
clus
  2Q LOSS MUTATED 2Q LOSS WILD-TYPE 
                2               292 
       TCGA-3L-AA1B        TCGA-4N-A93T        TCGA-4T-AA8H        TCGA-5M-AAT4 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-5M-AAT5        TCGA-5M-AAT6        TCGA-5M-AATA        TCGA-5M-AATE 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-A6-2671        TCGA-A6-2675        TCGA-A6-2677        TCGA-A6-2679 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-A6-2680        TCGA-A6-2681        TCGA-A6-2682        TCGA-A6-2684 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-A6-2685        TCGA-A6-2686        TCGA-A6-3809        TCGA-A6-3810 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-A6-4105        TCGA-A6-4107        TCGA-A6-5656        TCGA-A6-5657 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-A6-5659        TCGA-A6-5660        TCGA-A6-5661        TCGA-A6-5662 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-A6-5664        TCGA-A6-5665        TCGA-A6-5666        TCGA-A6-5667 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-A6-6137        TCGA-A6-6138        TCGA-A6-6140        TCGA-A6-6141 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-A6-6142        TCGA-A6-6648        TCGA-A6-6649        TCGA-A6-6650 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-A6-6651        TCGA-A6-6652        TCGA-A6-6653        TCGA-A6-6654 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-A6-6780        TCGA-A6-6781        TCGA-A6-6782        TCGA-A6-A565 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-A6-A566        TCGA-A6-A567        TCGA-A6-A56B        TCGA-A6-A5ZU 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-AA-3488        TCGA-AA-3489        TCGA-AA-3492        TCGA-AA-3494 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-AA-3495        TCGA-AA-3496        TCGA-AA-3502        TCGA-AA-3506 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-AA-3510        TCGA-AA-3655        TCGA-AA-3660        TCGA-AA-3662 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-AA-3663        TCGA-AA-3697        TCGA-AA-3712        TCGA-AA-3713 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6888        TCGA-AD-6889 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-AD-6890        TCGA-AD-6895        TCGA-AD-6899        TCGA-AD-6901 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965        TCGA-AD-A5EJ 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-AD-A5EK        TCGA-AM-5820        TCGA-AM-5821        TCGA-AU-3779 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-AU-6004        TCGA-AY-5543        TCGA-AY-6196        TCGA-AY-6197 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-AY-6386        TCGA-AY-A54L        TCGA-AY-A69D        TCGA-AY-A71X 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-AY-A8YK        TCGA-AZ-4308        TCGA-AZ-4313        TCGA-AZ-4315 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-AZ-4323        TCGA-AZ-4614        TCGA-AZ-4615        TCGA-AZ-4616 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-AZ-4681        TCGA-AZ-4682        TCGA-AZ-4684        TCGA-AZ-5403 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-AZ-5407        TCGA-AZ-6598        TCGA-AZ-6599        TCGA-AZ-6600 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-AZ-6601        TCGA-AZ-6603        TCGA-AZ-6605        TCGA-AZ-6606 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-AZ-6607        TCGA-AZ-6608        TCGA-CA-5254        TCGA-CA-5255 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-CA-5256        TCGA-CA-5796        TCGA-CA-6715        TCGA-CA-6716 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-CA-6717        TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-4947 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-CK-4948        TCGA-CK-4950        TCGA-CK-4951        TCGA-CK-4952 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-CK-5912        TCGA-CK-5913        TCGA-CK-5914        TCGA-CK-5915 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-CK-5916        TCGA-CK-6746        TCGA-CK-6747        TCGA-CK-6748 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-CK-6751        TCGA-CM-4743        TCGA-CM-4744        TCGA-CM-4746 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-CM-4747        TCGA-CM-4748        TCGA-CM-4750        TCGA-CM-4751 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-CM-4752        TCGA-CM-5341        TCGA-CM-5344        TCGA-CM-5348 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-CM-5349        TCGA-CM-5860        TCGA-CM-5861        TCGA-CM-5862 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-CM-5863        TCGA-CM-5864        TCGA-CM-5868        TCGA-CM-6161 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-CM-6162        TCGA-CM-6163        TCGA-CM-6164        TCGA-CM-6165 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-CM-6166        TCGA-CM-6167        TCGA-CM-6168        TCGA-CM-6169 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-CM-6170        TCGA-CM-6171        TCGA-CM-6172        TCGA-CM-6674 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-CM-6675        TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-CM-6679        TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-5538 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-D5-5539        TCGA-D5-5540        TCGA-D5-5541        TCGA-D5-6529 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-D5-6530        TCGA-D5-6531        TCGA-D5-6532        TCGA-D5-6533 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-D5-6534        TCGA-D5-6535        TCGA-D5-6536        TCGA-D5-6537 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-D5-6538        TCGA-D5-6539        TCGA-D5-6540        TCGA-D5-6541 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-D5-6898        TCGA-D5-6920        TCGA-D5-6922        TCGA-D5-6923 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-D5-6924        TCGA-D5-6926        TCGA-D5-6927        TCGA-D5-6928 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-D5-6929        TCGA-D5-6930        TCGA-D5-6931        TCGA-D5-6932 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-D5-7000        TCGA-DM-A0X9        TCGA-DM-A0XD        TCGA-DM-A0XF 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-DM-A1D0        TCGA-DM-A1D4        TCGA-DM-A1D6        TCGA-DM-A1D7 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-DM-A1D8        TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1DB 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-DM-A1HA        TCGA-DM-A1HB        TCGA-DM-A280        TCGA-DM-A282 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-DM-A285        TCGA-DM-A288        TCGA-DM-A28A        TCGA-DM-A28C 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-DM-A28E        TCGA-DM-A28F        TCGA-DM-A28G        TCGA-DM-A28H 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-DM-A28K        TCGA-DM-A28M        TCGA-F4-6459        TCGA-F4-6460 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-F4-6461        TCGA-F4-6463        TCGA-F4-6569        TCGA-F4-6570 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-F4-6703        TCGA-F4-6704        TCGA-F4-6805        TCGA-F4-6806 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-F4-6807        TCGA-F4-6808        TCGA-F4-6809        TCGA-F4-6854 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-F4-6855        TCGA-F4-6856        TCGA-G4-6293        TCGA-G4-6294 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-G4-6295        TCGA-G4-6297        TCGA-G4-6298        TCGA-G4-6299 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-G4-6302        TCGA-G4-6303        TCGA-G4-6304        TCGA-G4-6306 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-G4-6307        TCGA-G4-6309        TCGA-G4-6310        TCGA-G4-6311 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-G4-6314        TCGA-G4-6315        TCGA-G4-6317        TCGA-G4-6320 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-G4-6321        TCGA-G4-6322        TCGA-G4-6323        TCGA-G4-6586 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-G4-6588        TCGA-G4-6625        TCGA-G4-6626        TCGA-G4-6627 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-G4-6628        TCGA-NH-A50T        TCGA-NH-A50U        TCGA-NH-A50V 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-NH-A5IV        TCGA-NH-A6GA        TCGA-NH-A6GB        TCGA-NH-A6GC 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-NH-A8F7        TCGA-NH-A8F8        TCGA-QG-A5YV        TCGA-QG-A5YW 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-QG-A5YX        TCGA-QG-A5Z1        TCGA-QG-A5Z2        TCGA-QL-A97D 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-RU-A8FL        TCGA-SS-A7HO        TCGA-T9-A92H        TCGA-WS-AB45 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  2Q LOSS MUTATED        2      1      1
  2Q LOSS WILD-TYPE     83    144    124
D45V5, multiclass
        clus
vv       2Q LOSS MUTATED 2Q LOSS WILD-TYPE
  CLUS_1               2                83
  CLUS_2               1               144
  CLUS_3               1               124
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  2Q LOSS MUTATED        1      0      0      0      1      1      1      0
  2Q LOSS WILD-TYPE     50     33     35     39     42     85     21     20
                   vv
clus                CLUS_9
  2Q LOSS MUTATED        0
  2Q LOSS WILD-TYPE     26
D45V6, multiclass
        clus
vv       2Q LOSS MUTATED 2Q LOSS WILD-TYPE
  CLUS_1               1                50
  CLUS_2               0                33
  CLUS_3               0                35
  CLUS_4               0                39
  CLUS_5               1                42
  CLUS_6               1                85
  CLUS_7               1                21
  CLUS_8               0                20
  CLUS_9               0                26
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger 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      1      0      4
  2Q LOSS WILD-TYPE    125     93     97    127
D45V7, multiclass
        clus
vv       2Q LOSS MUTATED 2Q LOSS WILD-TYPE
  CLUS_1               2               125
  CLUS_2               1                93
  CLUS_3               0                97
  CLUS_4               4               127
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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        2      0      0      5      0
  2Q LOSS WILD-TYPE     77    108     96    124     37
D45V8, multiclass
        clus
vv       2Q LOSS MUTATED 2Q LOSS WILD-TYPE
  CLUS_1               2                77
  CLUS_2               0               108
  CLUS_3               0                96
  CLUS_4               5               124
  CLUS_5               0                37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  2Q LOSS MUTATED        1      0      0      3      3
  2Q LOSS WILD-TYPE     59     88     71     72    101
D45V9, multiclass
        clus
vv       2Q LOSS MUTATED 2Q LOSS WILD-TYPE
  CLUS_1               1                59
  CLUS_2               0                88
  CLUS_3               0                71
  CLUS_4               3                72
  CLUS_5               3               101
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  2Q LOSS MUTATED        1      0      0      0      1      0      1      3
  2Q LOSS WILD-TYPE     78     55     46     17     54     20     25     39
                   vv
clus                CLUS_9
  2Q LOSS MUTATED        1
  2Q LOSS WILD-TYPE     57
D45V10, multiclass
        clus
vv       2Q LOSS MUTATED 2Q LOSS WILD-TYPE
  CLUS_1               1                78
  CLUS_2               0                55
  CLUS_3               0                46
  CLUS_4               0                17
  CLUS_5               1                54
  CLUS_6               0                20
  CLUS_7               1                25
  CLUS_8               3                39
  CLUS_9               1                57
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  2Q LOSS MUTATED        0      0      0      0      0      1
  2Q LOSS WILD-TYPE     18     20     16     11     11      8
D45V11, multiclass
[1] "Remove cluster labels:" "2Q LOSS MUTATED"       
clus
  2Q LOSS MUTATED 2Q LOSS WILD-TYPE 
                1                84 
       TCGA-A6-2675        TCGA-A6-5657        TCGA-A6-5667        TCGA-A6-6137 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-A6-6138        TCGA-A6-6140        TCGA-A6-6141        TCGA-A6-6142 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-A6-6649        TCGA-A6-6650        TCGA-A6-6651        TCGA-A6-6653 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889        TCGA-AD-6901 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965        TCGA-AY-6196 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403        TCGA-AZ-6598 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603        TCGA-AZ-6605 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-CK-6748        TCGA-CM-4751        TCGA-CM-5860        TCGA-CM-6167 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-CM-6674        TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-CM-6679        TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-D5-6534        TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-DM-A0XD        TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-DM-A1D8        TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-DM-A280        TCGA-DM-A282        TCGA-DM-A285        TCGA-DM-A28F 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-F4-6459        TCGA-F4-6460        TCGA-F4-6569        TCGA-F4-6570 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-F4-6704        TCGA-F4-6805        TCGA-F4-6807        TCGA-F4-6808 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-F4-6809        TCGA-G4-6294        TCGA-G4-6295        TCGA-G4-6299 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-G4-6302        TCGA-G4-6303        TCGA-G4-6306        TCGA-G4-6309 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-G4-6314        TCGA-G4-6625        TCGA-G4-6627        TCGA-G4-6628 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  2Q LOSS MUTATED        0      0      0      0      0      0      0      1
  2Q LOSS WILD-TYPE     12      9      8     12      9      7     13      8
                   vv
clus                CLUS_9
  2Q LOSS MUTATED        0
  2Q LOSS WILD-TYPE      6
D45V12, multiclass
[1] "Remove cluster labels:" "2Q LOSS MUTATED"       
clus
  2Q LOSS MUTATED 2Q LOSS WILD-TYPE 
                1                84 
       TCGA-A6-2675        TCGA-A6-5657        TCGA-A6-5667        TCGA-A6-6137 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-A6-6138        TCGA-A6-6140        TCGA-A6-6141        TCGA-A6-6142 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-A6-6649        TCGA-A6-6650        TCGA-A6-6651        TCGA-A6-6653 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-A6-6654        TCGA-A6-6781        TCGA-A6-6782        TCGA-AA-3489 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-AD-5900        TCGA-AD-6548        TCGA-AD-6889        TCGA-AD-6901 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-AD-6963        TCGA-AD-6964        TCGA-AD-6965        TCGA-AY-6196 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-AZ-4323        TCGA-AZ-4616        TCGA-AZ-5403        TCGA-AZ-6598 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-AZ-6600        TCGA-AZ-6601        TCGA-AZ-6603        TCGA-AZ-6605 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-AZ-6607        TCGA-CA-6718        TCGA-CA-6719        TCGA-CK-5916 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-CK-6748        TCGA-CM-4751        TCGA-CM-5860        TCGA-CM-6167 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-CM-6674        TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-CM-6679        TCGA-CM-6680        TCGA-D5-5537        TCGA-D5-6533 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-D5-6534        TCGA-D5-6536        TCGA-D5-6922        TCGA-D5-6924 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-DM-A0XD        TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D7 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-DM-A1D8        TCGA-DM-A1D9        TCGA-DM-A1DA        TCGA-DM-A1HA 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-DM-A280        TCGA-DM-A282        TCGA-DM-A285        TCGA-DM-A28F 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-F4-6459        TCGA-F4-6460        TCGA-F4-6569        TCGA-F4-6570 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-F4-6704        TCGA-F4-6805        TCGA-F4-6807        TCGA-F4-6808 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-F4-6809        TCGA-G4-6294        TCGA-G4-6295        TCGA-G4-6299 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-G4-6302        TCGA-G4-6303        TCGA-G4-6306        TCGA-G4-6309 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 
       TCGA-G4-6314        TCGA-G4-6625        TCGA-G4-6627        TCGA-G4-6628 
"2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" "2Q LOSS WILD-TYPE" 

Clustering(46) Variable = 3P LOSS MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  3P LOSS MUTATED        2      4      8      1      2
  3P LOSS WILD-TYPE     29     13     41     26     21
D46V1, multiclass
        clus
vv       3P LOSS MUTATED 3P LOSS WILD-TYPE
  CLUS_1               2                29
  CLUS_2               4                13
  CLUS_3               8                41
  CLUS_4               1                26
  CLUS_5               2                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
  3P LOSS MUTATED        3      9      5
  3P LOSS WILD-TYPE     39     59     32
D46V2, multiclass
        clus
vv       3P LOSS MUTATED 3P LOSS WILD-TYPE
  CLUS_1               3                39
  CLUS_2               9                59
  CLUS_3               5                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
  3P LOSS MUTATED       10     36      8
  3P LOSS WILD-TYPE     43    185    169
D46V3, multiclass
        clus
vv       3P LOSS MUTATED 3P LOSS WILD-TYPE
  CLUS_1              10                43
  CLUS_2              36               185
  CLUS_3               8               169
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  3P LOSS MUTATED       12     15     10
  3P LOSS WILD-TYPE     73     88     96
D46V4, multiclass
        clus
vv       3P LOSS MUTATED 3P LOSS WILD-TYPE
  CLUS_1              12                73
  CLUS_2              15                88
  CLUS_3              10                96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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        6     14     18
  3P LOSS WILD-TYPE     79    131    107
D46V5, multiclass
        clus
vv       3P LOSS MUTATED 3P LOSS WILD-TYPE
  CLUS_1               6                79
  CLUS_2              14               131
  CLUS_3              18               107
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  3P LOSS MUTATED        8      3      4      4      4      9      2      2
  3P LOSS WILD-TYPE     43     30     31     35     39     77     20     18
                   vv
clus                CLUS_9
  3P LOSS MUTATED        2
  3P LOSS WILD-TYPE     24
D46V6, multiclass
        clus
vv       3P LOSS MUTATED 3P LOSS WILD-TYPE
  CLUS_1               8                43
  CLUS_2               3                30
  CLUS_3               4                31
  CLUS_4               4                35
  CLUS_5               4                39
  CLUS_6               9                77
  CLUS_7               2                20
  CLUS_8               2                18
  CLUS_9               2                24
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger 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       20      4     13     17
  3P LOSS WILD-TYPE    107     90     84    114
D46V7, multiclass
        clus
vv       3P LOSS MUTATED 3P LOSS WILD-TYPE
  CLUS_1              20               107
  CLUS_2               4                90
  CLUS_3              13                84
  CLUS_4              17               114
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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       13     16      5     18      2
  3P LOSS WILD-TYPE     66     92     91    111     35
D46V8, multiclass
        clus
vv       3P LOSS MUTATED 3P LOSS WILD-TYPE
  CLUS_1              13                66
  CLUS_2              16                92
  CLUS_3               5                91
  CLUS_4              18               111
  CLUS_5               2                35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  3P LOSS MUTATED        8     10      8     10      8
  3P LOSS WILD-TYPE     52     78     63     65     96
D46V9, multiclass
        clus
vv       3P LOSS MUTATED 3P LOSS WILD-TYPE
  CLUS_1               8                52
  CLUS_2              10                78
  CLUS_3               8                63
  CLUS_4              10                65
  CLUS_5               8                96
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  3P LOSS MUTATED        9      5      8      1      7      1      2      2
  3P LOSS WILD-TYPE     70     50     38     16     48     19     24     40
                   vv
clus                CLUS_9
  3P LOSS MUTATED        9
  3P LOSS WILD-TYPE     49
D46V10, multiclass
        clus
vv       3P LOSS MUTATED 3P LOSS WILD-TYPE
  CLUS_1               9                70
  CLUS_2               5                50
  CLUS_3               8                38
  CLUS_4               1                16
  CLUS_5               7                48
  CLUS_6               1                19
  CLUS_7               2                24
  CLUS_8               2                40
  CLUS_9               9                49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  3P LOSS MUTATED        2      4      1      5      0      0
  3P LOSS WILD-TYPE     16     16     15      6     11      9
D46V11, multiclass
        clus
vv       3P LOSS MUTATED 3P LOSS WILD-TYPE
  CLUS_1               2                16
  CLUS_2               4                16
  CLUS_3               1                15
  CLUS_4               5                 6
  CLUS_5               0                11
  CLUS_6               0                 9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  3P LOSS MUTATED        3      1      1      1      0      2      3      1
  3P LOSS WILD-TYPE      9      8      7     11      9      5     10      8
                   vv
clus                CLUS_9
  3P LOSS MUTATED        0
  3P LOSS WILD-TYPE      6
D46V12, multiclass
        clus
vv       3P LOSS MUTATED 3P LOSS WILD-TYPE
  CLUS_1               3                 9
  CLUS_2               1                 8
  CLUS_3               1                 7
  CLUS_4               1                11
  CLUS_5               0                 9
  CLUS_6               2                 5
  CLUS_7               3                10
  CLUS_8               1                 8
  CLUS_9               0                 6
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(47) Variable = 3Q LOSS MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  3Q LOSS MUTATED        2      1      5      0      2
  3Q LOSS WILD-TYPE     29     16     44     27     21
D47V1, multiclass
        clus
vv       3Q LOSS MUTATED 3Q LOSS WILD-TYPE
  CLUS_1               2                29
  CLUS_2               1                16
  CLUS_3               5                44
  CLUS_4               0                27
  CLUS_5               2                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
  3Q LOSS MUTATED        3      4      3
  3Q LOSS WILD-TYPE     39     64     34
D47V2, multiclass
        clus
vv       3Q LOSS MUTATED 3Q LOSS WILD-TYPE
  CLUS_1               3                39
  CLUS_2               4                64
  CLUS_3               3                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
  3Q LOSS MUTATED        9     21      5
  3Q LOSS WILD-TYPE     44    200    172
D47V3, multiclass
        clus
vv       3Q LOSS MUTATED 3Q LOSS WILD-TYPE
  CLUS_1               9                44
  CLUS_2              21               200
  CLUS_3               5               172
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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        8     10      7
  3Q LOSS WILD-TYPE     77     93     99
D47V4, multiclass
        clus
vv       3Q LOSS MUTATED 3Q LOSS WILD-TYPE
  CLUS_1               8                77
  CLUS_2              10                93
  CLUS_3               7                99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  3Q LOSS MUTATED        4     11     11
  3Q LOSS WILD-TYPE     81    134    114
D47V5, multiclass
        clus
vv       3Q LOSS MUTATED 3Q LOSS WILD-TYPE
  CLUS_1               4                81
  CLUS_2              11               134
  CLUS_3              11               114
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  3Q LOSS MUTATED        3      2      3      3      4      7      2      2
  3Q LOSS WILD-TYPE     48     31     32     36     39     79     20     18
                   vv
clus                CLUS_9
  3Q LOSS MUTATED        0
  3Q LOSS WILD-TYPE     26
D47V6, multiclass
        clus
vv       3Q LOSS MUTATED 3Q LOSS WILD-TYPE
  CLUS_1               3                48
  CLUS_2               2                31
  CLUS_3               3                32
  CLUS_4               3                36
  CLUS_5               4                39
  CLUS_6               7                79
  CLUS_7               2                20
  CLUS_8               2                18
  CLUS_9               0                26
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger 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       15      2      8     10
  3Q LOSS WILD-TYPE    112     92     89    121
D47V7, multiclass
        clus
vv       3Q LOSS MUTATED 3Q LOSS WILD-TYPE
  CLUS_1              15               112
  CLUS_2               2                92
  CLUS_3               8                89
  CLUS_4              10               121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  3Q LOSS MUTATED        7     13      3     10      2
  3Q LOSS WILD-TYPE     72     95     93    119     35
D47V8, multiclass
        clus
vv       3Q LOSS MUTATED 3Q LOSS WILD-TYPE
  CLUS_1               7                72
  CLUS_2              13                95
  CLUS_3               3                93
  CLUS_4              10               119
  CLUS_5               2                35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  3Q LOSS MUTATED        5      9      4      7      4
  3Q LOSS WILD-TYPE     55     79     67     68    100
D47V9, multiclass
        clus
vv       3Q LOSS MUTATED 3Q LOSS WILD-TYPE
  CLUS_1               5                55
  CLUS_2               9                79
  CLUS_3               4                67
  CLUS_4               7                68
  CLUS_5               4               100
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  3Q LOSS MUTATED        7      4      5      1      5      0      1      1
  3Q LOSS WILD-TYPE     72     51     41     16     50     20     25     41
                   vv
clus                CLUS_9
  3Q LOSS MUTATED        5
  3Q LOSS WILD-TYPE     53
D47V10, multiclass
        clus
vv       3Q LOSS MUTATED 3Q LOSS WILD-TYPE
  CLUS_1               7                72
  CLUS_2               4                51
  CLUS_3               5                41
  CLUS_4               1                16
  CLUS_5               5                50
  CLUS_6               0                20
  CLUS_7               1                25
  CLUS_8               1                41
  CLUS_9               5                53
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  3Q LOSS MUTATED        2      3      1      3      0      0
  3Q LOSS WILD-TYPE     16     17     15      8     11      9
D47V11, multiclass
        clus
vv       3Q LOSS MUTATED 3Q LOSS WILD-TYPE
  CLUS_1               2                16
  CLUS_2               3                17
  CLUS_3               1                15
  CLUS_4               3                 8
  CLUS_5               0                11
  CLUS_6               0                 9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  3Q LOSS MUTATED        3      0      0      1      0      1      3      1
  3Q LOSS WILD-TYPE      9      9      8     11      9      6     10      8
                   vv
clus                CLUS_9
  3Q LOSS MUTATED        0
  3Q LOSS WILD-TYPE      6
D47V12, multiclass
        clus
vv       3Q LOSS MUTATED 3Q LOSS WILD-TYPE
  CLUS_1               3                 9
  CLUS_2               0                 9
  CLUS_3               0                 8
  CLUS_4               1                11
  CLUS_5               0                 9
  CLUS_6               1                 6
  CLUS_7               3                10
  CLUS_8               1                 8
  CLUS_9               0                 6
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(48) Variable = 4P LOSS MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  4P LOSS MUTATED        3      8     21      2     13
  4P LOSS WILD-TYPE     28      9     28     25     10
D48V1, multiclass
        clus
vv       4P LOSS MUTATED 4P LOSS WILD-TYPE
  CLUS_1               3                28
  CLUS_2               8                 9
  CLUS_3              21                28
  CLUS_4               2                25
  CLUS_5              13                10
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  4P LOSS MUTATED        6     22     19
  4P LOSS WILD-TYPE     36     46     18
D48V2, multiclass
        clus
vv       4P LOSS MUTATED 4P LOSS WILD-TYPE
  CLUS_1               6                36
  CLUS_2              22                46
  CLUS_3              19                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
  4P LOSS MUTATED       30     99     10
  4P LOSS WILD-TYPE     23    122    167
D48V3, multiclass
        clus
vv       4P LOSS MUTATED 4P LOSS WILD-TYPE
  CLUS_1              30                23
  CLUS_2              99               122
  CLUS_3              10               167
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       21     43     25
  4P LOSS WILD-TYPE     64     60     81
D48V4, multiclass
        clus
vv       4P LOSS MUTATED 4P LOSS WILD-TYPE
  CLUS_1              21                64
  CLUS_2              43                60
  CLUS_3              25                81
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       25     42     34
  4P LOSS WILD-TYPE     60    103     91
D48V5, multiclass
        clus
vv       4P LOSS MUTATED 4P LOSS WILD-TYPE
  CLUS_1              25                60
  CLUS_2              42               103
  CLUS_3              34                91
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  4P LOSS MUTATED       16      7     13     13     17     17      7      1
  4P LOSS WILD-TYPE     35     26     22     26     26     69     15     19
                   vv
clus                CLUS_9
  4P LOSS MUTATED       10
  4P LOSS WILD-TYPE     16
D48V6, multiclass
        clus
vv       4P LOSS MUTATED 4P LOSS WILD-TYPE
  CLUS_1              16                35
  CLUS_2               7                26
  CLUS_3              13                22
  CLUS_4              13                26
  CLUS_5              17                26
  CLUS_6              17                69
  CLUS_7               7                15
  CLUS_8               1                19
  CLUS_9              10                16
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger 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       59     11     29     39
  4P LOSS WILD-TYPE     68     83     68     92
D48V7, multiclass
        clus
vv       4P LOSS MUTATED 4P LOSS WILD-TYPE
  CLUS_1              59                68
  CLUS_2              11                83
  CLUS_3              29                68
  CLUS_4              39                92
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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       35     42      8     50      3
  4P LOSS WILD-TYPE     44     66     88     79     34
D48V8, multiclass
        clus
vv       4P LOSS MUTATED 4P LOSS WILD-TYPE
  CLUS_1              35                44
  CLUS_2              42                66
  CLUS_3               8                88
  CLUS_4              50                79
  CLUS_5               3                34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  4P LOSS MUTATED       27     17     21     33     20
  4P LOSS WILD-TYPE     33     71     50     42     84
D48V9, multiclass
        clus
vv       4P LOSS MUTATED 4P LOSS WILD-TYPE
  CLUS_1              27                33
  CLUS_2              17                71
  CLUS_3              21                50
  CLUS_4              33                42
  CLUS_5              20                84
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  4P LOSS MUTATED       25     13     16      1     16      6      7      7
  4P LOSS WILD-TYPE     54     42     30     16     39     14     19     35
                   vv
clus                CLUS_9
  4P LOSS MUTATED       27
  4P LOSS WILD-TYPE     31
D48V10, multiclass
        clus
vv       4P LOSS MUTATED 4P LOSS WILD-TYPE
  CLUS_1              25                54
  CLUS_2              13                42
  CLUS_3              16                30
  CLUS_4               1                16
  CLUS_5              16                39
  CLUS_6               6                14
  CLUS_7               7                19
  CLUS_8               7                35
  CLUS_9              27                31
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  4P LOSS MUTATED       10      8      3      2      0      4
  4P LOSS WILD-TYPE      8     12     13      9     11      5
D48V11, multiclass
        clus
vv       4P LOSS MUTATED 4P LOSS WILD-TYPE
  CLUS_1              10                 8
  CLUS_2               8                12
  CLUS_3               3                13
  CLUS_4               2                 9
  CLUS_5               0                11
  CLUS_6               4                 5
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  4P LOSS MUTATED        8      3      2      2      2      2      1      4
  4P LOSS WILD-TYPE      4      6      6     10      7      5     12      5
                   vv
clus                CLUS_9
  4P LOSS MUTATED        3
  4P LOSS WILD-TYPE      3
D48V12, multiclass
        clus
vv       4P LOSS MUTATED 4P LOSS WILD-TYPE
  CLUS_1               8                 4
  CLUS_2               3                 6
  CLUS_3               2                 6
  CLUS_4               2                10
  CLUS_5               2                 7
  CLUS_6               2                 5
  CLUS_7               1                12
  CLUS_8               4                 5
  CLUS_9               3                 3
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(49) Variable = 4Q LOSS MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  4Q LOSS MUTATED        3      5     22      2     11
  4Q LOSS WILD-TYPE     28     12     27     25     12
D49V1, multiclass
        clus
vv       4Q LOSS MUTATED 4Q LOSS WILD-TYPE
  CLUS_1               3                28
  CLUS_2               5                12
  CLUS_3              22                27
  CLUS_4               2                25
  CLUS_5              11                12
[1] 5 2
[1] TRUE
[1] "dimension of contingency table 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        5     23     15
  4Q LOSS WILD-TYPE     37     45     22
D49V2, multiclass
        clus
vv       4Q LOSS MUTATED 4Q LOSS WILD-TYPE
  CLUS_1               5                37
  CLUS_2              23                45
  CLUS_3              15                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
  4Q LOSS MUTATED       25     92     10
  4Q LOSS WILD-TYPE     28    129    167
D49V3, multiclass
        clus
vv       4Q LOSS MUTATED 4Q LOSS WILD-TYPE
  CLUS_1              25                28
  CLUS_2              92               129
  CLUS_3              10               167
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       21     38     22
  4Q LOSS WILD-TYPE     64     65     84
D49V4, multiclass
        clus
vv       4Q LOSS MUTATED 4Q LOSS WILD-TYPE
  CLUS_1              21                64
  CLUS_2              38                65
  CLUS_3              22                84
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       25     39     30
  4Q LOSS WILD-TYPE     60    106     95
D49V5, multiclass
        clus
vv       4Q LOSS MUTATED 4Q LOSS WILD-TYPE
  CLUS_1              25                60
  CLUS_2              39               106
  CLUS_3              30                95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  4Q LOSS MUTATED       17      6     12     10     15     17      6      3
  4Q LOSS WILD-TYPE     34     27     23     29     28     69     16     17
                   vv
clus                CLUS_9
  4Q LOSS MUTATED        8
  4Q LOSS WILD-TYPE     18
D49V6, multiclass
        clus
vv       4Q LOSS MUTATED 4Q LOSS WILD-TYPE
  CLUS_1              17                34
  CLUS_2               6                27
  CLUS_3              12                23
  CLUS_4              10                29
  CLUS_5              15                28
  CLUS_6              17                69
  CLUS_7               6                16
  CLUS_8               3                17
  CLUS_9               8                18
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger 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       54      9     25     38
  4Q LOSS WILD-TYPE     73     85     72     93
D49V7, multiclass
        clus
vv       4Q LOSS MUTATED 4Q LOSS WILD-TYPE
  CLUS_1              54                73
  CLUS_2               9                85
  CLUS_3              25                72
  CLUS_4              38                93
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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       34     38      5     46      3
  4Q LOSS WILD-TYPE     45     70     91     83     34
D49V8, multiclass
        clus
vv       4Q LOSS MUTATED 4Q LOSS WILD-TYPE
  CLUS_1              34                45
  CLUS_2              38                70
  CLUS_3               5                91
  CLUS_4              46                83
  CLUS_5               3                34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  4Q LOSS MUTATED       25     14     19     29     19
  4Q LOSS WILD-TYPE     35     74     52     46     85
D49V9, multiclass
        clus
vv       4Q LOSS MUTATED 4Q LOSS WILD-TYPE
  CLUS_1              25                35
  CLUS_2              14                74
  CLUS_3              19                52
  CLUS_4              29                46
  CLUS_5              19                85
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  4Q LOSS MUTATED       20     13     16      1     17      4      4      7
  4Q LOSS WILD-TYPE     59     42     30     16     38     16     22     35
                   vv
clus                CLUS_9
  4Q LOSS MUTATED       24
  4Q LOSS WILD-TYPE     34
D49V10, multiclass
        clus
vv       4Q LOSS MUTATED 4Q LOSS WILD-TYPE
  CLUS_1              20                59
  CLUS_2              13                42
  CLUS_3              16                30
  CLUS_4               1                16
  CLUS_5              17                38
  CLUS_6               4                16
  CLUS_7               4                22
  CLUS_8               7                35
  CLUS_9              24                34
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  4Q LOSS MUTATED        8      8      3      2      0      3
  4Q LOSS WILD-TYPE     10     12     13      9     11      6
D49V11, multiclass
        clus
vv       4Q LOSS MUTATED 4Q LOSS WILD-TYPE
  CLUS_1               8                10
  CLUS_2               8                12
  CLUS_3               3                13
  CLUS_4               2                 9
  CLUS_5               0                11
  CLUS_6               3                 6
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  4Q LOSS MUTATED        6      3      3      2      2      2      2      2
  4Q LOSS WILD-TYPE      6      6      5     10      7      5     11      7
                   vv
clus                CLUS_9
  4Q LOSS MUTATED        2
  4Q LOSS WILD-TYPE      4
D49V12, multiclass
        clus
vv       4Q LOSS MUTATED 4Q LOSS WILD-TYPE
  CLUS_1               6                 6
  CLUS_2               3                 6
  CLUS_3               3                 5
  CLUS_4               2                10
  CLUS_5               2                 7
  CLUS_6               2                 5
  CLUS_7               2                11
  CLUS_8               2                 7
  CLUS_9               2                 4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(50) Variable = 5P LOSS MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  5P LOSS MUTATED        2      4      6      3      3
  5P LOSS WILD-TYPE     29     13     43     24     20
D50V1, multiclass
        clus
vv       5P LOSS MUTATED 5P LOSS WILD-TYPE
  CLUS_1               2                29
  CLUS_2               4                13
  CLUS_3               6                43
  CLUS_4               3                24
  CLUS_5               3                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
  5P LOSS MUTATED        5     10      3
  5P LOSS WILD-TYPE     37     58     34
D50V2, multiclass
        clus
vv       5P LOSS MUTATED 5P LOSS WILD-TYPE
  CLUS_1               5                37
  CLUS_2              10                58
  CLUS_3               3                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
  5P LOSS MUTATED       11     44      5
  5P LOSS WILD-TYPE     42    177    172
D50V3, multiclass
        clus
vv       5P LOSS MUTATED 5P LOSS WILD-TYPE
  CLUS_1              11                42
  CLUS_2              44               177
  CLUS_3               5               172
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       11     24      7
  5P LOSS WILD-TYPE     74     79     99
D50V4, multiclass
        clus
vv       5P LOSS MUTATED 5P LOSS WILD-TYPE
  CLUS_1              11                74
  CLUS_2              24                79
  CLUS_3               7                99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       10     18     13
  5P LOSS WILD-TYPE     75    127    112
D50V5, multiclass
        clus
vv       5P LOSS MUTATED 5P LOSS WILD-TYPE
  CLUS_1              10                75
  CLUS_2              18               127
  CLUS_3              13               112
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  5P LOSS MUTATED        4      5      6      5      5      8      1      3
  5P LOSS WILD-TYPE     47     28     29     34     38     78     21     17
                   vv
clus                CLUS_9
  5P LOSS MUTATED        4
  5P LOSS WILD-TYPE     22
D50V6, multiclass
        clus
vv       5P LOSS MUTATED 5P LOSS WILD-TYPE
  CLUS_1               4                47
  CLUS_2               5                28
  CLUS_3               6                29
  CLUS_4               5                34
  CLUS_5               5                38
  CLUS_6               8                78
  CLUS_7               1                21
  CLUS_8               3                17
  CLUS_9               4                22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger 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       24      7     11     18
  5P LOSS WILD-TYPE    103     87     86    113
D50V7, multiclass
        clus
vv       5P LOSS MUTATED 5P LOSS WILD-TYPE
  CLUS_1              24               103
  CLUS_2               7                87
  CLUS_3              11                86
  CLUS_4              18               113
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  5P LOSS MUTATED       12     22      2     20      4
  5P LOSS WILD-TYPE     67     86     94    109     33
D50V8, multiclass
        clus
vv       5P LOSS MUTATED 5P LOSS WILD-TYPE
  CLUS_1              12                67
  CLUS_2              22                86
  CLUS_3               2                94
  CLUS_4              20               109
  CLUS_5               4                33
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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       15      7      8      9     10
  5P LOSS WILD-TYPE     45     81     63     66     94
D50V9, multiclass
        clus
vv       5P LOSS MUTATED 5P LOSS WILD-TYPE
  CLUS_1              15                45
  CLUS_2               7                81
  CLUS_3               8                63
  CLUS_4               9                66
  CLUS_5              10                94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  5P LOSS MUTATED        7      7      4      0     11      3      4      5
  5P LOSS WILD-TYPE     72     48     42     17     44     17     22     37
                   vv
clus                CLUS_9
  5P LOSS MUTATED        8
  5P LOSS WILD-TYPE     50
D50V10, multiclass
        clus
vv       5P LOSS MUTATED 5P LOSS WILD-TYPE
  CLUS_1               7                72
  CLUS_2               7                48
  CLUS_3               4                42
  CLUS_4               0                17
  CLUS_5              11                44
  CLUS_6               3                17
  CLUS_7               4                22
  CLUS_8               5                37
  CLUS_9               8                50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  5P LOSS MUTATED        3      2      1      3      0      1
  5P LOSS WILD-TYPE     15     18     15      8     11      8
D50V11, multiclass
        clus
vv       5P LOSS MUTATED 5P LOSS WILD-TYPE
  CLUS_1               3                15
  CLUS_2               2                18
  CLUS_3               1                15
  CLUS_4               3                 8
  CLUS_5               0                11
  CLUS_6               1                 8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  5P LOSS MUTATED        3      1      1      2      0      0      2      0
  5P LOSS WILD-TYPE      9      8      7     10      9      7     11      9
                   vv
clus                CLUS_9
  5P LOSS MUTATED        1
  5P LOSS WILD-TYPE      5
D50V12, multiclass
        clus
vv       5P LOSS MUTATED 5P LOSS WILD-TYPE
  CLUS_1               3                 9
  CLUS_2               1                 8
  CLUS_3               1                 7
  CLUS_4               2                10
  CLUS_5               0                 9
  CLUS_6               0                 7
  CLUS_7               2                11
  CLUS_8               0                 9
  CLUS_9               1                 5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(51) Variable = 5Q LOSS MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  5Q LOSS MUTATED        2      6      9      1      6
  5Q LOSS WILD-TYPE     29     11     40     26     17
D51V1, multiclass
        clus
vv       5Q LOSS MUTATED 5Q LOSS WILD-TYPE
  CLUS_1               2                29
  CLUS_2               6                11
  CLUS_3               9                40
  CLUS_4               1                26
  CLUS_5               6                17
[1] 5 2
[1] TRUE
[1] "dimension of contingency table 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        4     11      9
  5Q LOSS WILD-TYPE     38     57     28
D51V2, multiclass
        clus
vv       5Q LOSS MUTATED 5Q LOSS WILD-TYPE
  CLUS_1               4                38
  CLUS_2              11                57
  CLUS_3               9                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
  5Q LOSS MUTATED       14     59      7
  5Q LOSS WILD-TYPE     39    162    170
D51V3, multiclass
        clus
vv       5Q LOSS MUTATED 5Q LOSS WILD-TYPE
  CLUS_1              14                39
  CLUS_2              59               162
  CLUS_3               7               170
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       18     26     12
  5Q LOSS WILD-TYPE     67     77     94
D51V4, multiclass
        clus
vv       5Q LOSS MUTATED 5Q LOSS WILD-TYPE
  CLUS_1              18                67
  CLUS_2              26                77
  CLUS_3              12                94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       15     22     18
  5Q LOSS WILD-TYPE     70    123    107
D51V5, multiclass
        clus
vv       5Q LOSS MUTATED 5Q LOSS WILD-TYPE
  CLUS_1              15                70
  CLUS_2              22               123
  CLUS_3              18               107
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  5Q LOSS MUTATED       13      4      6      4      6     10      3      3
  5Q LOSS WILD-TYPE     38     29     29     35     37     76     19     17
                   vv
clus                CLUS_9
  5Q LOSS MUTATED        6
  5Q LOSS WILD-TYPE     20
D51V6, multiclass
        clus
vv       5Q LOSS MUTATED 5Q LOSS WILD-TYPE
  CLUS_1              13                38
  CLUS_2               4                29
  CLUS_3               6                29
  CLUS_4               4                35
  CLUS_5               6                37
  CLUS_6              10                76
  CLUS_7               3                19
  CLUS_8               3                17
  CLUS_9               6                20
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger 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       34      5     20     21
  5Q LOSS WILD-TYPE     93     89     77    110
D51V7, multiclass
        clus
vv       5Q LOSS MUTATED 5Q LOSS WILD-TYPE
  CLUS_1              34                93
  CLUS_2               5                89
  CLUS_3              20                77
  CLUS_4              21               110
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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       20     26      5     26      3
  5Q LOSS WILD-TYPE     59     82     91    103     34
D51V8, multiclass
        clus
vv       5Q LOSS MUTATED 5Q LOSS WILD-TYPE
  CLUS_1              20                59
  CLUS_2              26                82
  CLUS_3               5                91
  CLUS_4              26               103
  CLUS_5               3                34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  5Q LOSS MUTATED       20      9     13     14     12
  5Q LOSS WILD-TYPE     40     79     58     61     92
D51V9, multiclass
        clus
vv       5Q LOSS MUTATED 5Q LOSS WILD-TYPE
  CLUS_1              20                40
  CLUS_2               9                79
  CLUS_3              13                58
  CLUS_4              14                61
  CLUS_5              12                92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  5Q LOSS MUTATED       11     12      6      0     16      4      5      4
  5Q LOSS WILD-TYPE     68     43     40     17     39     16     21     38
                   vv
clus                CLUS_9
  5Q LOSS MUTATED       10
  5Q LOSS WILD-TYPE     48
D51V10, multiclass
        clus
vv       5Q LOSS MUTATED 5Q LOSS WILD-TYPE
  CLUS_1              11                68
  CLUS_2              12                43
  CLUS_3               6                40
  CLUS_4               0                17
  CLUS_5              16                39
  CLUS_6               4                16
  CLUS_7               5                21
  CLUS_8               4                38
  CLUS_9              10                48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  5Q LOSS MUTATED        3      5      3      4      0      3
  5Q LOSS WILD-TYPE     15     15     13      7     11      6
D51V11, multiclass
        clus
vv       5Q LOSS MUTATED 5Q LOSS WILD-TYPE
  CLUS_1               3                15
  CLUS_2               5                15
  CLUS_3               3                13
  CLUS_4               4                 7
  CLUS_5               0                11
  CLUS_6               3                 6
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  5Q LOSS MUTATED        4      2      3      2      2      2      2      0
  5Q LOSS WILD-TYPE      8      7      5     10      7      5     11      9
                   vv
clus                CLUS_9
  5Q LOSS MUTATED        1
  5Q LOSS WILD-TYPE      5
D51V12, multiclass
        clus
vv       5Q LOSS MUTATED 5Q LOSS WILD-TYPE
  CLUS_1               4                 8
  CLUS_2               2                 7
  CLUS_3               3                 5
  CLUS_4               2                10
  CLUS_5               2                 7
  CLUS_6               2                 5
  CLUS_7               2                11
  CLUS_8               0                 9
  CLUS_9               1                 5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(52) Variable = 6P LOSS MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  6P LOSS MUTATED        3      0      3      4      2
  6P LOSS WILD-TYPE     28     17     46     23     21
D52V1, multiclass
        clus
vv       6P LOSS MUTATED 6P LOSS WILD-TYPE
  CLUS_1               3                28
  CLUS_2               0                17
  CLUS_3               3                46
  CLUS_4               4                23
  CLUS_5               2                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
  6P LOSS MUTATED        3      8      1
  6P LOSS WILD-TYPE     39     60     36
D52V2, multiclass
        clus
vv       6P LOSS MUTATED 6P LOSS WILD-TYPE
  CLUS_1               3                39
  CLUS_2               8                60
  CLUS_3               1                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
  6P LOSS MUTATED        6     19      9
  6P LOSS WILD-TYPE     47    202    168
D52V3, multiclass
        clus
vv       6P LOSS MUTATED 6P LOSS WILD-TYPE
  CLUS_1               6                47
  CLUS_2              19               202
  CLUS_3               9               168
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  6P LOSS MUTATED        5     10      6
  6P LOSS WILD-TYPE     80     93    100
D52V4, multiclass
        clus
vv       6P LOSS MUTATED 6P LOSS WILD-TYPE
  CLUS_1               5                80
  CLUS_2              10                93
  CLUS_3               6               100
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  6P LOSS MUTATED        6     13      6
  6P LOSS WILD-TYPE     79    132    119
D52V5, multiclass
        clus
vv       6P LOSS MUTATED 6P LOSS WILD-TYPE
  CLUS_1               6                79
  CLUS_2              13               132
  CLUS_3               6               119
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  6P LOSS MUTATED        4      1      2      5      4      4      2      1
  6P LOSS WILD-TYPE     47     32     33     34     39     82     20     19
                   vv
clus                CLUS_9
  6P LOSS MUTATED        2
  6P LOSS WILD-TYPE     24
D52V6, multiclass
        clus
vv       6P LOSS MUTATED 6P LOSS WILD-TYPE
  CLUS_1               4                47
  CLUS_2               1                32
  CLUS_3               2                33
  CLUS_4               5                34
  CLUS_5               4                39
  CLUS_6               4                82
  CLUS_7               2                20
  CLUS_8               1                19
  CLUS_9               2                24
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  6P LOSS MUTATED       10      4      7     13
  6P LOSS WILD-TYPE    117     90     90    118
D52V7, multiclass
        clus
vv       6P LOSS MUTATED 6P LOSS WILD-TYPE
  CLUS_1              10               117
  CLUS_2               4                90
  CLUS_3               7                90
  CLUS_4              13               118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  6P LOSS MUTATED        7      8      6     10      3
  6P LOSS WILD-TYPE     72    100     90    119     34
D52V8, multiclass
        clus
vv       6P LOSS MUTATED 6P LOSS WILD-TYPE
  CLUS_1               7                72
  CLUS_2               8               100
  CLUS_3               6                90
  CLUS_4              10               119
  CLUS_5               3                34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  6P LOSS MUTATED        6      4      5      5     11
  6P LOSS WILD-TYPE     54     84     66     70     93
D52V9, multiclass
        clus
vv       6P LOSS MUTATED 6P LOSS WILD-TYPE
  CLUS_1               6                54
  CLUS_2               4                84
  CLUS_3               5                66
  CLUS_4               5                70
  CLUS_5              11                93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  6P LOSS MUTATED        8      5      5      0      3      1      2      5
  6P LOSS WILD-TYPE     71     50     41     17     52     19     24     37
                   vv
clus                CLUS_9
  6P LOSS MUTATED        2
  6P LOSS WILD-TYPE     56
D52V10, multiclass
        clus
vv       6P LOSS MUTATED 6P LOSS WILD-TYPE
  CLUS_1               8                71
  CLUS_2               5                50
  CLUS_3               5                41
  CLUS_4               0                17
  CLUS_5               3                52
  CLUS_6               1                19
  CLUS_7               2                24
  CLUS_8               5                37
  CLUS_9               2                56
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  6P LOSS MUTATED        2      1      0      3      0      2
  6P LOSS WILD-TYPE     16     19     16      8     11      7
D52V11, multiclass
        clus
vv       6P LOSS MUTATED 6P LOSS WILD-TYPE
  CLUS_1               2                16
  CLUS_2               1                19
  CLUS_3               0                16
  CLUS_4               3                 8
  CLUS_5               0                11
  CLUS_6               2                 7
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  6P LOSS MUTATED        1      0      0      0      0      1      2      2
  6P LOSS WILD-TYPE     11      9      8     12      9      6     11      7
                   vv
clus                CLUS_9
  6P LOSS MUTATED        2
  6P LOSS WILD-TYPE      4
D52V12, multiclass
        clus
vv       6P LOSS MUTATED 6P LOSS WILD-TYPE
  CLUS_1               1                11
  CLUS_2               0                 9
  CLUS_3               0                 8
  CLUS_4               0                12
  CLUS_5               0                 9
  CLUS_6               1                 6
  CLUS_7               2                11
  CLUS_8               2                 7
  CLUS_9               2                 4
[1] 9 2
[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 = 6Q LOSS MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  6Q LOSS MUTATED        3      3      5      4      3
  6Q LOSS WILD-TYPE     28     14     44     23     20
D53V1, multiclass
        clus
vv       6Q LOSS MUTATED 6Q LOSS WILD-TYPE
  CLUS_1               3                28
  CLUS_2               3                14
  CLUS_3               5                44
  CLUS_4               4                23
  CLUS_5               3                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
  6Q LOSS MUTATED        5     10      3
  6Q LOSS WILD-TYPE     37     58     34
D53V2, multiclass
        clus
vv       6Q LOSS MUTATED 6Q LOSS WILD-TYPE
  CLUS_1               5                37
  CLUS_2              10                58
  CLUS_3               3                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
  6Q LOSS MUTATED        9     23     14
  6Q LOSS WILD-TYPE     44    198    163
D53V3, multiclass
        clus
vv       6Q LOSS MUTATED 6Q LOSS WILD-TYPE
  CLUS_1               9                44
  CLUS_2              23               198
  CLUS_3              14               163
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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        6     13      8
  6Q LOSS WILD-TYPE     79     90     98
D53V4, multiclass
        clus
vv       6Q LOSS MUTATED 6Q LOSS WILD-TYPE
  CLUS_1               6                79
  CLUS_2              13                90
  CLUS_3               8                98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  6Q LOSS MUTATED       10     15      8
  6Q LOSS WILD-TYPE     75    130    117
D53V5, multiclass
        clus
vv       6Q LOSS MUTATED 6Q LOSS WILD-TYPE
  CLUS_1              10                75
  CLUS_2              15               130
  CLUS_3               8               117
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  6Q LOSS MUTATED        7      2      3      5      4      4      4      2
  6Q LOSS WILD-TYPE     44     31     32     34     39     82     18     18
                   vv
clus                CLUS_9
  6Q LOSS MUTATED        2
  6Q LOSS WILD-TYPE     24
D53V6, multiclass
        clus
vv       6Q LOSS MUTATED 6Q LOSS WILD-TYPE
  CLUS_1               7                44
  CLUS_2               2                31
  CLUS_3               3                32
  CLUS_4               5                34
  CLUS_5               4                39
  CLUS_6               4                82
  CLUS_7               4                18
  CLUS_8               2                18
  CLUS_9               2                24
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger 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       11      7     10     18
  6Q LOSS WILD-TYPE    116     87     87    113
D53V7, multiclass
        clus
vv       6Q LOSS MUTATED 6Q LOSS WILD-TYPE
  CLUS_1              11               116
  CLUS_2               7                87
  CLUS_3              10                87
  CLUS_4              18               113
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  6Q LOSS MUTATED        8     11      7     17      3
  6Q LOSS WILD-TYPE     71     97     89    112     34
D53V8, multiclass
        clus
vv       6Q LOSS MUTATED 6Q LOSS WILD-TYPE
  CLUS_1               8                71
  CLUS_2              11                97
  CLUS_3               7                89
  CLUS_4              17               112
  CLUS_5               3                34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  6Q LOSS MUTATED        8      7      7      8     12
  6Q LOSS WILD-TYPE     52     81     64     67     92
D53V9, multiclass
        clus
vv       6Q LOSS MUTATED 6Q LOSS WILD-TYPE
  CLUS_1               8                52
  CLUS_2               7                81
  CLUS_3               7                64
  CLUS_4               8                67
  CLUS_5              12                92
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  6Q LOSS MUTATED       11      7      5      0      3      3      2      5
  6Q LOSS WILD-TYPE     68     48     41     17     52     17     24     37
                   vv
clus                CLUS_9
  6Q LOSS MUTATED        6
  6Q LOSS WILD-TYPE     52
D53V10, multiclass
        clus
vv       6Q LOSS MUTATED 6Q LOSS WILD-TYPE
  CLUS_1              11                68
  CLUS_2               7                48
  CLUS_3               5                41
  CLUS_4               0                17
  CLUS_5               3                52
  CLUS_6               3                17
  CLUS_7               2                24
  CLUS_8               5                37
  CLUS_9               6                52
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  6Q LOSS MUTATED        2      1      0      3      0      3
  6Q LOSS WILD-TYPE     16     19     16      8     11      6
D53V11, multiclass
        clus
vv       6Q LOSS MUTATED 6Q LOSS WILD-TYPE
  CLUS_1               2                16
  CLUS_2               1                19
  CLUS_3               0                16
  CLUS_4               3                 8
  CLUS_5               0                11
  CLUS_6               3                 6
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  6Q LOSS MUTATED        1      0      0      0      0      2      2      2
  6Q LOSS WILD-TYPE     11      9      8     12      9      5     11      7
                   vv
clus                CLUS_9
  6Q LOSS MUTATED        2
  6Q LOSS WILD-TYPE      4
D53V12, multiclass
        clus
vv       6Q LOSS MUTATED 6Q LOSS WILD-TYPE
  CLUS_1               1                11
  CLUS_2               0                 9
  CLUS_3               0                 8
  CLUS_4               0                12
  CLUS_5               0                 9
  CLUS_6               2                 5
  CLUS_7               2                11
  CLUS_8               2                 7
  CLUS_9               2                 4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(54) Variable = 7Q LOSS MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  7Q LOSS MUTATED        0      0      0      0      0
  7Q LOSS WILD-TYPE     31     17     49     27     23
D54V1, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  7Q LOSS MUTATED        0      0      0
  7Q LOSS WILD-TYPE     42     68     37
D54V2, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  7Q LOSS MUTATED        2      2      0
  7Q LOSS WILD-TYPE     51    219    177
D54V3, multiclass
        clus
vv       7Q LOSS MUTATED 7Q LOSS WILD-TYPE
  CLUS_1               2                51
  CLUS_2               2               219
  CLUS_3               0               177
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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      0
  7Q LOSS WILD-TYPE     85     99    106
D54V4, multiclass
        clus
vv       7Q LOSS MUTATED 7Q LOSS WILD-TYPE
  CLUS_1               0                85
  CLUS_2               4                99
  CLUS_3               0               106
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  7Q LOSS MUTATED        1      0      1
  7Q LOSS WILD-TYPE     84    145    124
D54V5, multiclass
[1] "Remove cluster labels:" "7Q LOSS MUTATED"       
clus
  7Q LOSS MUTATED 7Q LOSS WILD-TYPE 
                2               353 
       TCGA-3L-AA1B        TCGA-4N-A93T        TCGA-4T-AA8H        TCGA-5M-AAT5 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-5M-AAT6        TCGA-5M-AATA        TCGA-A6-2671        TCGA-A6-2672 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-A6-2676        TCGA-A6-2677        TCGA-A6-2678        TCGA-A6-2680 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-A6-2681        TCGA-A6-2683        TCGA-A6-2684        TCGA-A6-2685 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-A6-2686        TCGA-A6-3807        TCGA-A6-3809        TCGA-A6-3810 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-A6-5656        TCGA-A6-5657        TCGA-A6-5659        TCGA-A6-5660 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-A6-5661        TCGA-A6-5662        TCGA-A6-5664        TCGA-A6-5665 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-A6-5666        TCGA-A6-5667        TCGA-A6-6137        TCGA-A6-6138 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-A6-6140        TCGA-A6-6141        TCGA-A6-6142        TCGA-A6-6648 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-A6-6649        TCGA-A6-6650        TCGA-A6-6651        TCGA-A6-6652 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-A6-6653        TCGA-A6-6654        TCGA-A6-6780        TCGA-A6-6781 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-A6-6782        TCGA-A6-A566        TCGA-AA-3489        TCGA-AA-3492 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-AA-3496        TCGA-AA-3502        TCGA-AA-3506        TCGA-AA-3510 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-AA-3511        TCGA-AA-3514        TCGA-AA-3517        TCGA-AA-3519 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-AA-3520        TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3525 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-AA-3529        TCGA-AA-3530        TCGA-AA-3531        TCGA-AA-3532 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-AA-3534        TCGA-AA-3548        TCGA-AA-3552        TCGA-AA-3553 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-AA-3554        TCGA-AA-3555        TCGA-AA-3558        TCGA-AA-3560 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3655        TCGA-AA-3664 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-AA-3672        TCGA-AA-3678        TCGA-AA-3681        TCGA-AA-3688 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-AA-3695        TCGA-AA-3696        TCGA-AA-3697        TCGA-AA-3710 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-AA-3712        TCGA-AA-3713        TCGA-AA-3715        TCGA-AA-3811 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3818        TCGA-AA-3819 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-AA-3831        TCGA-AA-3833        TCGA-AA-3837        TCGA-AA-3841 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-AA-3844        TCGA-AA-3845        TCGA-AA-3848        TCGA-AA-3850 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-AA-3852        TCGA-AA-3854        TCGA-AA-3856        TCGA-AA-3864 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-AA-3866        TCGA-AA-3869        TCGA-AA-3872        TCGA-AA-3930 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-AA-3947        TCGA-AA-3950        TCGA-AA-3955        TCGA-AA-3968 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973        TCGA-AA-3975 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-AA-3982        TCGA-AA-3986        TCGA-AA-3989        TCGA-AA-A004 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-AA-A00A        TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00Q 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W        TCGA-AA-A00Z 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01C        TCGA-AA-A01D 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-AA-A01F        TCGA-AA-A01I        TCGA-AA-A01K        TCGA-AA-A01P 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-AA-A01Q        TCGA-AA-A01R        TCGA-AA-A01S        TCGA-AA-A01T 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-AA-A01V        TCGA-AA-A01X        TCGA-AA-A022        TCGA-AA-A024 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-AA-A029        TCGA-AA-A02E        TCGA-AA-A02F        TCGA-AA-A02H 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-AA-A02J        TCGA-AA-A02O        TCGA-AA-A02R        TCGA-AA-A02W 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-AA-A02Y        TCGA-AA-A03F        TCGA-AA-A03J        TCGA-AD-5900 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-AD-6548        TCGA-AD-6889        TCGA-AD-6899        TCGA-AD-6965 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-AD-A5EJ        TCGA-AM-5820        TCGA-AM-5821        TCGA-AU-6004 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-AY-5543        TCGA-AY-6196        TCGA-AY-6197        TCGA-AY-6386 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-AY-A54L        TCGA-AY-A69D        TCGA-AY-A71X        TCGA-AY-A8YK 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-AZ-4308        TCGA-AZ-4315        TCGA-AZ-4323        TCGA-AZ-4614 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-AZ-4615        TCGA-AZ-4616        TCGA-AZ-4682        TCGA-AZ-4684 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-AZ-5407        TCGA-AZ-6598        TCGA-AZ-6599        TCGA-AZ-6600 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-AZ-6601        TCGA-AZ-6603        TCGA-AZ-6605        TCGA-AZ-6606 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-AZ-6607        TCGA-AZ-6608        TCGA-CA-5254        TCGA-CA-5255 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-CA-5256        TCGA-CA-5796        TCGA-CA-5797        TCGA-CA-6715 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-CA-6716        TCGA-CA-6717        TCGA-CA-6718        TCGA-CA-6719 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-CK-5914        TCGA-CK-5916        TCGA-CK-6746        TCGA-CK-6747 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-CK-6748        TCGA-CK-6751        TCGA-CM-4743        TCGA-CM-4744 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-CM-4746        TCGA-CM-4747        TCGA-CM-4748        TCGA-CM-4750 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-CM-4752        TCGA-CM-5344        TCGA-CM-5348        TCGA-CM-5349 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-CM-5860        TCGA-CM-5861        TCGA-CM-5862        TCGA-CM-5863 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-CM-5864        TCGA-CM-5868        TCGA-CM-6161        TCGA-CM-6162 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-CM-6163        TCGA-CM-6164        TCGA-CM-6165        TCGA-CM-6166 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-CM-6167        TCGA-CM-6168        TCGA-CM-6169        TCGA-CM-6170 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-CM-6171        TCGA-CM-6172        TCGA-CM-6674        TCGA-CM-6675 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-CM-6680        TCGA-D5-5538        TCGA-D5-5539        TCGA-D5-5540 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-D5-5541        TCGA-D5-6529        TCGA-D5-6530        TCGA-D5-6531 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-D5-6532        TCGA-D5-6533        TCGA-D5-6534        TCGA-D5-6535 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-D5-6536        TCGA-D5-6537        TCGA-D5-6538        TCGA-D5-6539 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-D5-6540        TCGA-D5-6541        TCGA-D5-6898        TCGA-D5-6920 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-D5-6922        TCGA-D5-6923        TCGA-D5-6924        TCGA-D5-6926 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-D5-6927        TCGA-D5-6928        TCGA-D5-6930        TCGA-D5-6931 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-DM-A0X9        TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D4 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-DM-A1D6        TCGA-DM-A1D7        TCGA-DM-A1D8        TCGA-DM-A1D9 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-DM-A1DA        TCGA-DM-A1DB        TCGA-DM-A1HA        TCGA-DM-A1HB 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-DM-A280        TCGA-DM-A282        TCGA-DM-A288        TCGA-DM-A28A 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-DM-A28C        TCGA-DM-A28E        TCGA-DM-A28F        TCGA-DM-A28G 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-DM-A28M        TCGA-F4-6459        TCGA-F4-6460        TCGA-F4-6461 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-F4-6463        TCGA-F4-6569        TCGA-F4-6570        TCGA-F4-6703 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-F4-6704        TCGA-F4-6805        TCGA-F4-6806        TCGA-F4-6807 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-F4-6808        TCGA-F4-6809        TCGA-F4-6854        TCGA-F4-6855 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-F4-6856        TCGA-G4-6293        TCGA-G4-6294        TCGA-G4-6295 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-G4-6297        TCGA-G4-6298        TCGA-G4-6299        TCGA-G4-6302 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-G4-6303        TCGA-G4-6304        TCGA-G4-6306        TCGA-G4-6307 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-G4-6309        TCGA-G4-6310        TCGA-G4-6311        TCGA-G4-6314 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-G4-6315        TCGA-G4-6317        TCGA-G4-6320        TCGA-G4-6321 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-G4-6322        TCGA-G4-6323        TCGA-G4-6586        TCGA-G4-6588 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-G4-6625        TCGA-G4-6626        TCGA-G4-6627        TCGA-G4-6628 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-NH-A50T        TCGA-NH-A50V        TCGA-NH-A5IV        TCGA-NH-A6GA 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-NH-A6GB        TCGA-NH-A6GC        TCGA-NH-A8F7        TCGA-NH-A8F8 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-QG-A5YV        TCGA-QG-A5YW        TCGA-QG-A5YX        TCGA-QG-A5Z1 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-QG-A5Z2        TCGA-QL-A97D        TCGA-RU-A8FL        TCGA-SS-A7HO 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-T9-A92H 
"7Q LOSS WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  7Q LOSS MUTATED        0      0      0      1      1      0      0      0
  7Q LOSS WILD-TYPE     51     33     35     38     42     86     22     20
                   vv
clus                CLUS_9
  7Q LOSS MUTATED        0
  7Q LOSS WILD-TYPE     26
D54V6, multiclass
[1] "Remove cluster labels:" "7Q LOSS MUTATED"       
clus
  7Q LOSS MUTATED 7Q LOSS WILD-TYPE 
                2               353 
       TCGA-3L-AA1B        TCGA-4N-A93T        TCGA-4T-AA8H        TCGA-5M-AAT5 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-5M-AAT6        TCGA-5M-AATA        TCGA-A6-2671        TCGA-A6-2672 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-A6-2676        TCGA-A6-2677        TCGA-A6-2678        TCGA-A6-2680 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-A6-2681        TCGA-A6-2683        TCGA-A6-2684        TCGA-A6-2685 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-A6-2686        TCGA-A6-3807        TCGA-A6-3809        TCGA-A6-3810 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-A6-5656        TCGA-A6-5657        TCGA-A6-5659        TCGA-A6-5660 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-A6-5661        TCGA-A6-5662        TCGA-A6-5664        TCGA-A6-5665 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-A6-5666        TCGA-A6-5667        TCGA-A6-6137        TCGA-A6-6138 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-A6-6140        TCGA-A6-6141        TCGA-A6-6142        TCGA-A6-6648 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-A6-6649        TCGA-A6-6650        TCGA-A6-6651        TCGA-A6-6652 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-A6-6653        TCGA-A6-6654        TCGA-A6-6780        TCGA-A6-6781 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-A6-6782        TCGA-A6-A566        TCGA-AA-3489        TCGA-AA-3492 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-AA-3496        TCGA-AA-3502        TCGA-AA-3506        TCGA-AA-3510 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-AA-3511        TCGA-AA-3514        TCGA-AA-3517        TCGA-AA-3519 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-AA-3520        TCGA-AA-3521        TCGA-AA-3522        TCGA-AA-3525 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-AA-3529        TCGA-AA-3530        TCGA-AA-3531        TCGA-AA-3532 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-AA-3534        TCGA-AA-3548        TCGA-AA-3552        TCGA-AA-3553 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-AA-3554        TCGA-AA-3555        TCGA-AA-3558        TCGA-AA-3560 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-AA-3561        TCGA-AA-3562        TCGA-AA-3655        TCGA-AA-3664 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-AA-3672        TCGA-AA-3678        TCGA-AA-3681        TCGA-AA-3688 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-AA-3695        TCGA-AA-3696        TCGA-AA-3697        TCGA-AA-3710 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-AA-3712        TCGA-AA-3713        TCGA-AA-3715        TCGA-AA-3811 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-AA-3812        TCGA-AA-3814        TCGA-AA-3818        TCGA-AA-3819 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-AA-3831        TCGA-AA-3833        TCGA-AA-3837        TCGA-AA-3841 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-AA-3844        TCGA-AA-3845        TCGA-AA-3848        TCGA-AA-3850 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-AA-3852        TCGA-AA-3854        TCGA-AA-3856        TCGA-AA-3864 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-AA-3866        TCGA-AA-3869        TCGA-AA-3872        TCGA-AA-3930 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-AA-3947        TCGA-AA-3950        TCGA-AA-3955        TCGA-AA-3968 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-AA-3971        TCGA-AA-3972        TCGA-AA-3973        TCGA-AA-3975 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-AA-3982        TCGA-AA-3986        TCGA-AA-3989        TCGA-AA-A004 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-AA-A00A        TCGA-AA-A00E        TCGA-AA-A00F        TCGA-AA-A00J 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-AA-A00K        TCGA-AA-A00L        TCGA-AA-A00N        TCGA-AA-A00Q 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-AA-A00R        TCGA-AA-A00U        TCGA-AA-A00W        TCGA-AA-A00Z 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-AA-A010        TCGA-AA-A017        TCGA-AA-A01C        TCGA-AA-A01D 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-AA-A01F        TCGA-AA-A01I        TCGA-AA-A01K        TCGA-AA-A01P 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-AA-A01Q        TCGA-AA-A01R        TCGA-AA-A01S        TCGA-AA-A01T 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-AA-A01V        TCGA-AA-A01X        TCGA-AA-A022        TCGA-AA-A024 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-AA-A029        TCGA-AA-A02E        TCGA-AA-A02F        TCGA-AA-A02H 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-AA-A02J        TCGA-AA-A02O        TCGA-AA-A02R        TCGA-AA-A02W 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-AA-A02Y        TCGA-AA-A03F        TCGA-AA-A03J        TCGA-AD-5900 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-AD-6548        TCGA-AD-6889        TCGA-AD-6899        TCGA-AD-6965 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-AD-A5EJ        TCGA-AM-5820        TCGA-AM-5821        TCGA-AU-6004 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-AY-5543        TCGA-AY-6196        TCGA-AY-6197        TCGA-AY-6386 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-AY-A54L        TCGA-AY-A69D        TCGA-AY-A71X        TCGA-AY-A8YK 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-AZ-4308        TCGA-AZ-4315        TCGA-AZ-4323        TCGA-AZ-4614 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-AZ-4615        TCGA-AZ-4616        TCGA-AZ-4682        TCGA-AZ-4684 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-AZ-5407        TCGA-AZ-6598        TCGA-AZ-6599        TCGA-AZ-6600 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-AZ-6601        TCGA-AZ-6603        TCGA-AZ-6605        TCGA-AZ-6606 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-AZ-6607        TCGA-AZ-6608        TCGA-CA-5254        TCGA-CA-5255 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-CA-5256        TCGA-CA-5796        TCGA-CA-5797        TCGA-CA-6715 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-CA-6716        TCGA-CA-6717        TCGA-CA-6718        TCGA-CA-6719 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-CK-5914        TCGA-CK-5916        TCGA-CK-6746        TCGA-CK-6747 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-CK-6748        TCGA-CK-6751        TCGA-CM-4743        TCGA-CM-4744 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-CM-4746        TCGA-CM-4747        TCGA-CM-4748        TCGA-CM-4750 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-CM-4752        TCGA-CM-5344        TCGA-CM-5348        TCGA-CM-5349 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-CM-5860        TCGA-CM-5861        TCGA-CM-5862        TCGA-CM-5863 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-CM-5864        TCGA-CM-5868        TCGA-CM-6161        TCGA-CM-6162 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-CM-6163        TCGA-CM-6164        TCGA-CM-6165        TCGA-CM-6166 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-CM-6167        TCGA-CM-6168        TCGA-CM-6169        TCGA-CM-6170 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-CM-6171        TCGA-CM-6172        TCGA-CM-6674        TCGA-CM-6675 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-CM-6676        TCGA-CM-6677        TCGA-CM-6678        TCGA-CM-6679 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-CM-6680        TCGA-D5-5538        TCGA-D5-5539        TCGA-D5-5540 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-D5-5541        TCGA-D5-6529        TCGA-D5-6530        TCGA-D5-6531 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-D5-6532        TCGA-D5-6533        TCGA-D5-6534        TCGA-D5-6535 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-D5-6536        TCGA-D5-6537        TCGA-D5-6538        TCGA-D5-6539 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-D5-6540        TCGA-D5-6541        TCGA-D5-6898        TCGA-D5-6920 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-D5-6922        TCGA-D5-6923        TCGA-D5-6924        TCGA-D5-6926 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-D5-6927        TCGA-D5-6928        TCGA-D5-6930        TCGA-D5-6931 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-DM-A0X9        TCGA-DM-A0XF        TCGA-DM-A1D0        TCGA-DM-A1D4 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-DM-A1D6        TCGA-DM-A1D7        TCGA-DM-A1D8        TCGA-DM-A1D9 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-DM-A1DA        TCGA-DM-A1DB        TCGA-DM-A1HA        TCGA-DM-A1HB 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-DM-A280        TCGA-DM-A282        TCGA-DM-A288        TCGA-DM-A28A 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-DM-A28C        TCGA-DM-A28E        TCGA-DM-A28F        TCGA-DM-A28G 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-DM-A28M        TCGA-F4-6459        TCGA-F4-6460        TCGA-F4-6461 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-F4-6463        TCGA-F4-6569        TCGA-F4-6570        TCGA-F4-6703 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-F4-6704        TCGA-F4-6805        TCGA-F4-6806        TCGA-F4-6807 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-F4-6808        TCGA-F4-6809        TCGA-F4-6854        TCGA-F4-6855 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-F4-6856        TCGA-G4-6293        TCGA-G4-6294        TCGA-G4-6295 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-G4-6297        TCGA-G4-6298        TCGA-G4-6299        TCGA-G4-6302 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-G4-6303        TCGA-G4-6304        TCGA-G4-6306        TCGA-G4-6307 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-G4-6309        TCGA-G4-6310        TCGA-G4-6311        TCGA-G4-6314 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-G4-6315        TCGA-G4-6317        TCGA-G4-6320        TCGA-G4-6321 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-G4-6322        TCGA-G4-6323        TCGA-G4-6586        TCGA-G4-6588 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-G4-6625        TCGA-G4-6626        TCGA-G4-6627        TCGA-G4-6628 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-NH-A50T        TCGA-NH-A50V        TCGA-NH-A5IV        TCGA-NH-A6GA 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-NH-A6GB        TCGA-NH-A6GC        TCGA-NH-A8F7        TCGA-NH-A8F8 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-QG-A5YV        TCGA-QG-A5YW        TCGA-QG-A5YX        TCGA-QG-A5Z1 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-QG-A5Z2        TCGA-QL-A97D        TCGA-RU-A8FL        TCGA-SS-A7HO 
"7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" "7Q LOSS WILD-TYPE" 
       TCGA-T9-A92H 
"7Q LOSS WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  7Q LOSS MUTATED        2      0      1      1
  7Q LOSS WILD-TYPE    125     94     96    130
D54V7, multiclass
        clus
vv       7Q LOSS MUTATED 7Q LOSS WILD-TYPE
  CLUS_1               2               125
  CLUS_2               0                94
  CLUS_3               1                96
  CLUS_4               1               130
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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        1      2      0      1      0
  7Q LOSS WILD-TYPE     78    106     96    128     37
D54V8, multiclass
        clus
vv       7Q LOSS MUTATED 7Q LOSS WILD-TYPE
  CLUS_1               1                78
  CLUS_2               2               106
  CLUS_3               0                96
  CLUS_4               1               128
  CLUS_5               0                37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  7Q LOSS MUTATED        1      0      1      1      0
  7Q LOSS WILD-TYPE     59     88     70     74    104
D54V9, multiclass
        clus
vv       7Q LOSS MUTATED 7Q LOSS WILD-TYPE
  CLUS_1               1                59
  CLUS_2               0                88
  CLUS_3               1                70
  CLUS_4               1                74
  CLUS_5               0               104
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  7Q LOSS MUTATED        1      1      0      0      0      0      0      0
  7Q LOSS WILD-TYPE     78     54     46     17     55     20     26     42
                   vv
clus                CLUS_9
  7Q LOSS MUTATED        1
  7Q LOSS WILD-TYPE     57
D54V10, multiclass
        clus
vv       7Q LOSS MUTATED 7Q LOSS WILD-TYPE
  CLUS_1               1                78
  CLUS_2               1                54
  CLUS_3               0                46
  CLUS_4               0                17
  CLUS_5               0                55
  CLUS_6               0                20
  CLUS_7               0                26
  CLUS_8               0                42
  CLUS_9               1                57
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  7Q LOSS MUTATED        0      0      0      0      0      0
  7Q LOSS WILD-TYPE     18     20     16     11     11      9
D54V11, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  7Q LOSS MUTATED        0      0      0      0      0      0      0      0
  7Q LOSS WILD-TYPE     12      9      8     12      9      7     13      9
                   vv
clus                CLUS_9
  7Q LOSS MUTATED        0
  7Q LOSS WILD-TYPE      6
D54V12, multiclass

Clustering(55) Variable = 8P LOSS MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  8P LOSS MUTATED        2      8     20      6      9
  8P LOSS WILD-TYPE     29      9     29     21     14
D55V1, multiclass
        clus
vv       8P LOSS MUTATED 8P LOSS WILD-TYPE
  CLUS_1               2                29
  CLUS_2               8                 9
  CLUS_3              20                29
  CLUS_4               6                21
  CLUS_5               9                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
  8P LOSS MUTATED        5     25     15
  8P LOSS WILD-TYPE     37     43     22
D55V2, multiclass
        clus
vv       8P LOSS MUTATED 8P LOSS WILD-TYPE
  CLUS_1               5                37
  CLUS_2              25                43
  CLUS_3              15                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
  8P LOSS MUTATED        9    117     12
  8P LOSS WILD-TYPE     44    104    165
D55V3, multiclass
        clus
vv       8P LOSS MUTATED 8P LOSS WILD-TYPE
  CLUS_1               9                44
  CLUS_2             117               104
  CLUS_3              12               165
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       23     43     26
  8P LOSS WILD-TYPE     62     60     80
D55V4, multiclass
        clus
vv       8P LOSS MUTATED 8P LOSS WILD-TYPE
  CLUS_1              23                62
  CLUS_2              43                60
  CLUS_3              26                80
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       28     44     33
  8P LOSS WILD-TYPE     57    101     92
D55V5, multiclass
        clus
vv       8P LOSS MUTATED 8P LOSS WILD-TYPE
  CLUS_1              28                57
  CLUS_2              44               101
  CLUS_3              33                92
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  8P LOSS MUTATED       25      6     13     12     14     16      4      6
  8P LOSS WILD-TYPE     26     27     22     27     29     70     18     14
                   vv
clus                CLUS_9
  8P LOSS MUTATED        9
  8P LOSS WILD-TYPE     17
D55V6, multiclass
        clus
vv       8P LOSS MUTATED 8P LOSS WILD-TYPE
  CLUS_1              25                26
  CLUS_2               6                27
  CLUS_3              13                22
  CLUS_4              12                27
  CLUS_5              14                29
  CLUS_6              16                70
  CLUS_7               4                18
  CLUS_8               6                14
  CLUS_9               9                17
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger 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       51     15     29     43
  8P LOSS WILD-TYPE     76     79     68     88
D55V7, multiclass
        clus
vv       8P LOSS MUTATED 8P LOSS WILD-TYPE
  CLUS_1              51                76
  CLUS_2              15                79
  CLUS_3              29                68
  CLUS_4              43                88
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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       36     34     14     51      3
  8P LOSS WILD-TYPE     43     74     82     78     34
D55V8, multiclass
        clus
vv       8P LOSS MUTATED 8P LOSS WILD-TYPE
  CLUS_1              36                43
  CLUS_2              34                74
  CLUS_3              14                82
  CLUS_4              51                78
  CLUS_5               3                34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  8P LOSS MUTATED       29     13     23     26     29
  8P LOSS WILD-TYPE     31     75     48     49     75
D55V9, multiclass
        clus
vv       8P LOSS MUTATED 8P LOSS WILD-TYPE
  CLUS_1              29                31
  CLUS_2              13                75
  CLUS_3              23                48
  CLUS_4              26                49
  CLUS_5              29                75
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  8P LOSS MUTATED       26     16     15      1     22      4      6      7
  8P LOSS WILD-TYPE     53     39     31     16     33     16     20     35
                   vv
clus                CLUS_9
  8P LOSS MUTATED       23
  8P LOSS WILD-TYPE     35
D55V10, multiclass
        clus
vv       8P LOSS MUTATED 8P LOSS WILD-TYPE
  CLUS_1              26                53
  CLUS_2              16                39
  CLUS_3              15                31
  CLUS_4               1                16
  CLUS_5              22                33
  CLUS_6               4                16
  CLUS_7               6                20
  CLUS_8               7                35
  CLUS_9              23                35
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  8P LOSS MUTATED        8      7      2      4      1      7
  8P LOSS WILD-TYPE     10     13     14      7     10      2
D55V11, multiclass
        clus
vv       8P LOSS MUTATED 8P LOSS WILD-TYPE
  CLUS_1               8                10
  CLUS_2               7                13
  CLUS_3               2                14
  CLUS_4               4                 7
  CLUS_5               1                10
  CLUS_6               7                 2
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  8P LOSS MUTATED        8      1      3      4      2      4      2      3
  8P LOSS WILD-TYPE      4      8      5      8      7      3     11      6
                   vv
clus                CLUS_9
  8P LOSS MUTATED        2
  8P LOSS WILD-TYPE      4
D55V12, multiclass
        clus
vv       8P LOSS MUTATED 8P LOSS WILD-TYPE
  CLUS_1               8                 4
  CLUS_2               1                 8
  CLUS_3               3                 5
  CLUS_4               4                 8
  CLUS_5               2                 7
  CLUS_6               4                 3
  CLUS_7               2                11
  CLUS_8               3                 6
  CLUS_9               2                 4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(56) Variable = 8Q LOSS MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  8Q LOSS MUTATED        0      2      4      1      1
  8Q LOSS WILD-TYPE     31     15     45     26     22
D56V1, multiclass
        clus
vv       8Q LOSS MUTATED 8Q LOSS WILD-TYPE
  CLUS_1               0                31
  CLUS_2               2                15
  CLUS_3               4                45
  CLUS_4               1                26
  CLUS_5               1                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        1      6      1
  8Q LOSS WILD-TYPE     41     62     36
D56V2, multiclass
        clus
vv       8Q LOSS MUTATED 8Q LOSS WILD-TYPE
  CLUS_1               1                41
  CLUS_2               6                62
  CLUS_3               1                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
  8Q LOSS MUTATED        4     21      1
  8Q LOSS WILD-TYPE     49    200    176
D56V3, multiclass
        clus
vv       8Q LOSS MUTATED 8Q LOSS WILD-TYPE
  CLUS_1               4                49
  CLUS_2              21               200
  CLUS_3               1               176
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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        7      6      5
  8Q LOSS WILD-TYPE     78     97    101
D56V4, multiclass
        clus
vv       8Q LOSS MUTATED 8Q LOSS WILD-TYPE
  CLUS_1               7                78
  CLUS_2               6                97
  CLUS_3               5               101
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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      9      5
  8Q LOSS WILD-TYPE     79    136    120
D56V5, multiclass
        clus
vv       8Q LOSS MUTATED 8Q LOSS WILD-TYPE
  CLUS_1               6                79
  CLUS_2               9               136
  CLUS_3               5               120
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  8Q LOSS MUTATED        6      0      4      2      3      4      0      0
  8Q LOSS WILD-TYPE     45     33     31     37     40     82     22     20
                   vv
clus                CLUS_9
  8Q LOSS MUTATED        1
  8Q LOSS WILD-TYPE     25
D56V6, multiclass
        clus
vv       8Q LOSS MUTATED 8Q LOSS WILD-TYPE
  CLUS_1               6                45
  CLUS_2               0                33
  CLUS_3               4                31
  CLUS_4               2                37
  CLUS_5               3                40
  CLUS_6               4                82
  CLUS_7               0                22
  CLUS_8               0                20
  CLUS_9               1                25
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger 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        6      5      8      7
  8Q LOSS WILD-TYPE    121     89     89    124
D56V7, multiclass
        clus
vv       8Q LOSS MUTATED 8Q LOSS WILD-TYPE
  CLUS_1               6               121
  CLUS_2               5                89
  CLUS_3               8                89
  CLUS_4               7               124
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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        7      5      4      9      1
  8Q LOSS WILD-TYPE     72    103     92    120     36
D56V8, multiclass
        clus
vv       8Q LOSS MUTATED 8Q LOSS WILD-TYPE
  CLUS_1               7                72
  CLUS_2               5               103
  CLUS_3               4                92
  CLUS_4               9               120
  CLUS_5               1                36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  8Q LOSS MUTATED        4      2      6      5      6
  8Q LOSS WILD-TYPE     56     86     65     70     98
D56V9, multiclass
        clus
vv       8Q LOSS MUTATED 8Q LOSS WILD-TYPE
  CLUS_1               4                56
  CLUS_2               2                86
  CLUS_3               6                65
  CLUS_4               5                70
  CLUS_5               6                98
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  8Q LOSS MUTATED        9      2      3      0      3      0      1      1
  8Q LOSS WILD-TYPE     70     53     43     17     52     20     25     41
                   vv
clus                CLUS_9
  8Q LOSS MUTATED        4
  8Q LOSS WILD-TYPE     54
D56V10, multiclass
        clus
vv       8Q LOSS MUTATED 8Q LOSS WILD-TYPE
  CLUS_1               9                70
  CLUS_2               2                53
  CLUS_3               3                43
  CLUS_4               0                17
  CLUS_5               3                52
  CLUS_6               0                20
  CLUS_7               1                25
  CLUS_8               1                41
  CLUS_9               4                54
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  8Q LOSS MUTATED        1      3      1      0      0      5
  8Q LOSS WILD-TYPE     17     17     15     11     11      4
D56V11, multiclass
        clus
vv       8Q LOSS MUTATED 8Q LOSS WILD-TYPE
  CLUS_1               1                17
  CLUS_2               3                17
  CLUS_3               1                15
  CLUS_4               0                11
  CLUS_5               0                11
  CLUS_6               5                 4
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  8Q LOSS MUTATED        6      0      0      0      1      1      1      0
  8Q LOSS WILD-TYPE      6      9      8     12      8      6     12      9
                   vv
clus                CLUS_9
  8Q LOSS MUTATED        1
  8Q LOSS WILD-TYPE      5
D56V12, multiclass
        clus
vv       8Q LOSS MUTATED 8Q LOSS WILD-TYPE
  CLUS_1               6                 6
  CLUS_2               0                 9
  CLUS_3               0                 8
  CLUS_4               0                12
  CLUS_5               1                 8
  CLUS_6               1                 6
  CLUS_7               1                12
  CLUS_8               0                 9
  CLUS_9               1                 5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(57) Variable = 9P LOSS MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  9P LOSS MUTATED        0      4      7      1      3
  9P LOSS WILD-TYPE     31     13     42     26     20
D57V1, multiclass
        clus
vv       9P LOSS MUTATED 9P LOSS WILD-TYPE
  CLUS_1               0                31
  CLUS_2               4                13
  CLUS_3               7                42
  CLUS_4               1                26
  CLUS_5               3                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
  9P LOSS MUTATED        0      9      6
  9P LOSS WILD-TYPE     42     59     31
D57V2, multiclass
        clus
vv       9P LOSS MUTATED 9P LOSS WILD-TYPE
  CLUS_1               0                42
  CLUS_2               9                59
  CLUS_3               6                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
  9P LOSS MUTATED        7     41      6
  9P LOSS WILD-TYPE     46    180    171
D57V3, multiclass
        clus
vv       9P LOSS MUTATED 9P LOSS WILD-TYPE
  CLUS_1               7                46
  CLUS_2              41               180
  CLUS_3               6               171
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       11     21      7
  9P LOSS WILD-TYPE     74     82     99
D57V4, multiclass
        clus
vv       9P LOSS MUTATED 9P LOSS WILD-TYPE
  CLUS_1              11                74
  CLUS_2              21                82
  CLUS_3               7                99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       10     17     15
  9P LOSS WILD-TYPE     75    128    110
D57V5, multiclass
        clus
vv       9P LOSS MUTATED 9P LOSS WILD-TYPE
  CLUS_1              10                75
  CLUS_2              17               128
  CLUS_3              15               110
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  9P LOSS MUTATED        9      2      6      2      6      7      1      4
  9P LOSS WILD-TYPE     42     31     29     37     37     79     21     16
                   vv
clus                CLUS_9
  9P LOSS MUTATED        5
  9P LOSS WILD-TYPE     21
D57V6, multiclass
        clus
vv       9P LOSS MUTATED 9P LOSS WILD-TYPE
  CLUS_1               9                42
  CLUS_2               2                31
  CLUS_3               6                29
  CLUS_4               2                37
  CLUS_5               6                37
  CLUS_6               7                79
  CLUS_7               1                21
  CLUS_8               4                16
  CLUS_9               5                21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger 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       26      2     15     11
  9P LOSS WILD-TYPE    101     92     82    120
D57V7, multiclass
        clus
vv       9P LOSS MUTATED 9P LOSS WILD-TYPE
  CLUS_1              26               101
  CLUS_2               2                92
  CLUS_3              15                82
  CLUS_4              11               120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  9P LOSS MUTATED       16     18      4     16      0
  9P LOSS WILD-TYPE     63     90     92    113     37
D57V8, multiclass
        clus
vv       9P LOSS MUTATED 9P LOSS WILD-TYPE
  CLUS_1              16                63
  CLUS_2              18                90
  CLUS_3               4                92
  CLUS_4              16               113
  CLUS_5               0                37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  9P LOSS MUTATED        9      6     10     16      5
  9P LOSS WILD-TYPE     51     82     61     59     99
D57V9, multiclass
        clus
vv       9P LOSS MUTATED 9P LOSS WILD-TYPE
  CLUS_1               9                51
  CLUS_2               6                82
  CLUS_3              10                61
  CLUS_4              16                59
  CLUS_5               5                99
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  9P LOSS MUTATED       13      6      7      0      8      2      1      1
  9P LOSS WILD-TYPE     66     49     39     17     47     18     25     41
                   vv
clus                CLUS_9
  9P LOSS MUTATED        8
  9P LOSS WILD-TYPE     50
D57V10, multiclass
        clus
vv       9P LOSS MUTATED 9P LOSS WILD-TYPE
  CLUS_1              13                66
  CLUS_2               6                49
  CLUS_3               7                39
  CLUS_4               0                17
  CLUS_5               8                47
  CLUS_6               2                18
  CLUS_7               1                25
  CLUS_8               1                41
  CLUS_9               8                50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  9P LOSS MUTATED        5      4      1      3      0      3
  9P LOSS WILD-TYPE     13     16     15      8     11      6
D57V11, multiclass
        clus
vv       9P LOSS MUTATED 9P LOSS WILD-TYPE
  CLUS_1               5                13
  CLUS_2               4                16
  CLUS_3               1                15
  CLUS_4               3                 8
  CLUS_5               0                11
  CLUS_6               3                 6
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  9P LOSS MUTATED        3      1      1      1      0      2      2      4
  9P LOSS WILD-TYPE      9      8      7     11      9      5     11      5
                   vv
clus                CLUS_9
  9P LOSS MUTATED        2
  9P LOSS WILD-TYPE      4
D57V12, multiclass
        clus
vv       9P LOSS MUTATED 9P LOSS WILD-TYPE
  CLUS_1               3                 9
  CLUS_2               1                 8
  CLUS_3               1                 7
  CLUS_4               1                11
  CLUS_5               0                 9
  CLUS_6               2                 5
  CLUS_7               2                11
  CLUS_8               4                 5
  CLUS_9               2                 4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(58) Variable = 9Q LOSS MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  9Q LOSS MUTATED        0      5      6      0      4
  9Q LOSS WILD-TYPE     31     12     43     27     19
D58V1, multiclass
        clus
vv       9Q LOSS MUTATED 9Q LOSS WILD-TYPE
  CLUS_1               0                31
  CLUS_2               5                12
  CLUS_3               6                43
  CLUS_4               0                27
  CLUS_5               4                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
  9Q LOSS MUTATED        1      7      7
  9Q LOSS WILD-TYPE     41     61     30
D58V2, multiclass
        clus
vv       9Q LOSS MUTATED 9Q LOSS WILD-TYPE
  CLUS_1               1                41
  CLUS_2               7                61
  CLUS_3               7                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
  9Q LOSS MUTATED        7     42      5
  9Q LOSS WILD-TYPE     46    179    172
D58V3, multiclass
        clus
vv       9Q LOSS MUTATED 9Q LOSS WILD-TYPE
  CLUS_1               7                46
  CLUS_2              42               179
  CLUS_3               5               172
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       11     22      6
  9Q LOSS WILD-TYPE     74     81    100
D58V4, multiclass
        clus
vv       9Q LOSS MUTATED 9Q LOSS WILD-TYPE
  CLUS_1              11                74
  CLUS_2              22                81
  CLUS_3               6               100
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  9Q LOSS MUTATED        9     17     17
  9Q LOSS WILD-TYPE     76    128    108
D58V5, multiclass
        clus
vv       9Q LOSS MUTATED 9Q LOSS WILD-TYPE
  CLUS_1               9                76
  CLUS_2              17               128
  CLUS_3              17               108
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  9Q LOSS MUTATED        9      1      6      2      6      9      1      4
  9Q LOSS WILD-TYPE     42     32     29     37     37     77     21     16
                   vv
clus                CLUS_9
  9Q LOSS MUTATED        5
  9Q LOSS WILD-TYPE     21
D58V6, multiclass
        clus
vv       9Q LOSS MUTATED 9Q LOSS WILD-TYPE
  CLUS_1               9                42
  CLUS_2               1                32
  CLUS_3               6                29
  CLUS_4               2                37
  CLUS_5               6                37
  CLUS_6               9                77
  CLUS_7               1                21
  CLUS_8               4                16
  CLUS_9               5                21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger 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       25      2     16     11
  9Q LOSS WILD-TYPE    102     92     81    120
D58V7, multiclass
        clus
vv       9Q LOSS MUTATED 9Q LOSS WILD-TYPE
  CLUS_1              25               102
  CLUS_2               2                92
  CLUS_3              16                81
  CLUS_4              11               120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  9Q LOSS MUTATED       18     16      4     15      1
  9Q LOSS WILD-TYPE     61     92     92    114     36
D58V8, multiclass
        clus
vv       9Q LOSS MUTATED 9Q LOSS WILD-TYPE
  CLUS_1              18                61
  CLUS_2              16                92
  CLUS_3               4                92
  CLUS_4              15               114
  CLUS_5               1                36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  9Q LOSS MUTATED        8      5     12     15      6
  9Q LOSS WILD-TYPE     52     83     59     60     98
D58V9, multiclass
        clus
vv       9Q LOSS MUTATED 9Q LOSS WILD-TYPE
  CLUS_1               8                52
  CLUS_2               5                83
  CLUS_3              12                59
  CLUS_4              15                60
  CLUS_5               6                98
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  9Q LOSS MUTATED       11      7      7      0      9      2      1      1
  9Q LOSS WILD-TYPE     68     48     39     17     46     18     25     41
                   vv
clus                CLUS_9
  9Q LOSS MUTATED        8
  9Q LOSS WILD-TYPE     50
D58V10, multiclass
        clus
vv       9Q LOSS MUTATED 9Q LOSS WILD-TYPE
  CLUS_1              11                68
  CLUS_2               7                48
  CLUS_3               7                39
  CLUS_4               0                17
  CLUS_5               9                46
  CLUS_6               2                18
  CLUS_7               1                25
  CLUS_8               1                41
  CLUS_9               8                50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  9Q LOSS MUTATED        5      3      1      5      0      3
  9Q LOSS WILD-TYPE     13     17     15      6     11      6
D58V11, multiclass
        clus
vv       9Q LOSS MUTATED 9Q LOSS WILD-TYPE
  CLUS_1               5                13
  CLUS_2               3                17
  CLUS_3               1                15
  CLUS_4               5                 6
  CLUS_5               0                11
  CLUS_6               3                 6
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  9Q LOSS MUTATED        3      1      3      1      0      2      2      4
  9Q LOSS WILD-TYPE      9      8      5     11      9      5     11      5
                   vv
clus                CLUS_9
  9Q LOSS MUTATED        1
  9Q LOSS WILD-TYPE      5
D58V12, multiclass
        clus
vv       9Q LOSS MUTATED 9Q LOSS WILD-TYPE
  CLUS_1               3                 9
  CLUS_2               1                 8
  CLUS_3               3                 5
  CLUS_4               1                11
  CLUS_5               0                 9
  CLUS_6               2                 5
  CLUS_7               2                11
  CLUS_8               4                 5
  CLUS_9               1                 5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(59) Variable = 10P LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  10P LOSS MUTATED        0      3      6      0      7
  10P LOSS WILD-TYPE     31     14     43     27     16
D59V1, multiclass
        clus
vv       10P LOSS MUTATED 10P LOSS WILD-TYPE
  CLUS_1                0                 31
  CLUS_2                3                 14
  CLUS_3                6                 43
  CLUS_4                0                 27
  CLUS_5                7                 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
  10P LOSS MUTATED        1      8      7
  10P LOSS WILD-TYPE     41     60     30
D59V2, multiclass
        clus
vv       10P LOSS MUTATED 10P LOSS WILD-TYPE
  CLUS_1                1                 41
  CLUS_2                8                 60
  CLUS_3                7                 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
  10P LOSS MUTATED       13     51      4
  10P LOSS WILD-TYPE     40    170    173
D59V3, multiclass
        clus
vv       10P LOSS MUTATED 10P LOSS WILD-TYPE
  CLUS_1               13                 40
  CLUS_2               51                170
  CLUS_3                4                173
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  10P LOSS MUTATED       11     29     11
  10P LOSS WILD-TYPE     74     74     95
D59V4, multiclass
        clus
vv       10P LOSS MUTATED 10P LOSS WILD-TYPE
  CLUS_1               11                 74
  CLUS_2               29                 74
  CLUS_3               11                 95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  10P LOSS MUTATED       15     24     17
  10P LOSS WILD-TYPE     70    121    108
D59V5, multiclass
        clus
vv       10P LOSS MUTATED 10P LOSS WILD-TYPE
  CLUS_1               15                 70
  CLUS_2               24                121
  CLUS_3               17                108
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  10P LOSS MUTATED       11      2      6      6      7     10      3      4
  10P LOSS WILD-TYPE     40     31     29     33     36     76     19     16
                    vv
clus                 CLUS_9
  10P LOSS MUTATED        7
  10P LOSS WILD-TYPE     19
D59V6, multiclass
        clus
vv       10P LOSS MUTATED 10P LOSS WILD-TYPE
  CLUS_1               11                 40
  CLUS_2                2                 31
  CLUS_3                6                 29
  CLUS_4                6                 33
  CLUS_5                7                 36
  CLUS_6               10                 76
  CLUS_7                3                 19
  CLUS_8                4                 16
  CLUS_9                7                 19
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  10P LOSS MUTATED       32      4     15     16
  10P LOSS WILD-TYPE     95     90     82    115
D59V7, multiclass
        clus
vv       10P LOSS MUTATED 10P LOSS WILD-TYPE
  CLUS_1               32                 95
  CLUS_2                4                 90
  CLUS_3               15                 82
  CLUS_4               16                115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  10P LOSS MUTATED       22     18      7     20      0
  10P LOSS WILD-TYPE     57     90     89    109     37
D59V8, multiclass
        clus
vv       10P LOSS MUTATED 10P LOSS WILD-TYPE
  CLUS_1               22                 57
  CLUS_2               18                 90
  CLUS_3                7                 89
  CLUS_4               20                109
  CLUS_5                0                 37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  10P LOSS MUTATED       11     11     14     13     10
  10P LOSS WILD-TYPE     49     77     57     62     94
D59V9, multiclass
        clus
vv       10P LOSS MUTATED 10P LOSS WILD-TYPE
  CLUS_1               11                 49
  CLUS_2               11                 77
  CLUS_3               14                 57
  CLUS_4               13                 62
  CLUS_5               10                 94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  10P LOSS MUTATED       13     13      8      0     10      1      2      3
  10P LOSS WILD-TYPE     66     42     38     17     45     19     24     39
                    vv
clus                 CLUS_9
  10P LOSS MUTATED        9
  10P LOSS WILD-TYPE     49
D59V10, multiclass
        clus
vv       10P LOSS MUTATED 10P LOSS WILD-TYPE
  CLUS_1               13                 66
  CLUS_2               13                 42
  CLUS_3                8                 38
  CLUS_4                0                 17
  CLUS_5               10                 45
  CLUS_6                1                 19
  CLUS_7                2                 24
  CLUS_8                3                 39
  CLUS_9                9                 49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  10P LOSS MUTATED        1      6      3      2      0      2
  10P LOSS WILD-TYPE     17     14     13      9     11      7
D59V11, multiclass
        clus
vv       10P LOSS MUTATED 10P LOSS WILD-TYPE
  CLUS_1                1                 17
  CLUS_2                6                 14
  CLUS_3                3                 13
  CLUS_4                2                  9
  CLUS_5                0                 11
  CLUS_6                2                  7
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  10P LOSS MUTATED        4      1      4      0      2      1      0      2
  10P LOSS WILD-TYPE      8      8      4     12      7      6     13      7
                    vv
clus                 CLUS_9
  10P LOSS MUTATED        0
  10P LOSS WILD-TYPE      6
D59V12, multiclass
        clus
vv       10P LOSS MUTATED 10P LOSS WILD-TYPE
  CLUS_1                4                  8
  CLUS_2                1                  8
  CLUS_3                4                  4
  CLUS_4                0                 12
  CLUS_5                2                  7
  CLUS_6                1                  6
  CLUS_7                0                 13
  CLUS_8                2                  7
  CLUS_9                0                  6
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(60) Variable = 10Q LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  10Q LOSS MUTATED        0      4      8      0      7
  10Q LOSS WILD-TYPE     31     13     41     27     16
D60V1, multiclass
        clus
vv       10Q LOSS MUTATED 10Q LOSS WILD-TYPE
  CLUS_1                0                 31
  CLUS_2                4                 13
  CLUS_3                8                 41
  CLUS_4                0                 27
  CLUS_5                7                 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
  10Q LOSS MUTATED        1     10      8
  10Q LOSS WILD-TYPE     41     58     29
D60V2, multiclass
        clus
vv       10Q LOSS MUTATED 10Q LOSS WILD-TYPE
  CLUS_1                1                 41
  CLUS_2               10                 58
  CLUS_3                8                 29
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  10Q LOSS MUTATED       11     58      4
  10Q LOSS WILD-TYPE     42    163    173
D60V3, multiclass
        clus
vv       10Q LOSS MUTATED 10Q LOSS WILD-TYPE
  CLUS_1               11                 42
  CLUS_2               58                163
  CLUS_3                4                173
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  10Q LOSS MUTATED       11     30     12
  10Q LOSS WILD-TYPE     74     73     94
D60V4, multiclass
        clus
vv       10Q LOSS MUTATED 10Q LOSS WILD-TYPE
  CLUS_1               11                 74
  CLUS_2               30                 73
  CLUS_3               12                 94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  10Q LOSS MUTATED       18     23     18
  10Q LOSS WILD-TYPE     67    122    107
D60V5, multiclass
        clus
vv       10Q LOSS MUTATED 10Q LOSS WILD-TYPE
  CLUS_1               18                 67
  CLUS_2               23                122
  CLUS_3               18                107
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  10Q LOSS MUTATED       14      2      7      6      7     10      3      3
  10Q LOSS WILD-TYPE     37     31     28     33     36     76     19     17
                    vv
clus                 CLUS_9
  10Q LOSS MUTATED        7
  10Q LOSS WILD-TYPE     19
D60V6, multiclass
        clus
vv       10Q LOSS MUTATED 10Q LOSS WILD-TYPE
  CLUS_1               14                 37
  CLUS_2                2                 31
  CLUS_3                7                 28
  CLUS_4                6                 33
  CLUS_5                7                 36
  CLUS_6               10                 76
  CLUS_7                3                 19
  CLUS_8                3                 17
  CLUS_9                7                 19
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  10Q LOSS MUTATED       34      4     15     19
  10Q LOSS WILD-TYPE     93     90     82    112
D60V7, multiclass
        clus
vv       10Q LOSS MUTATED 10Q LOSS WILD-TYPE
  CLUS_1               34                 93
  CLUS_2                4                 90
  CLUS_3               15                 82
  CLUS_4               19                112
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  10Q LOSS MUTATED       24     19      5     24      0
  10Q LOSS WILD-TYPE     55     89     91    105     37
D60V8, multiclass
        clus
vv       10Q LOSS MUTATED 10Q LOSS WILD-TYPE
  CLUS_1               24                 55
  CLUS_2               19                 89
  CLUS_3                5                 91
  CLUS_4               24                105
  CLUS_5                0                 37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  10Q LOSS MUTATED       14      9     16     13     11
  10Q LOSS WILD-TYPE     46     79     55     62     93
D60V9, multiclass
        clus
vv       10Q LOSS MUTATED 10Q LOSS WILD-TYPE
  CLUS_1               14                 46
  CLUS_2                9                 79
  CLUS_3               16                 55
  CLUS_4               13                 62
  CLUS_5               11                 93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  10Q LOSS MUTATED       12     13      7      0     13      2      3      4
  10Q LOSS WILD-TYPE     67     42     39     17     42     18     23     38
                    vv
clus                 CLUS_9
  10Q LOSS MUTATED        9
  10Q LOSS WILD-TYPE     49
D60V10, multiclass
        clus
vv       10Q LOSS MUTATED 10Q LOSS WILD-TYPE
  CLUS_1               12                 67
  CLUS_2               13                 42
  CLUS_3                7                 39
  CLUS_4                0                 17
  CLUS_5               13                 42
  CLUS_6                2                 18
  CLUS_7                3                 23
  CLUS_8                4                 38
  CLUS_9                9                 49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  10Q LOSS MUTATED        2      6      3      1      0      3
  10Q LOSS WILD-TYPE     16     14     13     10     11      6
D60V11, multiclass
        clus
vv       10Q LOSS MUTATED 10Q LOSS WILD-TYPE
  CLUS_1                2                 16
  CLUS_2                6                 14
  CLUS_3                3                 13
  CLUS_4                1                 10
  CLUS_5                0                 11
  CLUS_6                3                  6
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  10Q LOSS MUTATED        4      1      3      0      2      2      0      2
  10Q LOSS WILD-TYPE      8      8      5     12      7      5     13      7
                    vv
clus                 CLUS_9
  10Q LOSS MUTATED        1
  10Q LOSS WILD-TYPE      5
D60V12, multiclass
        clus
vv       10Q LOSS MUTATED 10Q LOSS WILD-TYPE
  CLUS_1                4                  8
  CLUS_2                1                  8
  CLUS_3                3                  5
  CLUS_4                0                 12
  CLUS_5                2                  7
  CLUS_6                2                  5
  CLUS_7                0                 13
  CLUS_8                2                  7
  CLUS_9                1                  5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(61) Variable = 11P LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  11P LOSS MUTATED        1      4      8      1      4
  11P LOSS WILD-TYPE     30     13     41     26     19
D61V1, multiclass
        clus
vv       11P LOSS MUTATED 11P LOSS WILD-TYPE
  CLUS_1                1                 30
  CLUS_2                4                 13
  CLUS_3                8                 41
  CLUS_4                1                 26
  CLUS_5                4                 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
  11P LOSS MUTATED        1     13      4
  11P LOSS WILD-TYPE     41     55     33
D61V2, multiclass
        clus
vv       11P LOSS MUTATED 11P LOSS WILD-TYPE
  CLUS_1                1                 41
  CLUS_2               13                 55
  CLUS_3                4                 33
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  11P LOSS MUTATED        9     32     10
  11P LOSS WILD-TYPE     44    189    167
D61V3, multiclass
        clus
vv       11P LOSS MUTATED 11P LOSS WILD-TYPE
  CLUS_1                9                 44
  CLUS_2               32                189
  CLUS_3               10                167
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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        9     14      9
  11P LOSS WILD-TYPE     76     89     97
D61V4, multiclass
        clus
vv       11P LOSS MUTATED 11P LOSS WILD-TYPE
  CLUS_1                9                 76
  CLUS_2               14                 89
  CLUS_3                9                 97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       10     15     11
  11P LOSS WILD-TYPE     75    130    114
D61V5, multiclass
        clus
vv       11P LOSS MUTATED 11P LOSS WILD-TYPE
  CLUS_1               10                 75
  CLUS_2               15                130
  CLUS_3               11                114
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  11P LOSS MUTATED        6      4      4      4      3      9      1      1
  11P LOSS WILD-TYPE     45     29     31     35     40     77     21     19
                    vv
clus                 CLUS_9
  11P LOSS MUTATED        4
  11P LOSS WILD-TYPE     22
D61V6, multiclass
        clus
vv       11P LOSS MUTATED 11P LOSS WILD-TYPE
  CLUS_1                6                 45
  CLUS_2                4                 29
  CLUS_3                4                 31
  CLUS_4                4                 35
  CLUS_5                3                 40
  CLUS_6                9                 77
  CLUS_7                1                 21
  CLUS_8                1                 19
  CLUS_9                4                 22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger 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       18      5     10     18
  11P LOSS WILD-TYPE    109     89     87    113
D61V7, multiclass
        clus
vv       11P LOSS MUTATED 11P LOSS WILD-TYPE
  CLUS_1               18                109
  CLUS_2                5                 89
  CLUS_3               10                 87
  CLUS_4               18                113
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  11P LOSS MUTATED       10     16      5     19      1
  11P LOSS WILD-TYPE     69     92     91    110     36
D61V8, multiclass
        clus
vv       11P LOSS MUTATED 11P LOSS WILD-TYPE
  CLUS_1               10                 69
  CLUS_2               16                 92
  CLUS_3                5                 91
  CLUS_4               19                110
  CLUS_5                1                 36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  11P LOSS MUTATED       13      6      8     14      4
  11P LOSS WILD-TYPE     47     82     63     61    100
D61V9, multiclass
        clus
vv       11P LOSS MUTATED 11P LOSS WILD-TYPE
  CLUS_1               13                 47
  CLUS_2                6                 82
  CLUS_3                8                 63
  CLUS_4               14                 61
  CLUS_5                4                100
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  11P LOSS MUTATED        9      4      6      1      6      2      1      2
  11P LOSS WILD-TYPE     70     51     40     16     49     18     25     40
                    vv
clus                 CLUS_9
  11P LOSS MUTATED       14
  11P LOSS WILD-TYPE     44
D61V10, multiclass
        clus
vv       11P LOSS MUTATED 11P LOSS WILD-TYPE
  CLUS_1                9                 70
  CLUS_2                4                 51
  CLUS_3                6                 40
  CLUS_4                1                 16
  CLUS_5                6                 49
  CLUS_6                2                 18
  CLUS_7                1                 25
  CLUS_8                2                 40
  CLUS_9               14                 44
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  11P LOSS MUTATED        2      3      2      3      0      0
  11P LOSS WILD-TYPE     16     17     14      8     11      9
D61V11, multiclass
        clus
vv       11P LOSS MUTATED 11P LOSS WILD-TYPE
  CLUS_1                2                 16
  CLUS_2                3                 17
  CLUS_3                2                 14
  CLUS_4                3                  8
  CLUS_5                0                 11
  CLUS_6                0                  9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  11P LOSS MUTATED        1      1      0      1      1      1      3      1
  11P LOSS WILD-TYPE     11      8      8     11      8      6     10      8
                    vv
clus                 CLUS_9
  11P LOSS MUTATED        1
  11P LOSS WILD-TYPE      5
D61V12, multiclass
        clus
vv       11P LOSS MUTATED 11P LOSS WILD-TYPE
  CLUS_1                1                 11
  CLUS_2                1                  8
  CLUS_3                0                  8
  CLUS_4                1                 11
  CLUS_5                1                  8
  CLUS_6                1                  6
  CLUS_7                3                 10
  CLUS_8                1                  8
  CLUS_9                1                  5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(62) Variable = 11Q LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  11Q LOSS MUTATED        0      4     11      1      4
  11Q LOSS WILD-TYPE     31     13     38     26     19
D62V1, multiclass
        clus
vv       11Q LOSS MUTATED 11Q LOSS WILD-TYPE
  CLUS_1                0                 31
  CLUS_2                4                 13
  CLUS_3               11                 38
  CLUS_4                1                 26
  CLUS_5                4                 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
  11Q LOSS MUTATED        0     16      4
  11Q LOSS WILD-TYPE     42     52     33
D62V2, multiclass
        clus
vv       11Q LOSS MUTATED 11Q LOSS WILD-TYPE
  CLUS_1                0                 42
  CLUS_2               16                 52
  CLUS_3                4                 33
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  11Q LOSS MUTATED        9     44     10
  11Q LOSS WILD-TYPE     44    177    167
D62V3, multiclass
        clus
vv       11Q LOSS MUTATED 11Q LOSS WILD-TYPE
  CLUS_1                9                 44
  CLUS_2               44                177
  CLUS_3               10                167
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       12     20     10
  11Q LOSS WILD-TYPE     73     83     96
D62V4, multiclass
        clus
vv       11Q LOSS MUTATED 11Q LOSS WILD-TYPE
  CLUS_1               12                 73
  CLUS_2               20                 83
  CLUS_3               10                 96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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     20     14
  11Q LOSS WILD-TYPE     71    125    111
D62V5, multiclass
        clus
vv       11Q LOSS MUTATED 11Q LOSS WILD-TYPE
  CLUS_1               14                 71
  CLUS_2               20                125
  CLUS_3               14                111
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  11Q LOSS MUTATED        9      6      5      4      4     10      3      2
  11Q LOSS WILD-TYPE     42     27     30     35     39     76     19     18
                    vv
clus                 CLUS_9
  11Q LOSS MUTATED        5
  11Q LOSS WILD-TYPE     21
D62V6, multiclass
        clus
vv       11Q LOSS MUTATED 11Q LOSS WILD-TYPE
  CLUS_1                9                 42
  CLUS_2                6                 27
  CLUS_3                5                 30
  CLUS_4                4                 35
  CLUS_5                4                 39
  CLUS_6               10                 76
  CLUS_7                3                 19
  CLUS_8                2                 18
  CLUS_9                5                 21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger 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       19      8     15     21
  11Q LOSS WILD-TYPE    108     86     82    110
D62V7, multiclass
        clus
vv       11Q LOSS MUTATED 11Q LOSS WILD-TYPE
  CLUS_1               19                108
  CLUS_2                8                 86
  CLUS_3               15                 82
  CLUS_4               21                110
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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       16     16      7     24      0
  11Q LOSS WILD-TYPE     63     92     89    105     37
D62V8, multiclass
        clus
vv       11Q LOSS MUTATED 11Q LOSS WILD-TYPE
  CLUS_1               16                 63
  CLUS_2               16                 92
  CLUS_3                7                 89
  CLUS_4               24                105
  CLUS_5                0                 37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  11Q LOSS MUTATED       16      8     10     17      5
  11Q LOSS WILD-TYPE     44     80     61     58     99
D62V9, multiclass
        clus
vv       11Q LOSS MUTATED 11Q LOSS WILD-TYPE
  CLUS_1               16                 44
  CLUS_2                8                 80
  CLUS_3               10                 61
  CLUS_4               17                 58
  CLUS_5                5                 99
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  11Q LOSS MUTATED       12      8      7      1      7      2      2      2
  11Q LOSS WILD-TYPE     67     47     39     16     48     18     24     40
                    vv
clus                 CLUS_9
  11Q LOSS MUTATED       15
  11Q LOSS WILD-TYPE     43
D62V10, multiclass
        clus
vv       11Q LOSS MUTATED 11Q LOSS WILD-TYPE
  CLUS_1               12                 67
  CLUS_2                8                 47
  CLUS_3                7                 39
  CLUS_4                1                 16
  CLUS_5                7                 48
  CLUS_6                2                 18
  CLUS_7                2                 24
  CLUS_8                2                 40
  CLUS_9               15                 43
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  11Q LOSS MUTATED        3      4      2      5      0      2
  11Q LOSS WILD-TYPE     15     16     14      6     11      7
D62V11, multiclass
        clus
vv       11Q LOSS MUTATED 11Q LOSS WILD-TYPE
  CLUS_1                3                 15
  CLUS_2                4                 16
  CLUS_3                2                 14
  CLUS_4                5                  6
  CLUS_5                0                 11
  CLUS_6                2                  7
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  11Q LOSS MUTATED        2      2      1      1      1      1      4      2
  11Q LOSS WILD-TYPE     10      7      7     11      8      6      9      7
                    vv
clus                 CLUS_9
  11Q LOSS MUTATED        2
  11Q LOSS WILD-TYPE      4
D62V12, multiclass
        clus
vv       11Q LOSS MUTATED 11Q LOSS WILD-TYPE
  CLUS_1                2                 10
  CLUS_2                2                  7
  CLUS_3                1                  7
  CLUS_4                1                 11
  CLUS_5                1                  8
  CLUS_6                1                  6
  CLUS_7                4                  9
  CLUS_8                2                  7
  CLUS_9                2                  4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(63) Variable = 12P LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  12P LOSS MUTATED        0      6      6      0      3
  12P LOSS WILD-TYPE     31     11     43     27     20
D63V1, multiclass
        clus
vv       12P LOSS MUTATED 12P LOSS WILD-TYPE
  CLUS_1                0                 31
  CLUS_2                6                 11
  CLUS_3                6                 43
  CLUS_4                0                 27
  CLUS_5                3                 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
  12P LOSS MUTATED        0     10      5
  12P LOSS WILD-TYPE     42     58     32
D63V2, multiclass
        clus
vv       12P LOSS MUTATED 12P LOSS WILD-TYPE
  CLUS_1                0                 42
  CLUS_2               10                 58
  CLUS_3                5                 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
  12P LOSS MUTATED        7     40      1
  12P LOSS WILD-TYPE     46    181    176
D63V3, multiclass
        clus
vv       12P LOSS MUTATED 12P LOSS WILD-TYPE
  CLUS_1                7                 46
  CLUS_2               40                181
  CLUS_3                1                176
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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        6     21      7
  12P LOSS WILD-TYPE     79     82     99
D63V4, multiclass
        clus
vv       12P LOSS MUTATED 12P LOSS WILD-TYPE
  CLUS_1                6                 79
  CLUS_2               21                 82
  CLUS_3                7                 99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       10     11     16
  12P LOSS WILD-TYPE     75    134    109
D63V5, multiclass
        clus
vv       12P LOSS MUTATED 12P LOSS WILD-TYPE
  CLUS_1               10                 75
  CLUS_2               11                134
  CLUS_3               16                109
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  12P LOSS MUTATED        6      3      3      4      2     10      4      2
  12P LOSS WILD-TYPE     45     30     32     35     41     76     18     18
                    vv
clus                 CLUS_9
  12P LOSS MUTATED        3
  12P LOSS WILD-TYPE     23
D63V6, multiclass
        clus
vv       12P LOSS MUTATED 12P LOSS WILD-TYPE
  CLUS_1                6                 45
  CLUS_2                3                 30
  CLUS_3                3                 32
  CLUS_4                4                 35
  CLUS_5                2                 41
  CLUS_6               10                 76
  CLUS_7                4                 18
  CLUS_8                2                 18
  CLUS_9                3                 23
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger 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       21      2     10     15
  12P LOSS WILD-TYPE    106     92     87    116
D63V7, multiclass
        clus
vv       12P LOSS MUTATED 12P LOSS WILD-TYPE
  CLUS_1               21                106
  CLUS_2                2                 92
  CLUS_3               10                 87
  CLUS_4               15                116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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       15     13      1     19      0
  12P LOSS WILD-TYPE     64     95     95    110     37
D63V8, multiclass
        clus
vv       12P LOSS MUTATED 12P LOSS WILD-TYPE
  CLUS_1               15                 64
  CLUS_2               13                 95
  CLUS_3                1                 95
  CLUS_4               19                110
  CLUS_5                0                 37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  12P LOSS MUTATED        9      4     10     13      6
  12P LOSS WILD-TYPE     51     84     61     62     98
D63V9, multiclass
        clus
vv       12P LOSS MUTATED 12P LOSS WILD-TYPE
  CLUS_1                9                 51
  CLUS_2                4                 84
  CLUS_3               10                 61
  CLUS_4               13                 62
  CLUS_5                6                 98
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  12P LOSS MUTATED        8      4      6      1      5      2      4      2
  12P LOSS WILD-TYPE     71     51     40     16     50     18     22     40
                    vv
clus                 CLUS_9
  12P LOSS MUTATED       10
  12P LOSS WILD-TYPE     48
D63V10, multiclass
        clus
vv       12P LOSS MUTATED 12P LOSS WILD-TYPE
  CLUS_1                8                 71
  CLUS_2                4                 51
  CLUS_3                6                 40
  CLUS_4                1                 16
  CLUS_5                5                 50
  CLUS_6                2                 18
  CLUS_7                4                 22
  CLUS_8                2                 40
  CLUS_9               10                 48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  12P LOSS MUTATED        3      1      1      2      0      3
  12P LOSS WILD-TYPE     15     19     15      9     11      6
D63V11, multiclass
        clus
vv       12P LOSS MUTATED 12P LOSS WILD-TYPE
  CLUS_1                3                 15
  CLUS_2                1                 19
  CLUS_3                1                 15
  CLUS_4                2                  9
  CLUS_5                0                 11
  CLUS_6                3                  6
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  12P LOSS MUTATED        4      1      1      1      0      0      1      2
  12P LOSS WILD-TYPE      8      8      7     11      9      7     12      7
                    vv
clus                 CLUS_9
  12P LOSS MUTATED        0
  12P LOSS WILD-TYPE      6
D63V12, multiclass
        clus
vv       12P LOSS MUTATED 12P LOSS WILD-TYPE
  CLUS_1                4                  8
  CLUS_2                1                  8
  CLUS_3                1                  7
  CLUS_4                1                 11
  CLUS_5                0                  9
  CLUS_6                0                  7
  CLUS_7                1                 12
  CLUS_8                2                  7
  CLUS_9                0                  6
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(64) Variable = 12Q LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  12Q LOSS MUTATED        0      6      5      0      3
  12Q LOSS WILD-TYPE     31     11     44     27     20
D64V1, multiclass
        clus
vv       12Q LOSS MUTATED 12Q LOSS WILD-TYPE
  CLUS_1                0                 31
  CLUS_2                6                 11
  CLUS_3                5                 44
  CLUS_4                0                 27
  CLUS_5                3                 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
  12Q LOSS MUTATED        0      9      5
  12Q LOSS WILD-TYPE     42     59     32
D64V2, multiclass
        clus
vv       12Q LOSS MUTATED 12Q LOSS WILD-TYPE
  CLUS_1                0                 42
  CLUS_2                9                 59
  CLUS_3                5                 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
  12Q LOSS MUTATED        8     40      2
  12Q LOSS WILD-TYPE     45    181    175
D64V3, multiclass
        clus
vv       12Q LOSS MUTATED 12Q LOSS WILD-TYPE
  CLUS_1                8                 45
  CLUS_2               40                181
  CLUS_3                2                175
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  12Q LOSS MUTATED        8     21      8
  12Q LOSS WILD-TYPE     77     82     98
D64V4, multiclass
        clus
vv       12Q LOSS MUTATED 12Q LOSS WILD-TYPE
  CLUS_1                8                 77
  CLUS_2               21                 82
  CLUS_3                8                 98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  12Q LOSS MUTATED       11     12     15
  12Q LOSS WILD-TYPE     74    133    110
D64V5, multiclass
        clus
vv       12Q LOSS MUTATED 12Q LOSS WILD-TYPE
  CLUS_1               11                 74
  CLUS_2               12                133
  CLUS_3               15                110
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  12Q LOSS MUTATED        6      3      2      3      3     10      4      4
  12Q LOSS WILD-TYPE     45     30     33     36     40     76     18     16
                    vv
clus                 CLUS_9
  12Q LOSS MUTATED        3
  12Q LOSS WILD-TYPE     23
D64V6, multiclass
        clus
vv       12Q LOSS MUTATED 12Q LOSS WILD-TYPE
  CLUS_1                6                 45
  CLUS_2                3                 30
  CLUS_3                2                 33
  CLUS_4                3                 36
  CLUS_5                3                 40
  CLUS_6               10                 76
  CLUS_7                4                 18
  CLUS_8                4                 16
  CLUS_9                3                 23
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  12Q LOSS MUTATED       23      2     10     15
  12Q LOSS WILD-TYPE    104     92     87    116
D64V7, multiclass
        clus
vv       12Q LOSS MUTATED 12Q LOSS WILD-TYPE
  CLUS_1               23                104
  CLUS_2                2                 92
  CLUS_3               10                 87
  CLUS_4               15                116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  12Q LOSS MUTATED       15     14      2     19      0
  12Q LOSS WILD-TYPE     64     94     94    110     37
D64V8, multiclass
        clus
vv       12Q LOSS MUTATED 12Q LOSS WILD-TYPE
  CLUS_1               15                 64
  CLUS_2               14                 94
  CLUS_3                2                 94
  CLUS_4               19                110
  CLUS_5                0                 37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  12Q LOSS MUTATED       11      5     11     13      5
  12Q LOSS WILD-TYPE     49     83     60     62     99
D64V9, multiclass
        clus
vv       12Q LOSS MUTATED 12Q LOSS WILD-TYPE
  CLUS_1               11                 49
  CLUS_2                5                 83
  CLUS_3               11                 60
  CLUS_4               13                 62
  CLUS_5                5                 99
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  12Q LOSS MUTATED        9      5      8      1      5      2      4      1
  12Q LOSS WILD-TYPE     70     50     38     16     50     18     22     41
                    vv
clus                 CLUS_9
  12Q LOSS MUTATED       10
  12Q LOSS WILD-TYPE     48
D64V10, multiclass
        clus
vv       12Q LOSS MUTATED 12Q LOSS WILD-TYPE
  CLUS_1                9                 70
  CLUS_2                5                 50
  CLUS_3                8                 38
  CLUS_4                1                 16
  CLUS_5                5                 50
  CLUS_6                2                 18
  CLUS_7                4                 22
  CLUS_8                1                 41
  CLUS_9               10                 48
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  12Q LOSS MUTATED        3      2      1      2      0      2
  12Q LOSS WILD-TYPE     15     18     15      9     11      7
D64V11, multiclass
        clus
vv       12Q LOSS MUTATED 12Q LOSS WILD-TYPE
  CLUS_1                3                 15
  CLUS_2                2                 18
  CLUS_3                1                 15
  CLUS_4                2                  9
  CLUS_5                0                 11
  CLUS_6                2                  7
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  12Q LOSS MUTATED        4      1      1      1      0      0      1      2
  12Q LOSS WILD-TYPE      8      8      7     11      9      7     12      7
                    vv
clus                 CLUS_9
  12Q LOSS MUTATED        0
  12Q LOSS WILD-TYPE      6
D64V12, multiclass
        clus
vv       12Q LOSS MUTATED 12Q LOSS WILD-TYPE
  CLUS_1                4                  8
  CLUS_2                1                  8
  CLUS_3                1                  7
  CLUS_4                1                 11
  CLUS_5                0                  9
  CLUS_6                0                  7
  CLUS_7                1                 12
  CLUS_8                2                  7
  CLUS_9                0                  6
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(65) Variable = 13Q LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  13Q LOSS MUTATED        0      1      1      1      0
  13Q LOSS WILD-TYPE     31     16     48     26     23
D65V1, multiclass
        clus
vv       13Q LOSS MUTATED 13Q LOSS WILD-TYPE
  CLUS_1                0                 31
  CLUS_2                1                 16
  CLUS_3                1                 48
  CLUS_4                1                 26
  CLUS_5                0                 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
  13Q LOSS MUTATED        2      1      0
  13Q LOSS WILD-TYPE     40     67     37
D65V2, multiclass
        clus
vv       13Q LOSS MUTATED 13Q LOSS WILD-TYPE
  CLUS_1                2                 40
  CLUS_2                1                 67
  CLUS_3                0                 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
  13Q LOSS MUTATED        5      5      2
  13Q LOSS WILD-TYPE     48    216    175
D65V3, multiclass
        clus
vv       13Q LOSS MUTATED 13Q LOSS WILD-TYPE
  CLUS_1                5                 48
  CLUS_2                5                216
  CLUS_3                2                175
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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        5      4      0
  13Q LOSS WILD-TYPE     80     99    106
D65V4, multiclass
        clus
vv       13Q LOSS MUTATED 13Q LOSS WILD-TYPE
  CLUS_1                5                 80
  CLUS_2                4                 99
  CLUS_3                0                106
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  13Q LOSS MUTATED        3      1      3
  13Q LOSS WILD-TYPE     82    144    122
D65V5, multiclass
        clus
vv       13Q LOSS MUTATED 13Q LOSS WILD-TYPE
  CLUS_1                3                 82
  CLUS_2                1                144
  CLUS_3                3                122
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  13Q LOSS MUTATED        5      1      0      0      0      1      0      0
  13Q LOSS WILD-TYPE     46     32     35     39     43     85     22     20
                    vv
clus                 CLUS_9
  13Q LOSS MUTATED        0
  13Q LOSS WILD-TYPE     26
D65V6, multiclass
        clus
vv       13Q LOSS MUTATED 13Q LOSS WILD-TYPE
  CLUS_1                5                 46
  CLUS_2                1                 32
  CLUS_3                0                 35
  CLUS_4                0                 39
  CLUS_5                0                 43
  CLUS_6                1                 85
  CLUS_7                0                 22
  CLUS_8                0                 20
  CLUS_9                0                 26
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  13Q LOSS MUTATED        4      1      4      3
  13Q LOSS WILD-TYPE    123     93     93    128
D65V7, multiclass
        clus
vv       13Q LOSS MUTATED 13Q LOSS WILD-TYPE
  CLUS_1                4                123
  CLUS_2                1                 93
  CLUS_3                4                 93
  CLUS_4                3                128
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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        3      2      3      3      1
  13Q LOSS WILD-TYPE     76    106     93    126     36
D65V8, multiclass
        clus
vv       13Q LOSS MUTATED 13Q LOSS WILD-TYPE
  CLUS_1                3                 76
  CLUS_2                2                106
  CLUS_3                3                 93
  CLUS_4                3                126
  CLUS_5                1                 36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  13Q LOSS MUTATED        3      1      3      0      4
  13Q LOSS WILD-TYPE     57     87     68     75    100
D65V9, multiclass
        clus
vv       13Q LOSS MUTATED 13Q LOSS WILD-TYPE
  CLUS_1                3                 57
  CLUS_2                1                 87
  CLUS_3                3                 68
  CLUS_4                0                 75
  CLUS_5                4                100
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  13Q LOSS MUTATED        2      2      3      0      2      0      0      1
  13Q LOSS WILD-TYPE     77     53     43     17     53     20     26     41
                    vv
clus                 CLUS_9
  13Q LOSS MUTATED        1
  13Q LOSS WILD-TYPE     57
D65V10, multiclass
        clus
vv       13Q LOSS MUTATED 13Q LOSS WILD-TYPE
  CLUS_1                2                 77
  CLUS_2                2                 53
  CLUS_3                3                 43
  CLUS_4                0                 17
  CLUS_5                2                 53
  CLUS_6                0                 20
  CLUS_7                0                 26
  CLUS_8                1                 41
  CLUS_9                1                 57
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  13Q LOSS MUTATED        0      3      0      0      0      1
  13Q LOSS WILD-TYPE     18     17     16     11     11      8
D65V11, multiclass
        clus
vv       13Q LOSS MUTATED 13Q LOSS WILD-TYPE
  CLUS_1                0                 18
  CLUS_2                3                 17
  CLUS_3                0                 16
  CLUS_4                0                 11
  CLUS_5                0                 11
  CLUS_6                1                  8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  13Q LOSS MUTATED        1      0      0      0      0      2      1      0
  13Q LOSS WILD-TYPE     11      9      8     12      9      5     12      9
                    vv
clus                 CLUS_9
  13Q LOSS MUTATED        0
  13Q LOSS WILD-TYPE      6
D65V12, multiclass
        clus
vv       13Q LOSS MUTATED 13Q LOSS WILD-TYPE
  CLUS_1                1                 11
  CLUS_2                0                  9
  CLUS_3                0                  8
  CLUS_4                0                 12
  CLUS_5                0                  9
  CLUS_6                2                  5
  CLUS_7                1                 12
  CLUS_8                0                  9
  CLUS_9                0                  6
[1] 9 2
[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 = 14Q LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  14Q LOSS MUTATED        1      8     29      3      9
  14Q LOSS WILD-TYPE     30      9     20     24     14
D66V1, multiclass
        clus
vv       14Q LOSS MUTATED 14Q LOSS WILD-TYPE
  CLUS_1                1                 30
  CLUS_2                8                  9
  CLUS_3               29                 20
  CLUS_4                3                 24
  CLUS_5                9                 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
  14Q LOSS MUTATED        3     28     19
  14Q LOSS WILD-TYPE     39     40     18
D66V2, multiclass
        clus
vv       14Q LOSS MUTATED 14Q LOSS WILD-TYPE
  CLUS_1                3                 39
  CLUS_2               28                 40
  CLUS_3               19                 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
  14Q LOSS MUTATED       15    118      6
  14Q LOSS WILD-TYPE     38    103    171
D66V3, multiclass
        clus
vv       14Q LOSS MUTATED 14Q LOSS WILD-TYPE
  CLUS_1               15                 38
  CLUS_2              118                103
  CLUS_3                6                171
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       18     49     20
  14Q LOSS WILD-TYPE     67     54     86
D66V4, multiclass
        clus
vv       14Q LOSS MUTATED 14Q LOSS WILD-TYPE
  CLUS_1               18                 67
  CLUS_2               49                 54
  CLUS_3               20                 86
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       28     53     30
  14Q LOSS WILD-TYPE     57     92     95
D66V5, multiclass
        clus
vv       14Q LOSS MUTATED 14Q LOSS WILD-TYPE
  CLUS_1               28                 57
  CLUS_2               53                 92
  CLUS_3               30                 95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  14Q LOSS MUTATED       13     11     16     11     16     18      5      9
  14Q LOSS WILD-TYPE     38     22     19     28     27     68     17     11
                    vv
clus                 CLUS_9
  14Q LOSS MUTATED       12
  14Q LOSS WILD-TYPE     14
D66V6, multiclass
        clus
vv       14Q LOSS MUTATED 14Q LOSS WILD-TYPE
  CLUS_1               13                 38
  CLUS_2               11                 22
  CLUS_3               16                 19
  CLUS_4               11                 28
  CLUS_5               16                 27
  CLUS_6               18                 68
  CLUS_7                5                 17
  CLUS_8                9                 11
  CLUS_9               12                 14
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger 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       64      9     23     43
  14Q LOSS WILD-TYPE     63     85     74     88
D66V7, multiclass
        clus
vv       14Q LOSS MUTATED 14Q LOSS WILD-TYPE
  CLUS_1               64                 63
  CLUS_2                9                 85
  CLUS_3               23                 74
  CLUS_4               43                 88
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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       33     45      4     55      2
  14Q LOSS WILD-TYPE     46     63     92     74     35
D66V8, multiclass
        clus
vv       14Q LOSS MUTATED 14Q LOSS WILD-TYPE
  CLUS_1               33                 46
  CLUS_2               45                 63
  CLUS_3                4                 92
  CLUS_4               55                 74
  CLUS_5                2                 35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  14Q LOSS MUTATED       25     12     24     39     19
  14Q LOSS WILD-TYPE     35     76     47     36     85
D66V9, multiclass
        clus
vv       14Q LOSS MUTATED 14Q LOSS WILD-TYPE
  CLUS_1               25                 35
  CLUS_2               12                 76
  CLUS_3               24                 47
  CLUS_4               39                 36
  CLUS_5               19                 85
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  14Q LOSS MUTATED       29     11     25      0     12      5      6      3
  14Q LOSS WILD-TYPE     50     44     21     17     43     15     20     39
                    vv
clus                 CLUS_9
  14Q LOSS MUTATED       28
  14Q LOSS WILD-TYPE     30
D66V10, multiclass
        clus
vv       14Q LOSS MUTATED 14Q LOSS WILD-TYPE
  CLUS_1               29                 50
  CLUS_2               11                 44
  CLUS_3               25                 21
  CLUS_4                0                 17
  CLUS_5               12                 43
  CLUS_6                5                 15
  CLUS_7                6                 20
  CLUS_8                3                 39
  CLUS_9               28                 30
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  14Q LOSS MUTATED        9      3      5      5      0      6
  14Q LOSS WILD-TYPE      9     17     11      6     11      3
D66V11, multiclass
        clus
vv       14Q LOSS MUTATED 14Q LOSS WILD-TYPE
  CLUS_1                9                  9
  CLUS_2                3                 17
  CLUS_3                5                 11
  CLUS_4                5                  6
  CLUS_5                0                 11
  CLUS_6                6                  3
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  14Q LOSS MUTATED        4      3      2      3      3      1      2      7
  14Q LOSS WILD-TYPE      8      6      6      9      6      6     11      2
                    vv
clus                 CLUS_9
  14Q LOSS MUTATED        3
  14Q LOSS WILD-TYPE      3
D66V12, multiclass
        clus
vv       14Q LOSS MUTATED 14Q LOSS WILD-TYPE
  CLUS_1                4                  8
  CLUS_2                3                  6
  CLUS_3                2                  6
  CLUS_4                3                  9
  CLUS_5                3                  6
  CLUS_6                1                  6
  CLUS_7                2                 11
  CLUS_8                7                  2
  CLUS_9                3                  3
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(67) Variable = 15Q LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  15Q LOSS MUTATED        2     10     23      5     13
  15Q LOSS WILD-TYPE     29      7     26     22     10
D67V1, multiclass
        clus
vv       15Q LOSS MUTATED 15Q LOSS WILD-TYPE
  CLUS_1                2                 29
  CLUS_2               10                  7
  CLUS_3               23                 26
  CLUS_4                5                 22
  CLUS_5               13                 10
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  15Q LOSS MUTATED        6     29     18
  15Q LOSS WILD-TYPE     36     39     19
D67V2, multiclass
        clus
vv       15Q LOSS MUTATED 15Q LOSS WILD-TYPE
  CLUS_1                6                 36
  CLUS_2               29                 39
  CLUS_3               18                 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
  15Q LOSS MUTATED       28    117     13
  15Q LOSS WILD-TYPE     25    104    164
D67V3, multiclass
        clus
vv       15Q LOSS MUTATED 15Q LOSS WILD-TYPE
  CLUS_1               28                 25
  CLUS_2              117                104
  CLUS_3               13                164
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       25     52     27
  15Q LOSS WILD-TYPE     60     51     79
D67V4, multiclass
        clus
vv       15Q LOSS MUTATED 15Q LOSS WILD-TYPE
  CLUS_1               25                 60
  CLUS_2               52                 51
  CLUS_3               27                 79
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       36     44     38
  15Q LOSS WILD-TYPE     49    101     87
D67V5, multiclass
        clus
vv       15Q LOSS MUTATED 15Q LOSS WILD-TYPE
  CLUS_1               36                 49
  CLUS_2               44                101
  CLUS_3               38                 87
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  15Q LOSS MUTATED       20      7     16     11     15     26      5      6
  15Q LOSS WILD-TYPE     31     26     19     28     28     60     17     14
                    vv
clus                 CLUS_9
  15Q LOSS MUTATED       12
  15Q LOSS WILD-TYPE     14
D67V6, multiclass
        clus
vv       15Q LOSS MUTATED 15Q LOSS WILD-TYPE
  CLUS_1               20                 31
  CLUS_2                7                 26
  CLUS_3               16                 19
  CLUS_4               11                 28
  CLUS_5               15                 28
  CLUS_6               26                 60
  CLUS_7                5                 17
  CLUS_8                6                 14
  CLUS_9               12                 14
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger 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       61     14     33     49
  15Q LOSS WILD-TYPE     66     80     64     82
D67V7, multiclass
        clus
vv       15Q LOSS MUTATED 15Q LOSS WILD-TYPE
  CLUS_1               61                 66
  CLUS_2               14                 80
  CLUS_3               33                 64
  CLUS_4               49                 82
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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       40     45     10     58      4
  15Q LOSS WILD-TYPE     39     63     86     71     33
D67V8, multiclass
        clus
vv       15Q LOSS MUTATED 15Q LOSS WILD-TYPE
  CLUS_1               40                 39
  CLUS_2               45                 63
  CLUS_3               10                 86
  CLUS_4               58                 71
  CLUS_5                4                 33
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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       28     15     36     33     26
  15Q LOSS WILD-TYPE     32     73     35     42     78
D67V9, multiclass
        clus
vv       15Q LOSS MUTATED 15Q LOSS WILD-TYPE
  CLUS_1               28                 32
  CLUS_2               15                 73
  CLUS_3               36                 35
  CLUS_4               33                 42
  CLUS_5               26                 78
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  15Q LOSS MUTATED       33     20     16      0     21      4      8      8
  15Q LOSS WILD-TYPE     46     35     30     17     34     16     18     34
                    vv
clus                 CLUS_9
  15Q LOSS MUTATED       28
  15Q LOSS WILD-TYPE     30
D67V10, multiclass
        clus
vv       15Q LOSS MUTATED 15Q LOSS WILD-TYPE
  CLUS_1               33                 46
  CLUS_2               20                 35
  CLUS_3               16                 30
  CLUS_4                0                 17
  CLUS_5               21                 34
  CLUS_6                4                 16
  CLUS_7                8                 18
  CLUS_8                8                 34
  CLUS_9               28                 30
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  15Q LOSS MUTATED        9      9      7      7      1      7
  15Q LOSS WILD-TYPE      9     11      9      4     10      2
D67V11, multiclass
        clus
vv       15Q LOSS MUTATED 15Q LOSS WILD-TYPE
  CLUS_1                9                  9
  CLUS_2                9                 11
  CLUS_3                7                  9
  CLUS_4                7                  4
  CLUS_5                1                 10
  CLUS_6                7                  2
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  15Q LOSS MUTATED        9      3      6      3      3      4      4      6
  15Q LOSS WILD-TYPE      3      6      2      9      6      3      9      3
                    vv
clus                 CLUS_9
  15Q LOSS MUTATED        2
  15Q LOSS WILD-TYPE      4
D67V12, multiclass
        clus
vv       15Q LOSS MUTATED 15Q LOSS WILD-TYPE
  CLUS_1                9                  3
  CLUS_2                3                  6
  CLUS_3                6                  2
  CLUS_4                3                  9
  CLUS_5                3                  6
  CLUS_6                4                  3
  CLUS_7                4                  9
  CLUS_8                6                  3
  CLUS_9                2                  4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(68) Variable = 16P LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  16P LOSS MUTATED        1      1      3      1      1
  16P LOSS WILD-TYPE     30     16     46     26     22
D68V1, multiclass
        clus
vv       16P LOSS MUTATED 16P LOSS WILD-TYPE
  CLUS_1                1                 30
  CLUS_2                1                 16
  CLUS_3                3                 46
  CLUS_4                1                 26
  CLUS_5                1                 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
  16P LOSS MUTATED        1      4      2
  16P LOSS WILD-TYPE     41     64     35
D68V2, multiclass
        clus
vv       16P LOSS MUTATED 16P LOSS WILD-TYPE
  CLUS_1                1                 41
  CLUS_2                4                 64
  CLUS_3                2                 35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  16P LOSS MUTATED        5     18      8
  16P LOSS WILD-TYPE     48    203    169
D68V3, multiclass
        clus
vv       16P LOSS MUTATED 16P LOSS WILD-TYPE
  CLUS_1                5                 48
  CLUS_2               18                203
  CLUS_3                8                169
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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        7     10      7
  16P LOSS WILD-TYPE     78     93     99
D68V4, multiclass
        clus
vv       16P LOSS MUTATED 16P LOSS WILD-TYPE
  CLUS_1                7                 78
  CLUS_2               10                 93
  CLUS_3                7                 99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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      8      9
  16P LOSS WILD-TYPE     81    137    116
D68V5, multiclass
        clus
vv       16P LOSS MUTATED 16P LOSS WILD-TYPE
  CLUS_1                4                 81
  CLUS_2                8                137
  CLUS_3                9                116
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  16P LOSS MUTATED        5      0      0      3      2      7      1      1
  16P LOSS WILD-TYPE     46     33     35     36     41     79     21     19
                    vv
clus                 CLUS_9
  16P LOSS MUTATED        2
  16P LOSS WILD-TYPE     24
D68V6, multiclass
        clus
vv       16P LOSS MUTATED 16P LOSS WILD-TYPE
  CLUS_1                5                 46
  CLUS_2                0                 33
  CLUS_3                0                 35
  CLUS_4                3                 36
  CLUS_5                2                 41
  CLUS_6                7                 79
  CLUS_7                1                 21
  CLUS_8                1                 19
  CLUS_9                2                 24
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger 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       13      6      7      5
  16P LOSS WILD-TYPE    114     88     90    126
D68V7, multiclass
        clus
vv       16P LOSS MUTATED 16P LOSS WILD-TYPE
  CLUS_1               13                114
  CLUS_2                6                 88
  CLUS_3                7                 90
  CLUS_4                5                126
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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        7     12      6      5      1
  16P LOSS WILD-TYPE     72     96     90    124     36
D68V8, multiclass
        clus
vv       16P LOSS MUTATED 16P LOSS WILD-TYPE
  CLUS_1                7                 72
  CLUS_2               12                 96
  CLUS_3                6                 90
  CLUS_4                5                124
  CLUS_5                1                 36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  16P LOSS MUTATED        4      7      3      4      5
  16P LOSS WILD-TYPE     56     81     68     71     99
D68V9, multiclass
        clus
vv       16P LOSS MUTATED 16P LOSS WILD-TYPE
  CLUS_1                4                 56
  CLUS_2                7                 81
  CLUS_3                3                 68
  CLUS_4                4                 71
  CLUS_5                5                 99
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  16P LOSS MUTATED        7      5      2      1      2      1      0      2
  16P LOSS WILD-TYPE     72     50     44     16     53     19     26     40
                    vv
clus                 CLUS_9
  16P LOSS MUTATED        3
  16P LOSS WILD-TYPE     55
D68V10, multiclass
        clus
vv       16P LOSS MUTATED 16P LOSS WILD-TYPE
  CLUS_1                7                 72
  CLUS_2                5                 50
  CLUS_3                2                 44
  CLUS_4                1                 16
  CLUS_5                2                 53
  CLUS_6                1                 19
  CLUS_7                0                 26
  CLUS_8                2                 40
  CLUS_9                3                 55
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  16P LOSS MUTATED        1      3      0      1      0      0
  16P LOSS WILD-TYPE     17     17     16     10     11      9
D68V11, multiclass
        clus
vv       16P LOSS MUTATED 16P LOSS WILD-TYPE
  CLUS_1                1                 17
  CLUS_2                3                 17
  CLUS_3                0                 16
  CLUS_4                1                 10
  CLUS_5                0                 11
  CLUS_6                0                  9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  16P LOSS MUTATED        1      1      0      1      0      1      1      0
  16P LOSS WILD-TYPE     11      8      8     11      9      6     12      9
                    vv
clus                 CLUS_9
  16P LOSS MUTATED        0
  16P LOSS WILD-TYPE      6
D68V12, multiclass
        clus
vv       16P LOSS MUTATED 16P LOSS WILD-TYPE
  CLUS_1                1                 11
  CLUS_2                1                  8
  CLUS_3                0                  8
  CLUS_4                1                 11
  CLUS_5                0                  9
  CLUS_6                1                  6
  CLUS_7                1                 12
  CLUS_8                0                  9
  CLUS_9                0                  6
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(69) Variable = 16Q LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  16Q LOSS MUTATED        1      1      3      1      1
  16Q LOSS WILD-TYPE     30     16     46     26     22
D69V1, multiclass
        clus
vv       16Q LOSS MUTATED 16Q LOSS WILD-TYPE
  CLUS_1                1                 30
  CLUS_2                1                 16
  CLUS_3                3                 46
  CLUS_4                1                 26
  CLUS_5                1                 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
  16Q LOSS MUTATED        1      4      2
  16Q LOSS WILD-TYPE     41     64     35
D69V2, multiclass
        clus
vv       16Q LOSS MUTATED 16Q LOSS WILD-TYPE
  CLUS_1                1                 41
  CLUS_2                4                 64
  CLUS_3                2                 35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  16Q LOSS MUTATED        5     17      7
  16Q LOSS WILD-TYPE     48    204    170
D69V3, multiclass
        clus
vv       16Q LOSS MUTATED 16Q LOSS WILD-TYPE
  CLUS_1                5                 48
  CLUS_2               17                204
  CLUS_3                7                170
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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        7      8      7
  16Q LOSS WILD-TYPE     78     95     99
D69V4, multiclass
        clus
vv       16Q LOSS MUTATED 16Q LOSS WILD-TYPE
  CLUS_1                7                 78
  CLUS_2                8                 95
  CLUS_3                7                 99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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        4      8      8
  16Q LOSS WILD-TYPE     81    137    117
D69V5, multiclass
        clus
vv       16Q LOSS MUTATED 16Q LOSS WILD-TYPE
  CLUS_1                4                 81
  CLUS_2                8                137
  CLUS_3                8                117
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  16Q LOSS MUTATED        3      0      0      4      2      7      1      1
  16Q LOSS WILD-TYPE     48     33     35     35     41     79     21     19
                    vv
clus                 CLUS_9
  16Q LOSS MUTATED        2
  16Q LOSS WILD-TYPE     24
D69V6, multiclass
        clus
vv       16Q LOSS MUTATED 16Q LOSS WILD-TYPE
  CLUS_1                3                 48
  CLUS_2                0                 33
  CLUS_3                0                 35
  CLUS_4                4                 35
  CLUS_5                2                 41
  CLUS_6                7                 79
  CLUS_7                1                 21
  CLUS_8                1                 19
  CLUS_9                2                 24
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger 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       13      5      6      5
  16Q LOSS WILD-TYPE    114     89     91    126
D69V7, multiclass
        clus
vv       16Q LOSS MUTATED 16Q LOSS WILD-TYPE
  CLUS_1               13                114
  CLUS_2                5                 89
  CLUS_3                6                 91
  CLUS_4                5                126
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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        5     12      5      6      1
  16Q LOSS WILD-TYPE     74     96     91    123     36
D69V8, multiclass
        clus
vv       16Q LOSS MUTATED 16Q LOSS WILD-TYPE
  CLUS_1                5                 74
  CLUS_2               12                 96
  CLUS_3                5                 91
  CLUS_4                6                123
  CLUS_5                1                 36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  16Q LOSS MUTATED        3      7      2      3      6
  16Q LOSS WILD-TYPE     57     81     69     72     98
D69V9, multiclass
        clus
vv       16Q LOSS MUTATED 16Q LOSS WILD-TYPE
  CLUS_1                3                 57
  CLUS_2                7                 81
  CLUS_3                2                 69
  CLUS_4                3                 72
  CLUS_5                6                 98
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  16Q LOSS MUTATED        5      4      2      1      3      1      0      2
  16Q LOSS WILD-TYPE     74     51     44     16     52     19     26     40
                    vv
clus                 CLUS_9
  16Q LOSS MUTATED        3
  16Q LOSS WILD-TYPE     55
D69V10, multiclass
        clus
vv       16Q LOSS MUTATED 16Q LOSS WILD-TYPE
  CLUS_1                5                 74
  CLUS_2                4                 51
  CLUS_3                2                 44
  CLUS_4                1                 16
  CLUS_5                3                 52
  CLUS_6                1                 19
  CLUS_7                0                 26
  CLUS_8                2                 40
  CLUS_9                3                 55
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  16Q LOSS MUTATED        1      3      0      1      0      0
  16Q LOSS WILD-TYPE     17     17     16     10     11      9
D69V11, multiclass
        clus
vv       16Q LOSS MUTATED 16Q LOSS WILD-TYPE
  CLUS_1                1                 17
  CLUS_2                3                 17
  CLUS_3                0                 16
  CLUS_4                1                 10
  CLUS_5                0                 11
  CLUS_6                0                  9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  16Q LOSS MUTATED        1      1      0      1      0      1      1      0
  16Q LOSS WILD-TYPE     11      8      8     11      9      6     12      9
                    vv
clus                 CLUS_9
  16Q LOSS MUTATED        0
  16Q LOSS WILD-TYPE      6
D69V12, multiclass
        clus
vv       16Q LOSS MUTATED 16Q LOSS WILD-TYPE
  CLUS_1                1                 11
  CLUS_2                1                  8
  CLUS_3                0                  8
  CLUS_4                1                 11
  CLUS_5                0                  9
  CLUS_6                1                  6
  CLUS_7                1                 12
  CLUS_8                0                  9
  CLUS_9                0                  6
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(70) Variable = 17P LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  17P LOSS MUTATED        3     11     38     10     16
  17P LOSS WILD-TYPE     28      6     11     17      7
D70V1, multiclass
        clus
vv       17P LOSS MUTATED 17P LOSS WILD-TYPE
  CLUS_1                3                 28
  CLUS_2               11                  6
  CLUS_3               38                 11
  CLUS_4               10                 17
  CLUS_5               16                  7
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  17P LOSS MUTATED        7     45     26
  17P LOSS WILD-TYPE     35     23     11
D70V2, multiclass
        clus
vv       17P LOSS MUTATED 17P LOSS WILD-TYPE
  CLUS_1                7                 35
  CLUS_2               45                 23
  CLUS_3               26                 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
  17P LOSS MUTATED       27    182     27
  17P LOSS WILD-TYPE     26     39    150
D70V3, multiclass
        clus
vv       17P LOSS MUTATED 17P LOSS WILD-TYPE
  CLUS_1               27                 26
  CLUS_2              182                 39
  CLUS_3               27                150
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       32     82     40
  17P LOSS WILD-TYPE     53     21     66
D70V4, multiclass
        clus
vv       17P LOSS MUTATED 17P LOSS WILD-TYPE
  CLUS_1               32                 53
  CLUS_2               82                 21
  CLUS_3               40                 66
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       49     75     56
  17P LOSS WILD-TYPE     36     70     69
D70V5, multiclass
        clus
vv       17P LOSS MUTATED 17P LOSS WILD-TYPE
  CLUS_1               49                 36
  CLUS_2               75                 70
  CLUS_3               56                 69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  17P LOSS MUTATED       33     12     24     21     20     34      8     10
  17P LOSS WILD-TYPE     18     21     11     18     23     52     14     10
                    vv
clus                 CLUS_9
  17P LOSS MUTATED       18
  17P LOSS WILD-TYPE      8
D70V6, multiclass
        clus
vv       17P LOSS MUTATED 17P LOSS WILD-TYPE
  CLUS_1               33                 18
  CLUS_2               12                 21
  CLUS_3               24                 11
  CLUS_4               21                 18
  CLUS_5               20                 23
  CLUS_6               34                 52
  CLUS_7                8                 14
  CLUS_8               10                 10
  CLUS_9               18                  8
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger 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       94     24     48     69
  17P LOSS WILD-TYPE     33     70     49     62
D70V7, multiclass
        clus
vv       17P LOSS MUTATED 17P LOSS WILD-TYPE
  CLUS_1               94                 33
  CLUS_2               24                 70
  CLUS_3               48                 49
  CLUS_4               69                 62
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  17P LOSS MUTATED       53     73     19     86      4
  17P LOSS WILD-TYPE     26     35     77     43     33
D70V8, multiclass
        clus
vv       17P LOSS MUTATED 17P LOSS WILD-TYPE
  CLUS_1               53                 26
  CLUS_2               73                 35
  CLUS_3               19                 77
  CLUS_4               86                 43
  CLUS_5                4                 33
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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       46     26     38     58     42
  17P LOSS WILD-TYPE     14     62     33     17     62
D70V9, multiclass
        clus
vv       17P LOSS MUTATED 17P LOSS WILD-TYPE
  CLUS_1               46                 14
  CLUS_2               26                 62
  CLUS_3               38                 33
  CLUS_4               58                 17
  CLUS_5               42                 62
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  17P LOSS MUTATED       45     27     31      0     34     10     10     11
  17P LOSS WILD-TYPE     34     28     15     17     21     10     16     31
                    vv
clus                 CLUS_9
  17P LOSS MUTATED       42
  17P LOSS WILD-TYPE     16
D70V10, multiclass
        clus
vv       17P LOSS MUTATED 17P LOSS WILD-TYPE
  CLUS_1               45                 34
  CLUS_2               27                 28
  CLUS_3               31                 15
  CLUS_4                0                 17
  CLUS_5               34                 21
  CLUS_6               10                 10
  CLUS_7               10                 16
  CLUS_8               11                 31
  CLUS_9               42                 16
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  17P LOSS MUTATED       16     14      8      7      2      7
  17P LOSS WILD-TYPE      2      6      8      4      9      2
D70V11, multiclass
        clus
vv       17P LOSS MUTATED 17P LOSS WILD-TYPE
  CLUS_1               16                  2
  CLUS_2               14                  6
  CLUS_3                8                  8
  CLUS_4                7                  4
  CLUS_5                2                  9
  CLUS_6                7                  2
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  17P LOSS MUTATED        8      6      7      7      4      3      5      9
  17P LOSS WILD-TYPE      4      3      1      5      5      4      8      0
                    vv
clus                 CLUS_9
  17P LOSS MUTATED        5
  17P LOSS WILD-TYPE      1
D70V12, multiclass
        clus
vv       17P LOSS MUTATED 17P LOSS WILD-TYPE
  CLUS_1                8                  4
  CLUS_2                6                  3
  CLUS_3                7                  1
  CLUS_4                7                  5
  CLUS_5                4                  5
  CLUS_6                3                  4
  CLUS_7                5                  8
  CLUS_8                9                  0
  CLUS_9                5                  1
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(71) Variable = 17Q LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  17Q LOSS MUTATED        1      4     11      1      3
  17Q LOSS WILD-TYPE     30     13     38     26     20
D71V1, multiclass
        clus
vv       17Q LOSS MUTATED 17Q LOSS WILD-TYPE
  CLUS_1                1                 30
  CLUS_2                4                 13
  CLUS_3               11                 38
  CLUS_4                1                 26
  CLUS_5                3                 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
  17Q LOSS MUTATED        4     13      3
  17Q LOSS WILD-TYPE     38     55     34
D71V2, multiclass
        clus
vv       17Q LOSS MUTATED 17Q LOSS WILD-TYPE
  CLUS_1                4                 38
  CLUS_2               13                 55
  CLUS_3                3                 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
  17Q LOSS MUTATED       13     45      6
  17Q LOSS WILD-TYPE     40    176    171
D71V3, multiclass
        clus
vv       17Q LOSS MUTATED 17Q LOSS WILD-TYPE
  CLUS_1               13                 40
  CLUS_2               45                176
  CLUS_3                6                171
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  17Q LOSS MUTATED       13     15     14
  17Q LOSS WILD-TYPE     72     88     92
D71V4, multiclass
        clus
vv       17Q LOSS MUTATED 17Q LOSS WILD-TYPE
  CLUS_1               13                 72
  CLUS_2               15                 88
  CLUS_3               14                 92
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       11     19     14
  17Q LOSS WILD-TYPE     74    126    111
D71V5, multiclass
        clus
vv       17Q LOSS MUTATED 17Q LOSS WILD-TYPE
  CLUS_1               11                 74
  CLUS_2               19                126
  CLUS_3               14                111
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  17Q LOSS MUTATED        8      6      7      3      2      8      2      4
  17Q LOSS WILD-TYPE     43     27     28     36     41     78     20     16
                    vv
clus                 CLUS_9
  17Q LOSS MUTATED        4
  17Q LOSS WILD-TYPE     22
D71V6, multiclass
        clus
vv       17Q LOSS MUTATED 17Q LOSS WILD-TYPE
  CLUS_1                8                 43
  CLUS_2                6                 27
  CLUS_3                7                 28
  CLUS_4                3                 36
  CLUS_5                2                 41
  CLUS_6                8                 78
  CLUS_7                2                 20
  CLUS_8                4                 16
  CLUS_9                4                 22
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger 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       21     11     11     21
  17Q LOSS WILD-TYPE    106     83     86    110
D71V7, multiclass
        clus
vv       17Q LOSS MUTATED 17Q LOSS WILD-TYPE
  CLUS_1               21                106
  CLUS_2               11                 83
  CLUS_3               11                 86
  CLUS_4               21                110
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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       11     21      9     21      2
  17Q LOSS WILD-TYPE     68     87     87    108     35
D71V8, multiclass
        clus
vv       17Q LOSS MUTATED 17Q LOSS WILD-TYPE
  CLUS_1               11                 68
  CLUS_2               21                 87
  CLUS_3                9                 87
  CLUS_4               21                108
  CLUS_5                2                 35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  17Q LOSS MUTATED       15      6     10     14     10
  17Q LOSS WILD-TYPE     45     82     61     61     94
D71V9, multiclass
        clus
vv       17Q LOSS MUTATED 17Q LOSS WILD-TYPE
  CLUS_1               15                 45
  CLUS_2                6                 82
  CLUS_3               10                 61
  CLUS_4               14                 61
  CLUS_5               10                 94
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  17Q LOSS MUTATED       10      7     10      0      9      1      3      3
  17Q LOSS WILD-TYPE     69     48     36     17     46     19     23     39
                    vv
clus                 CLUS_9
  17Q LOSS MUTATED       12
  17Q LOSS WILD-TYPE     46
D71V10, multiclass
        clus
vv       17Q LOSS MUTATED 17Q LOSS WILD-TYPE
  CLUS_1               10                 69
  CLUS_2                7                 48
  CLUS_3               10                 36
  CLUS_4                0                 17
  CLUS_5                9                 46
  CLUS_6                1                 19
  CLUS_7                3                 23
  CLUS_8                3                 39
  CLUS_9               12                 46
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  17Q LOSS MUTATED        5      5      1      3      0      3
  17Q LOSS WILD-TYPE     13     15     15      8     11      6
D71V11, multiclass
        clus
vv       17Q LOSS MUTATED 17Q LOSS WILD-TYPE
  CLUS_1                5                 13
  CLUS_2                5                 15
  CLUS_3                1                 15
  CLUS_4                3                  8
  CLUS_5                0                 11
  CLUS_6                3                  6
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  17Q LOSS MUTATED        3      1      0      1      0      2      4      4
  17Q LOSS WILD-TYPE      9      8      8     11      9      5      9      5
                    vv
clus                 CLUS_9
  17Q LOSS MUTATED        2
  17Q LOSS WILD-TYPE      4
D71V12, multiclass
        clus
vv       17Q LOSS MUTATED 17Q LOSS WILD-TYPE
  CLUS_1                3                  9
  CLUS_2                1                  8
  CLUS_3                0                  8
  CLUS_4                1                 11
  CLUS_5                0                  9
  CLUS_6                2                  5
  CLUS_7                4                  9
  CLUS_8                4                  5
  CLUS_9                2                  4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(72) Variable = 18P LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  18P LOSS MUTATED        1     11     43      8     17
  18P LOSS WILD-TYPE     30      6      6     19      6
D72V1, multiclass
        clus
vv       18P LOSS MUTATED 18P LOSS WILD-TYPE
  CLUS_1                1                 30
  CLUS_2               11                  6
  CLUS_3               43                  6
  CLUS_4                8                 19
  CLUS_5               17                  6
[1] 5 2
[1] TRUE
[1] "dimension of contingency table 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        5     45     30
  18P LOSS WILD-TYPE     37     23      7
D72V2, multiclass
        clus
vv       18P LOSS MUTATED 18P LOSS WILD-TYPE
  CLUS_1                5                 37
  CLUS_2               45                 23
  CLUS_3               30                  7
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  18P LOSS MUTATED       37    191     24
  18P LOSS WILD-TYPE     16     30    153
D72V3, multiclass
        clus
vv       18P LOSS MUTATED 18P LOSS WILD-TYPE
  CLUS_1               37                 16
  CLUS_2              191                 30
  CLUS_3               24                153
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       37     96     36
  18P LOSS WILD-TYPE     48      7     70
D72V4, multiclass
        clus
vv       18P LOSS MUTATED 18P LOSS WILD-TYPE
  CLUS_1               37                 48
  CLUS_2               96                  7
  CLUS_3               36                 70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       49     83     61
  18P LOSS WILD-TYPE     36     62     64
D72V5, multiclass
        clus
vv       18P LOSS MUTATED 18P LOSS WILD-TYPE
  CLUS_1               49                 36
  CLUS_2               83                 62
  CLUS_3               61                 64
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  18P LOSS MUTATED       31     18     23     20     25     35      8     11
  18P LOSS WILD-TYPE     20     15     12     19     18     51     14      9
                    vv
clus                 CLUS_9
  18P LOSS MUTATED       22
  18P LOSS WILD-TYPE      4
D72V6, multiclass
        clus
vv       18P LOSS MUTATED 18P LOSS WILD-TYPE
  CLUS_1               31                 20
  CLUS_2               18                 15
  CLUS_3               23                 12
  CLUS_4               20                 19
  CLUS_5               25                 18
  CLUS_6               35                 51
  CLUS_7                8                 14
  CLUS_8               11                  9
  CLUS_9               22                  4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger 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      112     23     49     67
  18P LOSS WILD-TYPE     15     71     48     64
D72V7, multiclass
        clus
vv       18P LOSS MUTATED 18P LOSS WILD-TYPE
  CLUS_1              112                 15
  CLUS_2               23                 71
  CLUS_3               49                 48
  CLUS_4               67                 64
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  18P LOSS MUTATED       61     83     14     91      2
  18P LOSS WILD-TYPE     18     25     82     38     35
D72V8, multiclass
        clus
vv       18P LOSS MUTATED 18P LOSS WILD-TYPE
  CLUS_1               61                 18
  CLUS_2               83                 25
  CLUS_3               14                 82
  CLUS_4               91                 38
  CLUS_5                2                 35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  18P LOSS MUTATED       50     27     43     58     41
  18P LOSS WILD-TYPE     10     61     28     17     63
D72V9, multiclass
        clus
vv       18P LOSS MUTATED 18P LOSS WILD-TYPE
  CLUS_1               50                 10
  CLUS_2               27                 61
  CLUS_3               43                 28
  CLUS_4               58                 17
  CLUS_5               41                 63
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  18P LOSS MUTATED       46     28     37      1     30     10     13      9
  18P LOSS WILD-TYPE     33     27      9     16     25     10     13     33
                    vv
clus                 CLUS_9
  18P LOSS MUTATED       45
  18P LOSS WILD-TYPE     13
D72V10, multiclass
        clus
vv       18P LOSS MUTATED 18P LOSS WILD-TYPE
  CLUS_1               46                 33
  CLUS_2               28                 27
  CLUS_3               37                  9
  CLUS_4                1                 16
  CLUS_5               30                 25
  CLUS_6               10                 10
  CLUS_7               13                 13
  CLUS_8                9                 33
  CLUS_9               45                 13
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  18P LOSS MUTATED       16     13      6      7      1      7
  18P LOSS WILD-TYPE      2      7     10      4     10      2
D72V11, multiclass
        clus
vv       18P LOSS MUTATED 18P LOSS WILD-TYPE
  CLUS_1               16                  2
  CLUS_2               13                  7
  CLUS_3                6                 10
  CLUS_4                7                  4
  CLUS_5                1                 10
  CLUS_6                7                  2
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  18P LOSS MUTATED       10      6      6      6      2      1      5      8
  18P LOSS WILD-TYPE      2      3      2      6      7      6      8      1
                    vv
clus                 CLUS_9
  18P LOSS MUTATED        6
  18P LOSS WILD-TYPE      0
D72V12, multiclass
        clus
vv       18P LOSS MUTATED 18P LOSS WILD-TYPE
  CLUS_1               10                  2
  CLUS_2                6                  3
  CLUS_3                6                  2
  CLUS_4                6                  6
  CLUS_5                2                  7
  CLUS_6                1                  6
  CLUS_7                5                  8
  CLUS_8                8                  1
  CLUS_9                6                  0
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(73) Variable = 18Q LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  18Q LOSS MUTATED        1     14     43      9     16
  18Q LOSS WILD-TYPE     30      3      6     18      7
D73V1, multiclass
        clus
vv       18Q LOSS MUTATED 18Q LOSS WILD-TYPE
  CLUS_1                1                 30
  CLUS_2               14                  3
  CLUS_3               43                  6
  CLUS_4                9                 18
  CLUS_5               16                  7
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  18Q LOSS MUTATED        6     48     29
  18Q LOSS WILD-TYPE     36     20      8
D73V2, multiclass
        clus
vv       18Q LOSS MUTATED 18Q LOSS WILD-TYPE
  CLUS_1                6                 36
  CLUS_2               48                 20
  CLUS_3               29                  8
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  18Q LOSS MUTATED       38    199     31
  18Q LOSS WILD-TYPE     15     22    146
D73V3, multiclass
        clus
vv       18Q LOSS MUTATED 18Q LOSS WILD-TYPE
  CLUS_1               38                 15
  CLUS_2              199                 22
  CLUS_3               31                146
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       41     96     44
  18Q LOSS WILD-TYPE     44      7     62
D73V4, multiclass
        clus
vv       18Q LOSS MUTATED 18Q LOSS WILD-TYPE
  CLUS_1               41                 44
  CLUS_2               96                  7
  CLUS_3               44                 62
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       52     86     66
  18Q LOSS WILD-TYPE     33     59     59
D73V5, multiclass
        clus
vv       18Q LOSS MUTATED 18Q LOSS WILD-TYPE
  CLUS_1               52                 33
  CLUS_2               86                 59
  CLUS_3               66                 59
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  18Q LOSS MUTATED       34     17     24     22     26     38      9     13
  18Q LOSS WILD-TYPE     17     16     11     17     17     48     13      7
                    vv
clus                 CLUS_9
  18Q LOSS MUTATED       21
  18Q LOSS WILD-TYPE      5
D73V6, multiclass
        clus
vv       18Q LOSS MUTATED 18Q LOSS WILD-TYPE
  CLUS_1               34                 17
  CLUS_2               17                 16
  CLUS_3               24                 11
  CLUS_4               22                 17
  CLUS_5               26                 17
  CLUS_6               38                 48
  CLUS_7                9                 13
  CLUS_8               13                  7
  CLUS_9               21                  5
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger 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      112     28     55     72
  18Q LOSS WILD-TYPE     15     66     42     59
D73V7, multiclass
        clus
vv       18Q LOSS MUTATED 18Q LOSS WILD-TYPE
  CLUS_1              112                 15
  CLUS_2               28                 66
  CLUS_3               55                 42
  CLUS_4               72                 59
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  18Q LOSS MUTATED       65     86     20     94      2
  18Q LOSS WILD-TYPE     14     22     76     35     35
D73V8, multiclass
        clus
vv       18Q LOSS MUTATED 18Q LOSS WILD-TYPE
  CLUS_1               65                 14
  CLUS_2               86                 22
  CLUS_3               20                 76
  CLUS_4               94                 35
  CLUS_5                2                 35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  18Q LOSS MUTATED       50     32     44     62     46
  18Q LOSS WILD-TYPE     10     56     27     13     58
D73V9, multiclass
        clus
vv       18Q LOSS MUTATED 18Q LOSS WILD-TYPE
  CLUS_1               50                 10
  CLUS_2               32                 56
  CLUS_3               44                 27
  CLUS_4               62                 13
  CLUS_5               46                 58
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  18Q LOSS MUTATED       53     31     37      2     32     10     13     10
  18Q LOSS WILD-TYPE     26     24      9     15     23     10     13     32
                    vv
clus                 CLUS_9
  18Q LOSS MUTATED       46
  18Q LOSS WILD-TYPE     12
D73V10, multiclass
        clus
vv       18Q LOSS MUTATED 18Q LOSS WILD-TYPE
  CLUS_1               53                 26
  CLUS_2               31                 24
  CLUS_3               37                  9
  CLUS_4                2                 15
  CLUS_5               32                 23
  CLUS_6               10                 10
  CLUS_7               13                 13
  CLUS_8               10                 32
  CLUS_9               46                 12
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  18Q LOSS MUTATED       16     14      8      8      1      8
  18Q LOSS WILD-TYPE      2      6      8      3     10      1
D73V11, multiclass
        clus
vv       18Q LOSS MUTATED 18Q LOSS WILD-TYPE
  CLUS_1               16                  2
  CLUS_2               14                  6
  CLUS_3                8                  8
  CLUS_4                8                  3
  CLUS_5                1                 10
  CLUS_6                8                  1
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  18Q LOSS MUTATED       10      7      6      7      3      2      6      9
  18Q LOSS WILD-TYPE      2      2      2      5      6      5      7      0
                    vv
clus                 CLUS_9
  18Q LOSS MUTATED        5
  18Q LOSS WILD-TYPE      1
D73V12, multiclass
        clus
vv       18Q LOSS MUTATED 18Q LOSS WILD-TYPE
  CLUS_1               10                  2
  CLUS_2                7                  2
  CLUS_3                6                  2
  CLUS_4                7                  5
  CLUS_5                3                  6
  CLUS_6                2                  5
  CLUS_7                6                  7
  CLUS_8                9                  0
  CLUS_9                5                  1
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(74) Variable = 19P LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  19P LOSS MUTATED        1      7      3      3      3
  19P LOSS WILD-TYPE     30     10     46     24     20
D74V1, multiclass
        clus
vv       19P LOSS MUTATED 19P LOSS WILD-TYPE
  CLUS_1                1                 30
  CLUS_2                7                 10
  CLUS_3                3                 46
  CLUS_4                3                 24
  CLUS_5                3                 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
  19P LOSS MUTATED        3      9      5
  19P LOSS WILD-TYPE     39     59     32
D74V2, multiclass
        clus
vv       19P LOSS MUTATED 19P LOSS WILD-TYPE
  CLUS_1                3                 39
  CLUS_2                9                 59
  CLUS_3                5                 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
  19P LOSS MUTATED        6     27      7
  19P LOSS WILD-TYPE     47    194    170
D74V3, multiclass
        clus
vv       19P LOSS MUTATED 19P LOSS WILD-TYPE
  CLUS_1                6                 47
  CLUS_2               27                194
  CLUS_3                7                170
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  19P LOSS MUTATED        7      8      6
  19P LOSS WILD-TYPE     78     95    100
D74V4, multiclass
        clus
vv       19P LOSS MUTATED 19P LOSS WILD-TYPE
  CLUS_1                7                 78
  CLUS_2                8                 95
  CLUS_3                6                100
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  19P LOSS MUTATED        8      7     10
  19P LOSS WILD-TYPE     77    138    115
D74V5, multiclass
        clus
vv       19P LOSS MUTATED 19P LOSS WILD-TYPE
  CLUS_1                8                 77
  CLUS_2                7                138
  CLUS_3               10                115
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  19P LOSS MUTATED        3      2      1      3      1     10      1      1
  19P LOSS WILD-TYPE     48     31     34     36     42     76     21     19
                    vv
clus                 CLUS_9
  19P LOSS MUTATED        3
  19P LOSS WILD-TYPE     23
D74V6, multiclass
        clus
vv       19P LOSS MUTATED 19P LOSS WILD-TYPE
  CLUS_1                3                 48
  CLUS_2                2                 31
  CLUS_3                1                 34
  CLUS_4                3                 36
  CLUS_5                1                 42
  CLUS_6               10                 76
  CLUS_7                1                 21
  CLUS_8                1                 19
  CLUS_9                3                 23
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  19P LOSS MUTATED       20      3      5     12
  19P LOSS WILD-TYPE    107     91     92    119
D74V7, multiclass
        clus
vv       19P LOSS MUTATED 19P LOSS WILD-TYPE
  CLUS_1               20                107
  CLUS_2                3                 91
  CLUS_3                5                 92
  CLUS_4               12                119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  19P LOSS MUTATED        4     15      3     16      2
  19P LOSS WILD-TYPE     75     93     93    113     35
D74V8, multiclass
        clus
vv       19P LOSS MUTATED 19P LOSS WILD-TYPE
  CLUS_1                4                 75
  CLUS_2               15                 93
  CLUS_3                3                 93
  CLUS_4               16                113
  CLUS_5                2                 35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  19P LOSS MUTATED        6      7      5      6     11
  19P LOSS WILD-TYPE     54     81     66     69     93
D74V9, multiclass
        clus
vv       19P LOSS MUTATED 19P LOSS WILD-TYPE
  CLUS_1                6                 54
  CLUS_2                7                 81
  CLUS_3                5                 66
  CLUS_4                6                 69
  CLUS_5               11                 93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  19P LOSS MUTATED        6      0      4      0     10      3      1      3
  19P LOSS WILD-TYPE     73     55     42     17     45     17     25     39
                    vv
clus                 CLUS_9
  19P LOSS MUTATED        8
  19P LOSS WILD-TYPE     50
D74V10, multiclass
        clus
vv       19P LOSS MUTATED 19P LOSS WILD-TYPE
  CLUS_1                6                 73
  CLUS_2                0                 55
  CLUS_3                4                 42
  CLUS_4                0                 17
  CLUS_5               10                 45
  CLUS_6                3                 17
  CLUS_7                1                 25
  CLUS_8                3                 39
  CLUS_9                8                 50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  19P LOSS MUTATED        4      1      1      1      0      1
  19P LOSS WILD-TYPE     14     19     15     10     11      8
D74V11, multiclass
        clus
vv       19P LOSS MUTATED 19P LOSS WILD-TYPE
  CLUS_1                4                 14
  CLUS_2                1                 19
  CLUS_3                1                 15
  CLUS_4                1                 10
  CLUS_5                0                 11
  CLUS_6                1                  8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  19P LOSS MUTATED        1      0      0      1      1      2      0      1
  19P LOSS WILD-TYPE     11      9      8     11      8      5     13      8
                    vv
clus                 CLUS_9
  19P LOSS MUTATED        2
  19P LOSS WILD-TYPE      4
D74V12, multiclass
        clus
vv       19P LOSS MUTATED 19P LOSS WILD-TYPE
  CLUS_1                1                 11
  CLUS_2                0                  9
  CLUS_3                0                  8
  CLUS_4                1                 11
  CLUS_5                1                  8
  CLUS_6                2                  5
  CLUS_7                0                 13
  CLUS_8                1                  8
  CLUS_9                2                  4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(75) Variable = 19Q LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  19Q LOSS MUTATED        1      7      4      2      2
  19Q LOSS WILD-TYPE     30     10     45     25     21
D75V1, multiclass
        clus
vv       19Q LOSS MUTATED 19Q LOSS WILD-TYPE
  CLUS_1                1                 30
  CLUS_2                7                 10
  CLUS_3                4                 45
  CLUS_4                2                 25
  CLUS_5                2                 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
  19Q LOSS MUTATED        3      9      4
  19Q LOSS WILD-TYPE     39     59     33
D75V2, multiclass
        clus
vv       19Q LOSS MUTATED 19Q LOSS WILD-TYPE
  CLUS_1                3                 39
  CLUS_2                9                 59
  CLUS_3                4                 33
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  19Q LOSS MUTATED        7     22      4
  19Q LOSS WILD-TYPE     46    199    173
D75V3, multiclass
        clus
vv       19Q LOSS MUTATED 19Q LOSS WILD-TYPE
  CLUS_1                7                 46
  CLUS_2               22                199
  CLUS_3                4                173
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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        4      7      4
  19Q LOSS WILD-TYPE     81     96    102
D75V4, multiclass
        clus
vv       19Q LOSS MUTATED 19Q LOSS WILD-TYPE
  CLUS_1                4                 81
  CLUS_2                7                 96
  CLUS_3                4                102
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  19Q LOSS MUTATED        7      5      8
  19Q LOSS WILD-TYPE     78    140    117
D75V5, multiclass
        clus
vv       19Q LOSS MUTATED 19Q LOSS WILD-TYPE
  CLUS_1                7                 78
  CLUS_2                5                140
  CLUS_3                8                117
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  19Q LOSS MUTATED        3      4      0      3      0      6      0      1
  19Q LOSS WILD-TYPE     48     29     35     36     43     80     22     19
                    vv
clus                 CLUS_9
  19Q LOSS MUTATED        3
  19Q LOSS WILD-TYPE     23
D75V6, multiclass
        clus
vv       19Q LOSS MUTATED 19Q LOSS WILD-TYPE
  CLUS_1                3                 48
  CLUS_2                4                 29
  CLUS_3                0                 35
  CLUS_4                3                 36
  CLUS_5                0                 43
  CLUS_6                6                 80
  CLUS_7                0                 22
  CLUS_8                1                 19
  CLUS_9                3                 23
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger 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       16      2      4     11
  19Q LOSS WILD-TYPE    111     92     93    120
D75V7, multiclass
        clus
vv       19Q LOSS MUTATED 19Q LOSS WILD-TYPE
  CLUS_1               16                111
  CLUS_2                2                 92
  CLUS_3                4                 93
  CLUS_4               11                120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  19Q LOSS MUTATED        1     12      3     15      2
  19Q LOSS WILD-TYPE     78     96     93    114     35
D75V8, multiclass
        clus
vv       19Q LOSS MUTATED 19Q LOSS WILD-TYPE
  CLUS_1                1                 78
  CLUS_2               12                 96
  CLUS_3                3                 93
  CLUS_4               15                114
  CLUS_5                2                 35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  19Q LOSS MUTATED        5      5      5      5      8
  19Q LOSS WILD-TYPE     55     83     66     70     96
D75V9, multiclass
        clus
vv       19Q LOSS MUTATED 19Q LOSS WILD-TYPE
  CLUS_1                5                 55
  CLUS_2                5                 83
  CLUS_3                5                 66
  CLUS_4                5                 70
  CLUS_5                8                 96
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  19Q LOSS MUTATED        4      1      3      0      8      3      1      3
  19Q LOSS WILD-TYPE     75     54     43     17     47     17     25     39
                    vv
clus                 CLUS_9
  19Q LOSS MUTATED        5
  19Q LOSS WILD-TYPE     53
D75V10, multiclass
        clus
vv       19Q LOSS MUTATED 19Q LOSS WILD-TYPE
  CLUS_1                4                 75
  CLUS_2                1                 54
  CLUS_3                3                 43
  CLUS_4                0                 17
  CLUS_5                8                 47
  CLUS_6                3                 17
  CLUS_7                1                 25
  CLUS_8                3                 39
  CLUS_9                5                 53
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  19Q LOSS MUTATED        4      0      1      0      0      2
  19Q LOSS WILD-TYPE     14     20     15     11     11      7
D75V11, multiclass
        clus
vv       19Q LOSS MUTATED 19Q LOSS WILD-TYPE
  CLUS_1                4                 14
  CLUS_2                0                 20
  CLUS_3                1                 15
  CLUS_4                0                 11
  CLUS_5                0                 11
  CLUS_6                2                  7
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  19Q LOSS MUTATED        0      0      0      1      1      2      0      1
  19Q LOSS WILD-TYPE     12      9      8     11      8      5     13      8
                    vv
clus                 CLUS_9
  19Q LOSS MUTATED        2
  19Q LOSS WILD-TYPE      4
D75V12, multiclass
        clus
vv       19Q LOSS MUTATED 19Q LOSS WILD-TYPE
  CLUS_1                0                 12
  CLUS_2                0                  9
  CLUS_3                0                  8
  CLUS_4                1                 11
  CLUS_5                1                  8
  CLUS_6                2                  5
  CLUS_7                0                 13
  CLUS_8                1                  8
  CLUS_9                2                  4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(76) Variable = 20P LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  20P LOSS MUTATED        1      3      6      1      2
  20P LOSS WILD-TYPE     30     14     43     26     21
D76V1, multiclass
        clus
vv       20P LOSS MUTATED 20P LOSS WILD-TYPE
  CLUS_1                1                 30
  CLUS_2                3                 14
  CLUS_3                6                 43
  CLUS_4                1                 26
  CLUS_5                2                 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
  20P LOSS MUTATED        1      4      8
  20P LOSS WILD-TYPE     41     64     29
D76V2, multiclass
        clus
vv       20P LOSS MUTATED 20P LOSS WILD-TYPE
  CLUS_1                1                 41
  CLUS_2                4                 64
  CLUS_3                8                 29
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  20P LOSS MUTATED        0     39      4
  20P LOSS WILD-TYPE     53    182    173
D76V3, multiclass
        clus
vv       20P LOSS MUTATED 20P LOSS WILD-TYPE
  CLUS_1                0                 53
  CLUS_2               39                182
  CLUS_3                4                173
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  20P LOSS MUTATED        6     17      5
  20P LOSS WILD-TYPE     79     86    101
D76V4, multiclass
        clus
vv       20P LOSS MUTATED 20P LOSS WILD-TYPE
  CLUS_1                6                 79
  CLUS_2               17                 86
  CLUS_3                5                101
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  20P LOSS MUTATED        6     15     15
  20P LOSS WILD-TYPE     79    130    110
D76V5, multiclass
        clus
vv       20P LOSS MUTATED 20P LOSS WILD-TYPE
  CLUS_1                6                 79
  CLUS_2               15                130
  CLUS_3               15                110
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  20P LOSS MUTATED        7      0      4      4      3      8      2      3
  20P LOSS WILD-TYPE     44     33     31     35     40     78     20     17
                    vv
clus                 CLUS_9
  20P LOSS MUTATED        5
  20P LOSS WILD-TYPE     21
D76V6, multiclass
        clus
vv       20P LOSS MUTATED 20P LOSS WILD-TYPE
  CLUS_1                7                 44
  CLUS_2                0                 33
  CLUS_3                4                 31
  CLUS_4                4                 35
  CLUS_5                3                 40
  CLUS_6                8                 78
  CLUS_7                2                 20
  CLUS_8                3                 17
  CLUS_9                5                 21
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  20P LOSS MUTATED       18      4     10     11
  20P LOSS WILD-TYPE    109     90     87    120
D76V7, multiclass
        clus
vv       20P LOSS MUTATED 20P LOSS WILD-TYPE
  CLUS_1               18                109
  CLUS_2                4                 90
  CLUS_3               10                 87
  CLUS_4               11                120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  20P LOSS MUTATED       14     11      3     13      2
  20P LOSS WILD-TYPE     65     97     93    116     35
D76V8, multiclass
        clus
vv       20P LOSS MUTATED 20P LOSS WILD-TYPE
  CLUS_1               14                 65
  CLUS_2               11                 97
  CLUS_3                3                 93
  CLUS_4               13                116
  CLUS_5                2                 35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  20P LOSS MUTATED       11      6      6      8      6
  20P LOSS WILD-TYPE     49     82     65     67     98
D76V9, multiclass
        clus
vv       20P LOSS MUTATED 20P LOSS WILD-TYPE
  CLUS_1               11                 49
  CLUS_2                6                 82
  CLUS_3                6                 65
  CLUS_4                8                 67
  CLUS_5                6                 98
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  20P LOSS MUTATED        7     10      5      0      5      1      1      2
  20P LOSS WILD-TYPE     72     45     41     17     50     19     25     40
                    vv
clus                 CLUS_9
  20P LOSS MUTATED        6
  20P LOSS WILD-TYPE     52
D76V10, multiclass
        clus
vv       20P LOSS MUTATED 20P LOSS WILD-TYPE
  CLUS_1                7                 72
  CLUS_2               10                 45
  CLUS_3                5                 41
  CLUS_4                0                 17
  CLUS_5                5                 50
  CLUS_6                1                 19
  CLUS_7                1                 25
  CLUS_8                2                 40
  CLUS_9                6                 52
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  20P LOSS MUTATED        2      3      0      1      0      0
  20P LOSS WILD-TYPE     16     17     16     10     11      9
D76V11, multiclass
        clus
vv       20P LOSS MUTATED 20P LOSS WILD-TYPE
  CLUS_1                2                 16
  CLUS_2                3                 17
  CLUS_3                0                 16
  CLUS_4                1                 10
  CLUS_5                0                 11
  CLUS_6                0                  9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  20P LOSS MUTATED        0      1      2      2      0      1      0      0
  20P LOSS WILD-TYPE     12      8      6     10      9      6     13      9
                    vv
clus                 CLUS_9
  20P LOSS MUTATED        0
  20P LOSS WILD-TYPE      6
D76V12, multiclass
        clus
vv       20P LOSS MUTATED 20P LOSS WILD-TYPE
  CLUS_1                0                 12
  CLUS_2                1                  8
  CLUS_3                2                  6
  CLUS_4                2                 10
  CLUS_5                0                  9
  CLUS_6                1                  6
  CLUS_7                0                 13
  CLUS_8                0                  9
  CLUS_9                0                  6
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(77) Variable = 20Q LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  20Q LOSS MUTATED        0      1      0      1      0
  20Q LOSS WILD-TYPE     31     16     49     26     23
D77V1, multiclass
[1] "Remove cluster labels:" "20Q LOSS MUTATED"      
clus
  20Q LOSS MUTATED 20Q LOSS WILD-TYPE 
                 2                145 
        TCGA-A6-2672         TCGA-A6-2674         TCGA-A6-2676 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-A6-2677         TCGA-A6-2678         TCGA-A6-2683 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-A6-3807         TCGA-A6-3809         TCGA-A6-3810 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AA-3514         TCGA-AA-3516         TCGA-AA-3517 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AA-3518         TCGA-AA-3519         TCGA-AA-3520 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AA-3521         TCGA-AA-3522         TCGA-AA-3524 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AA-3525         TCGA-AA-3526         TCGA-AA-3527 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AA-3529         TCGA-AA-3530         TCGA-AA-3531 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AA-3532         TCGA-AA-3534         TCGA-AA-3538 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AA-3542         TCGA-AA-3543         TCGA-AA-3544 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AA-3548         TCGA-AA-3549         TCGA-AA-3552 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AA-3553         TCGA-AA-3554         TCGA-AA-3555 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AA-3556         TCGA-AA-3558         TCGA-AA-3560 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AA-3561         TCGA-AA-3562         TCGA-AA-3664 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AA-3666         TCGA-AA-3667         TCGA-AA-3672 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AA-3673         TCGA-AA-3675         TCGA-AA-3678 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AA-3679         TCGA-AA-3680         TCGA-AA-3684 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AA-3685         TCGA-AA-3688         TCGA-AA-3692 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AA-3693         TCGA-AA-3696         TCGA-AA-3710 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AA-3715         TCGA-AA-3811         TCGA-AA-3812 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AA-3814         TCGA-AA-3818         TCGA-AA-3819 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AA-3821         TCGA-AA-3831         TCGA-AA-3833 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AA-3837         TCGA-AA-3841         TCGA-AA-3842 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AA-3844         TCGA-AA-3845         TCGA-AA-3846 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AA-3848         TCGA-AA-3850         TCGA-AA-3851 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AA-3852         TCGA-AA-3854         TCGA-AA-3855 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AA-3856         TCGA-AA-3858         TCGA-AA-3860 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AA-3864         TCGA-AA-3866         TCGA-AA-3867 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AA-3869         TCGA-AA-3870         TCGA-AA-3872 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AA-3875         TCGA-AA-3877         TCGA-AA-3930 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AA-3939         TCGA-AA-3941         TCGA-AA-3947 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AA-3949         TCGA-AA-3950         TCGA-AA-3955 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AA-3956         TCGA-AA-3966         TCGA-AA-3968 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AA-3971         TCGA-AA-3972         TCGA-AA-3973 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AA-3975         TCGA-AA-3976         TCGA-AA-3977 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AA-3979         TCGA-AA-3982         TCGA-AA-3984 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AA-3986         TCGA-AA-3989         TCGA-AA-3994 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AA-A004         TCGA-AA-A00A         TCGA-AA-A00D 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AA-A00E         TCGA-AA-A00F         TCGA-AA-A00J 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AA-A00K         TCGA-AA-A00L         TCGA-AA-A00N 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AA-A00O         TCGA-AA-A00Q         TCGA-AA-A00R 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AA-A00U         TCGA-AA-A00W         TCGA-AA-A00Z 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AA-A010         TCGA-AA-A017         TCGA-AA-A01C 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AA-A01D         TCGA-AA-A01F         TCGA-AA-A01G 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AA-A01I         TCGA-AA-A01K         TCGA-AA-A01Q 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AA-A024         TCGA-AA-A029         TCGA-AA-A02E 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AA-A02F         TCGA-AA-A02H         TCGA-AA-A02J 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AA-A02R         TCGA-AA-A02W         TCGA-AY-4070 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AY-4071 
"20Q LOSS WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  20Q LOSS MUTATED        0      2      0
  20Q LOSS WILD-TYPE     42     66     37
D77V2, multiclass
[1] "Remove cluster labels:" "20Q LOSS MUTATED"      
clus
  20Q LOSS MUTATED 20Q LOSS WILD-TYPE 
                 2                145 
        TCGA-A6-2672         TCGA-A6-2674         TCGA-A6-2676 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-A6-2677         TCGA-A6-2678         TCGA-A6-2683 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-A6-3807         TCGA-A6-3809         TCGA-A6-3810 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AA-3514         TCGA-AA-3516         TCGA-AA-3517 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AA-3518         TCGA-AA-3519         TCGA-AA-3520 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AA-3521         TCGA-AA-3522         TCGA-AA-3524 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AA-3525         TCGA-AA-3526         TCGA-AA-3527 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AA-3529         TCGA-AA-3530         TCGA-AA-3531 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AA-3532         TCGA-AA-3534         TCGA-AA-3538 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AA-3542         TCGA-AA-3543         TCGA-AA-3544 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AA-3548         TCGA-AA-3549         TCGA-AA-3552 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AA-3553         TCGA-AA-3554         TCGA-AA-3555 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AA-3556         TCGA-AA-3558         TCGA-AA-3560 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AA-3561         TCGA-AA-3562         TCGA-AA-3664 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AA-3666         TCGA-AA-3667         TCGA-AA-3672 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AA-3673         TCGA-AA-3675         TCGA-AA-3678 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AA-3679         TCGA-AA-3680         TCGA-AA-3684 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AA-3685         TCGA-AA-3688         TCGA-AA-3692 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AA-3693         TCGA-AA-3696         TCGA-AA-3710 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AA-3715         TCGA-AA-3811         TCGA-AA-3812 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AA-3814         TCGA-AA-3818         TCGA-AA-3819 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AA-3821         TCGA-AA-3831         TCGA-AA-3833 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AA-3837         TCGA-AA-3841         TCGA-AA-3842 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AA-3844         TCGA-AA-3845         TCGA-AA-3846 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AA-3848         TCGA-AA-3850         TCGA-AA-3851 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AA-3852         TCGA-AA-3854         TCGA-AA-3855 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AA-3856         TCGA-AA-3858         TCGA-AA-3860 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AA-3864         TCGA-AA-3866         TCGA-AA-3867 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AA-3869         TCGA-AA-3870         TCGA-AA-3872 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AA-3875         TCGA-AA-3877         TCGA-AA-3930 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AA-3939         TCGA-AA-3941         TCGA-AA-3947 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AA-3949         TCGA-AA-3950         TCGA-AA-3955 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AA-3956         TCGA-AA-3966         TCGA-AA-3968 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AA-3971         TCGA-AA-3972         TCGA-AA-3973 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AA-3975         TCGA-AA-3976         TCGA-AA-3977 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AA-3979         TCGA-AA-3982         TCGA-AA-3984 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AA-3986         TCGA-AA-3989         TCGA-AA-3994 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AA-A004         TCGA-AA-A00A         TCGA-AA-A00D 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AA-A00E         TCGA-AA-A00F         TCGA-AA-A00J 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AA-A00K         TCGA-AA-A00L         TCGA-AA-A00N 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AA-A00O         TCGA-AA-A00Q         TCGA-AA-A00R 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AA-A00U         TCGA-AA-A00W         TCGA-AA-A00Z 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AA-A010         TCGA-AA-A017         TCGA-AA-A01C 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AA-A01D         TCGA-AA-A01F         TCGA-AA-A01G 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AA-A01I         TCGA-AA-A01K         TCGA-AA-A01Q 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AA-A024         TCGA-AA-A029         TCGA-AA-A02E 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AA-A02F         TCGA-AA-A02H         TCGA-AA-A02J 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AA-A02R         TCGA-AA-A02W         TCGA-AY-4070 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AY-4071 
"20Q LOSS WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  20Q LOSS MUTATED        0      2      2
  20Q LOSS WILD-TYPE     53    219    175
D77V3, multiclass
        clus
vv       20Q LOSS MUTATED 20Q LOSS WILD-TYPE
  CLUS_1                0                 53
  CLUS_2                2                219
  CLUS_3                2                175
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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      0      1
  20Q LOSS WILD-TYPE     84    103    105
D77V4, multiclass
[1] "Remove cluster labels:" "20Q LOSS MUTATED"      
clus
  20Q LOSS MUTATED 20Q LOSS WILD-TYPE 
                 2                292 
        TCGA-3L-AA1B         TCGA-4N-A93T         TCGA-4T-AA8H 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-5M-AAT4         TCGA-5M-AAT5         TCGA-5M-AAT6 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-5M-AATA         TCGA-5M-AATE         TCGA-A6-2671 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-A6-2675         TCGA-A6-2677         TCGA-A6-2679 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-A6-2680         TCGA-A6-2681         TCGA-A6-2682 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-A6-2684         TCGA-A6-2685         TCGA-A6-2686 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-A6-3809         TCGA-A6-3810         TCGA-A6-4105 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-A6-4107         TCGA-A6-5656         TCGA-A6-5657 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-A6-5659         TCGA-A6-5660         TCGA-A6-5661 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-A6-5662         TCGA-A6-5664         TCGA-A6-5665 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-A6-5666         TCGA-A6-5667         TCGA-A6-6137 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-A6-6138         TCGA-A6-6140         TCGA-A6-6141 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-A6-6142         TCGA-A6-6648         TCGA-A6-6649 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-A6-6650         TCGA-A6-6651         TCGA-A6-6652 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-A6-6653         TCGA-A6-6654         TCGA-A6-6780 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-A6-6781         TCGA-A6-6782         TCGA-A6-A565 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-A6-A566         TCGA-A6-A567         TCGA-A6-A56B 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-A6-A5ZU         TCGA-AA-3488         TCGA-AA-3489 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AA-3492         TCGA-AA-3494         TCGA-AA-3495 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AA-3496         TCGA-AA-3502         TCGA-AA-3506 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AA-3510         TCGA-AA-3511         TCGA-AA-3655 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AA-3660         TCGA-AA-3662         TCGA-AA-3663 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AA-3697         TCGA-AA-3712         TCGA-AA-3713 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AD-5900         TCGA-AD-6548         TCGA-AD-6888 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AD-6889         TCGA-AD-6890         TCGA-AD-6895 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AD-6899         TCGA-AD-6901         TCGA-AD-6963 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AD-6964         TCGA-AD-6965         TCGA-AD-A5EJ 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AD-A5EK         TCGA-AM-5820         TCGA-AM-5821 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AU-3779         TCGA-AU-6004         TCGA-AY-5543 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AY-6196         TCGA-AY-6197         TCGA-AY-6386 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AY-A54L         TCGA-AY-A69D         TCGA-AY-A71X 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AY-A8YK         TCGA-AZ-4308         TCGA-AZ-4313 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AZ-4315         TCGA-AZ-4323         TCGA-AZ-4614 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AZ-4615         TCGA-AZ-4616         TCGA-AZ-4681 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AZ-4682         TCGA-AZ-4684         TCGA-AZ-5403 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AZ-5407         TCGA-AZ-6598         TCGA-AZ-6599 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AZ-6600         TCGA-AZ-6601         TCGA-AZ-6603 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AZ-6605         TCGA-AZ-6606         TCGA-AZ-6607 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AZ-6608         TCGA-CA-5254         TCGA-CA-5255 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-CA-5256         TCGA-CA-5796         TCGA-CA-5797 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-CA-6715         TCGA-CA-6716         TCGA-CA-6717 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-CA-6718         TCGA-CA-6719         TCGA-CK-4947 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-CK-4948         TCGA-CK-4950         TCGA-CK-4951 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-CK-4952         TCGA-CK-5912         TCGA-CK-5913 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-CK-5914         TCGA-CK-5915         TCGA-CK-5916 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-CK-6746         TCGA-CK-6747         TCGA-CK-6748 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-CK-6751         TCGA-CM-4743         TCGA-CM-4744 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-CM-4746         TCGA-CM-4747         TCGA-CM-4748 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-CM-4750         TCGA-CM-4751         TCGA-CM-4752 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-CM-5341         TCGA-CM-5344         TCGA-CM-5348 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-CM-5349         TCGA-CM-5860         TCGA-CM-5861 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-CM-5862         TCGA-CM-5863         TCGA-CM-5864 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-CM-5868         TCGA-CM-6161         TCGA-CM-6162 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-CM-6163         TCGA-CM-6164         TCGA-CM-6165 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-CM-6166         TCGA-CM-6167         TCGA-CM-6169 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-CM-6170         TCGA-CM-6171         TCGA-CM-6172 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-CM-6674         TCGA-CM-6675         TCGA-CM-6676 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-CM-6677         TCGA-CM-6678         TCGA-CM-6679 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-CM-6680         TCGA-D5-5537         TCGA-D5-5538 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-D5-5539         TCGA-D5-5540         TCGA-D5-5541 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-D5-6529         TCGA-D5-6530         TCGA-D5-6531 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-D5-6532         TCGA-D5-6533         TCGA-D5-6534 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-D5-6535         TCGA-D5-6536         TCGA-D5-6537 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-D5-6538         TCGA-D5-6539         TCGA-D5-6540 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-D5-6541         TCGA-D5-6898         TCGA-D5-6920 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-D5-6922         TCGA-D5-6923         TCGA-D5-6924 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-D5-6926         TCGA-D5-6927         TCGA-D5-6928 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-D5-6929         TCGA-D5-6930         TCGA-D5-6931 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-D5-6932         TCGA-D5-7000         TCGA-DM-A0X9 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-DM-A0XD         TCGA-DM-A0XF         TCGA-DM-A1D0 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-DM-A1D4         TCGA-DM-A1D6         TCGA-DM-A1D7 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-DM-A1D8         TCGA-DM-A1D9         TCGA-DM-A1DA 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-DM-A1DB         TCGA-DM-A1HA         TCGA-DM-A1HB 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-DM-A280         TCGA-DM-A282         TCGA-DM-A285 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-DM-A288         TCGA-DM-A28A         TCGA-DM-A28C 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-DM-A28E         TCGA-DM-A28F         TCGA-DM-A28G 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-DM-A28H         TCGA-DM-A28K         TCGA-DM-A28M 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-F4-6459         TCGA-F4-6460         TCGA-F4-6461 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-F4-6463         TCGA-F4-6569         TCGA-F4-6570 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-F4-6703         TCGA-F4-6704         TCGA-F4-6805 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-F4-6806         TCGA-F4-6807         TCGA-F4-6808 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-F4-6809         TCGA-F4-6854         TCGA-F4-6855 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-F4-6856         TCGA-G4-6293         TCGA-G4-6294 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-G4-6295         TCGA-G4-6297         TCGA-G4-6298 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-G4-6299         TCGA-G4-6302         TCGA-G4-6303 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-G4-6304         TCGA-G4-6306         TCGA-G4-6307 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-G4-6309         TCGA-G4-6310         TCGA-G4-6311 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-G4-6314         TCGA-G4-6315         TCGA-G4-6317 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-G4-6320         TCGA-G4-6321         TCGA-G4-6322 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-G4-6323         TCGA-G4-6586         TCGA-G4-6588 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-G4-6625         TCGA-G4-6626         TCGA-G4-6627 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-G4-6628         TCGA-NH-A50T         TCGA-NH-A50U 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-NH-A5IV         TCGA-NH-A6GA         TCGA-NH-A6GB 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-NH-A6GC         TCGA-NH-A8F7         TCGA-NH-A8F8 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-QG-A5YV         TCGA-QG-A5YW         TCGA-QG-A5YX 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-QG-A5Z1         TCGA-QG-A5Z2         TCGA-QL-A97D 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-RU-A8FL         TCGA-SS-A7HO         TCGA-T9-A92H 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-WS-AB45 
"20Q LOSS WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  20Q LOSS MUTATED        0      0      3
  20Q LOSS WILD-TYPE     85    145    122
D77V5, multiclass
        clus
vv       20Q LOSS MUTATED 20Q LOSS WILD-TYPE
  CLUS_1                0                 85
  CLUS_2                0                145
  CLUS_3                3                122
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  20Q LOSS MUTATED        0      0      0      0      0      3      0      0
  20Q LOSS WILD-TYPE     51     33     35     39     43     83     22     20
                    vv
clus                 CLUS_9
  20Q LOSS MUTATED        0
  20Q LOSS WILD-TYPE     26
D77V6, multiclass
        clus
vv       20Q LOSS MUTATED 20Q LOSS WILD-TYPE
  CLUS_1                0                 51
  CLUS_2                0                 33
  CLUS_3                0                 35
  CLUS_4                0                 39
  CLUS_5                0                 43
  CLUS_6                3                 83
  CLUS_7                0                 22
  CLUS_8                0                 20
  CLUS_9                0                 26
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger 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      0      2      2
  20Q LOSS WILD-TYPE    127     94     95    129
D77V7, multiclass
        clus
vv       20Q LOSS MUTATED 20Q LOSS WILD-TYPE
  CLUS_1                0                127
  CLUS_2                0                 94
  CLUS_3                2                 95
  CLUS_4                2                129
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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        1      1      0      1      1
  20Q LOSS WILD-TYPE     78    107     96    128     36
D77V8, multiclass
        clus
vv       20Q LOSS MUTATED 20Q LOSS WILD-TYPE
  CLUS_1                1                 78
  CLUS_2                1                107
  CLUS_3                0                 96
  CLUS_4                1                128
  CLUS_5                1                 36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  20Q LOSS MUTATED        0      0      1      1      1
  20Q LOSS WILD-TYPE     60     88     70     74    103
D77V9, multiclass
        clus
vv       20Q LOSS MUTATED 20Q LOSS WILD-TYPE
  CLUS_1                0                 60
  CLUS_2                0                 88
  CLUS_3                1                 70
  CLUS_4                1                 74
  CLUS_5                1                103
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  20Q LOSS MUTATED        0      1      0      0      0      0      0      1
  20Q LOSS WILD-TYPE     79     54     46     17     55     20     26     41
                    vv
clus                 CLUS_9
  20Q LOSS MUTATED        1
  20Q LOSS WILD-TYPE     57
D77V10, multiclass
        clus
vv       20Q LOSS MUTATED 20Q LOSS WILD-TYPE
  CLUS_1                0                 79
  CLUS_2                1                 54
  CLUS_3                0                 46
  CLUS_4                0                 17
  CLUS_5                0                 55
  CLUS_6                0                 20
  CLUS_7                0                 26
  CLUS_8                1                 41
  CLUS_9                1                 57
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  20Q LOSS MUTATED        0      0      0      0      0      0
  20Q LOSS WILD-TYPE     18     20     16     11     11      9
D77V11, multiclass
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  20Q LOSS MUTATED        0      0      0      0      0      0      0      0
  20Q LOSS WILD-TYPE     12      9      8     12      9      7     13      9
                    vv
clus                 CLUS_9
  20Q LOSS MUTATED        0
  20Q LOSS WILD-TYPE      6
D77V12, multiclass

Clustering(78) Variable = 21Q LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  21Q LOSS MUTATED        2      8     23      3      3
  21Q LOSS WILD-TYPE     29      9     26     24     20
D78V1, multiclass
        clus
vv       21Q LOSS MUTATED 21Q LOSS WILD-TYPE
  CLUS_1                2                 29
  CLUS_2                8                  9
  CLUS_3               23                 26
  CLUS_4                3                 24
  CLUS_5                3                 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
  21Q LOSS MUTATED        5     24     10
  21Q LOSS WILD-TYPE     37     44     27
D78V2, multiclass
        clus
vv       21Q LOSS MUTATED 21Q LOSS WILD-TYPE
  CLUS_1                5                 37
  CLUS_2               24                 44
  CLUS_3               10                 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
  21Q LOSS MUTATED       27     79     18
  21Q LOSS WILD-TYPE     26    142    159
D78V3, multiclass
        clus
vv       21Q LOSS MUTATED 21Q LOSS WILD-TYPE
  CLUS_1               27                 26
  CLUS_2               79                142
  CLUS_3               18                159
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       23     37     23
  21Q LOSS WILD-TYPE     62     66     83
D78V4, multiclass
        clus
vv       21Q LOSS MUTATED 21Q LOSS WILD-TYPE
  CLUS_1               23                 62
  CLUS_2               37                 66
  CLUS_3               23                 83
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       23     41     34
  21Q LOSS WILD-TYPE     62    104     91
D78V5, multiclass
        clus
vv       21Q LOSS MUTATED 21Q LOSS WILD-TYPE
  CLUS_1               23                 62
  CLUS_2               41                104
  CLUS_3               34                 91
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  21Q LOSS MUTATED       18      8     14      9     15     21      3      4
  21Q LOSS WILD-TYPE     33     25     21     30     28     65     19     16
                    vv
clus                 CLUS_9
  21Q LOSS MUTATED        6
  21Q LOSS WILD-TYPE     20
D78V6, multiclass
        clus
vv       21Q LOSS MUTATED 21Q LOSS WILD-TYPE
  CLUS_1               18                 33
  CLUS_2                8                 25
  CLUS_3               14                 21
  CLUS_4                9                 30
  CLUS_5               15                 28
  CLUS_6               21                 65
  CLUS_7                3                 19
  CLUS_8                4                 16
  CLUS_9                6                 20
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger 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       58     12     23     30
  21Q LOSS WILD-TYPE     69     82     74    101
D78V7, multiclass
        clus
vv       21Q LOSS MUTATED 21Q LOSS WILD-TYPE
  CLUS_1               58                 69
  CLUS_2               12                 82
  CLUS_3               23                 74
  CLUS_4               30                101
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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       29     33     18     39      4
  21Q LOSS WILD-TYPE     50     75     78     90     33
D78V8, multiclass
        clus
vv       21Q LOSS MUTATED 21Q LOSS WILD-TYPE
  CLUS_1               29                 50
  CLUS_2               33                 75
  CLUS_3               18                 78
  CLUS_4               39                 90
  CLUS_5                4                 33
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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       22     18     22     24     20
  21Q LOSS WILD-TYPE     38     70     49     51     84
D78V9, multiclass
        clus
vv       21Q LOSS MUTATED 21Q LOSS WILD-TYPE
  CLUS_1               22                 38
  CLUS_2               18                 70
  CLUS_3               22                 49
  CLUS_4               24                 51
  CLUS_5               20                 84
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  21Q LOSS MUTATED       28     11     18      2     18      4      5      7
  21Q LOSS WILD-TYPE     51     44     28     15     37     16     21     35
                    vv
clus                 CLUS_9
  21Q LOSS MUTATED       13
  21Q LOSS WILD-TYPE     45
D78V10, multiclass
        clus
vv       21Q LOSS MUTATED 21Q LOSS WILD-TYPE
  CLUS_1               28                 51
  CLUS_2               11                 44
  CLUS_3               18                 28
  CLUS_4                2                 15
  CLUS_5               18                 37
  CLUS_6                4                 16
  CLUS_7                5                 21
  CLUS_8                7                 35
  CLUS_9               13                 45
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  21Q LOSS MUTATED        9      8      5      2      2      5
  21Q LOSS WILD-TYPE      9     12     11      9      9      4
D78V11, multiclass
        clus
vv       21Q LOSS MUTATED 21Q LOSS WILD-TYPE
  CLUS_1                9                  9
  CLUS_2                8                 12
  CLUS_3                5                 11
  CLUS_4                2                  9
  CLUS_5                2                  9
  CLUS_6                5                  4
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  21Q LOSS MUTATED        7      3      2      5      2      2      4      3
  21Q LOSS WILD-TYPE      5      6      6      7      7      5      9      6
                    vv
clus                 CLUS_9
  21Q LOSS MUTATED        3
  21Q LOSS WILD-TYPE      3
D78V12, multiclass
        clus
vv       21Q LOSS MUTATED 21Q LOSS WILD-TYPE
  CLUS_1                7                  5
  CLUS_2                3                  6
  CLUS_3                2                  6
  CLUS_4                5                  7
  CLUS_5                2                  7
  CLUS_6                2                  5
  CLUS_7                4                  9
  CLUS_8                3                  6
  CLUS_9                3                  3
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(79) Variable = 22Q LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  22Q LOSS MUTATED        3     10     25      5      9
  22Q LOSS WILD-TYPE     28      7     24     22     14
D79V1, multiclass
        clus
vv       22Q LOSS MUTATED 22Q LOSS WILD-TYPE
  CLUS_1                3                 28
  CLUS_2               10                  7
  CLUS_3               25                 24
  CLUS_4                5                 22
  CLUS_5                9                 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
  22Q LOSS MUTATED        4     34     14
  22Q LOSS WILD-TYPE     38     34     23
D79V2, multiclass
        clus
vv       22Q LOSS MUTATED 22Q LOSS WILD-TYPE
  CLUS_1                4                 38
  CLUS_2               34                 34
  CLUS_3               14                 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
  22Q LOSS MUTATED       25    107     14
  22Q LOSS WILD-TYPE     28    114    163
D79V3, multiclass
        clus
vv       22Q LOSS MUTATED 22Q LOSS WILD-TYPE
  CLUS_1               25                 28
  CLUS_2              107                114
  CLUS_3               14                163
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       26     38     26
  22Q LOSS WILD-TYPE     59     65     80
D79V4, multiclass
        clus
vv       22Q LOSS MUTATED 22Q LOSS WILD-TYPE
  CLUS_1               26                 59
  CLUS_2               38                 65
  CLUS_3               26                 80
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       27     50     31
  22Q LOSS WILD-TYPE     58     95     94
D79V5, multiclass
        clus
vv       22Q LOSS MUTATED 22Q LOSS WILD-TYPE
  CLUS_1               27                 58
  CLUS_2               50                 95
  CLUS_3               31                 94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  22Q LOSS MUTATED       17      6     22      8     13     22      7      6
  22Q LOSS WILD-TYPE     34     27     13     31     30     64     15     14
                    vv
clus                 CLUS_9
  22Q LOSS MUTATED        7
  22Q LOSS WILD-TYPE     19
D79V6, multiclass
        clus
vv       22Q LOSS MUTATED 22Q LOSS WILD-TYPE
  CLUS_1               17                 34
  CLUS_2                6                 27
  CLUS_3               22                 13
  CLUS_4                8                 31
  CLUS_5               13                 30
  CLUS_6               22                 64
  CLUS_7                7                 15
  CLUS_8                6                 14
  CLUS_9                7                 19
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger 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       53     13     32     47
  22Q LOSS WILD-TYPE     74     81     65     84
D79V7, multiclass
        clus
vv       22Q LOSS MUTATED 22Q LOSS WILD-TYPE
  CLUS_1               53                 74
  CLUS_2               13                 81
  CLUS_3               32                 65
  CLUS_4               47                 84
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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       35     41     10     57      2
  22Q LOSS WILD-TYPE     44     67     86     72     35
D79V8, multiclass
        clus
vv       22Q LOSS MUTATED 22Q LOSS WILD-TYPE
  CLUS_1               35                 44
  CLUS_2               41                 67
  CLUS_3               10                 86
  CLUS_4               57                 72
  CLUS_5                2                 35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  22Q LOSS MUTATED       23     14     27     34     26
  22Q LOSS WILD-TYPE     37     74     44     41     78
D79V9, multiclass
        clus
vv       22Q LOSS MUTATED 22Q LOSS WILD-TYPE
  CLUS_1               23                 37
  CLUS_2               14                 74
  CLUS_3               27                 44
  CLUS_4               34                 41
  CLUS_5               26                 78
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  22Q LOSS MUTATED       27     17     20      0     17      2      8      9
  22Q LOSS WILD-TYPE     52     38     26     17     38     18     18     33
                    vv
clus                 CLUS_9
  22Q LOSS MUTATED       24
  22Q LOSS WILD-TYPE     34
D79V10, multiclass
        clus
vv       22Q LOSS MUTATED 22Q LOSS WILD-TYPE
  CLUS_1               27                 52
  CLUS_2               17                 38
  CLUS_3               20                 26
  CLUS_4                0                 17
  CLUS_5               17                 38
  CLUS_6                2                 18
  CLUS_7                8                 18
  CLUS_8                9                 33
  CLUS_9               24                 34
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  22Q LOSS MUTATED        8      9      6      4      1      4
  22Q LOSS WILD-TYPE     10     11     10      7     10      5
D79V11, multiclass
        clus
vv       22Q LOSS MUTATED 22Q LOSS WILD-TYPE
  CLUS_1                8                 10
  CLUS_2                9                 11
  CLUS_3                6                 10
  CLUS_4                4                  7
  CLUS_5                1                 10
  CLUS_6                4                  5
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  22Q LOSS MUTATED        4      5      3      3      3      4      4      4
  22Q LOSS WILD-TYPE      8      4      5      9      6      3      9      5
                    vv
clus                 CLUS_9
  22Q LOSS MUTATED        2
  22Q LOSS WILD-TYPE      4
D79V12, multiclass
        clus
vv       22Q LOSS MUTATED 22Q LOSS WILD-TYPE
  CLUS_1                4                  8
  CLUS_2                5                  4
  CLUS_3                3                  5
  CLUS_4                3                  9
  CLUS_5                3                  6
  CLUS_6                4                  3
  CLUS_7                4                  9
  CLUS_8                4                  5
  CLUS_9                2                  4
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(80) Variable = XP LOSS MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  XP LOSS MUTATED        3      3     11      4      1
  XP LOSS WILD-TYPE     28     14     38     23     22
D80V1, multiclass
        clus
vv       XP LOSS MUTATED XP LOSS WILD-TYPE
  CLUS_1               3                28
  CLUS_2               3                14
  CLUS_3              11                38
  CLUS_4               4                23
  CLUS_5               1                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
  XP LOSS MUTATED        2     15      5
  XP LOSS WILD-TYPE     40     53     32
D80V2, multiclass
        clus
vv       XP LOSS MUTATED XP LOSS WILD-TYPE
  CLUS_1               2                40
  CLUS_2              15                53
  CLUS_3               5                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
  XP LOSS MUTATED        7     45     12
  XP LOSS WILD-TYPE     46    176    165
D80V3, multiclass
        clus
vv       XP LOSS MUTATED XP LOSS WILD-TYPE
  CLUS_1               7                46
  CLUS_2              45               176
  CLUS_3              12               165
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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        8     16     17
  XP LOSS WILD-TYPE     77     87     89
D80V4, multiclass
        clus
vv       XP LOSS MUTATED XP LOSS WILD-TYPE
  CLUS_1               8                77
  CLUS_2              16                87
  CLUS_3              17                89
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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        9     29     11
  XP LOSS WILD-TYPE     76    116    114
D80V5, multiclass
        clus
vv       XP LOSS MUTATED XP LOSS WILD-TYPE
  CLUS_1               9                76
  CLUS_2              29               116
  CLUS_3              11               114
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  XP LOSS MUTATED        7      4      9      7      7      6      2      4
  XP LOSS WILD-TYPE     44     29     26     32     36     80     20     16
                   vv
clus                CLUS_9
  XP LOSS MUTATED        3
  XP LOSS WILD-TYPE     23
D80V6, multiclass
        clus
vv       XP LOSS MUTATED XP LOSS WILD-TYPE
  CLUS_1               7                44
  CLUS_2               4                29
  CLUS_3               9                26
  CLUS_4               7                32
  CLUS_5               7                36
  CLUS_6               6                80
  CLUS_7               2                20
  CLUS_8               4                16
  CLUS_9               3                23
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger 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       22     11     12     19
  XP LOSS WILD-TYPE    105     83     85    112
D80V7, multiclass
        clus
vv       XP LOSS MUTATED XP LOSS WILD-TYPE
  CLUS_1              22               105
  CLUS_2              11                83
  CLUS_3              12                85
  CLUS_4              19               112
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 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       10     17     14     21      2
  XP LOSS WILD-TYPE     69     91     82    108     35
D80V8, multiclass
        clus
vv       XP LOSS MUTATED XP LOSS WILD-TYPE
  CLUS_1              10                69
  CLUS_2              17                91
  CLUS_3              14                82
  CLUS_4              21               108
  CLUS_5               2                35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  XP LOSS MUTATED       12      8      6     13     11
  XP LOSS WILD-TYPE     48     80     65     62     93
D80V9, multiclass
        clus
vv       XP LOSS MUTATED XP LOSS WILD-TYPE
  CLUS_1              12                48
  CLUS_2               8                80
  CLUS_3               6                65
  CLUS_4              13                62
  CLUS_5              11                93
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  XP LOSS MUTATED        9      3      5      0     13      7      1      3
  XP LOSS WILD-TYPE     70     52     41     17     42     13     25     39
                   vv
clus                CLUS_9
  XP LOSS MUTATED        9
  XP LOSS WILD-TYPE     49
D80V10, multiclass
        clus
vv       XP LOSS MUTATED XP LOSS WILD-TYPE
  CLUS_1               9                70
  CLUS_2               3                52
  CLUS_3               5                41
  CLUS_4               0                17
  CLUS_5              13                42
  CLUS_6               7                13
  CLUS_7               1                25
  CLUS_8               3                39
  CLUS_9               9                49
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  XP LOSS MUTATED        5      1      1      2      2      1
  XP LOSS WILD-TYPE     13     19     15      9      9      8
D80V11, multiclass
        clus
vv       XP LOSS MUTATED XP LOSS WILD-TYPE
  CLUS_1               5                13
  CLUS_2               1                19
  CLUS_3               1                15
  CLUS_4               2                 9
  CLUS_5               2                 9
  CLUS_6               1                 8
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  XP LOSS MUTATED        0      0      1      2      0      2      2      1
  XP LOSS WILD-TYPE     12      9      7     10      9      5     11      8
                   vv
clus                CLUS_9
  XP LOSS MUTATED        4
  XP LOSS WILD-TYPE      2
D80V12, multiclass
        clus
vv       XP LOSS MUTATED XP LOSS WILD-TYPE
  CLUS_1               0                12
  CLUS_2               0                 9
  CLUS_3               1                 7
  CLUS_4               2                10
  CLUS_5               0                 9
  CLUS_6               2                 5
  CLUS_7               2                11
  CLUS_8               1                 8
  CLUS_9               4                 2
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(81) Variable = XQ LOSS MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  XQ LOSS MUTATED        3      3     10      4      0
  XQ LOSS WILD-TYPE     28     14     39     23     23
D81V1, multiclass
        clus
vv       XQ LOSS MUTATED XQ LOSS WILD-TYPE
  CLUS_1               3                28
  CLUS_2               3                14
  CLUS_3              10                39
  CLUS_4               4                23
  CLUS_5               0                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
  XQ LOSS MUTATED        2     14      4
  XQ LOSS WILD-TYPE     40     54     33
D81V2, multiclass
        clus
vv       XQ LOSS MUTATED XQ LOSS WILD-TYPE
  CLUS_1               2                40
  CLUS_2              14                54
  CLUS_3               4                33
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  XQ LOSS MUTATED        4     38      9
  XQ LOSS WILD-TYPE     49    183    168
D81V3, multiclass
        clus
vv       XQ LOSS MUTATED XQ LOSS WILD-TYPE
  CLUS_1               4                49
  CLUS_2              38               183
  CLUS_3               9               168
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  XQ LOSS MUTATED        4     14     13
  XQ LOSS WILD-TYPE     81     89     93
D81V4, multiclass
        clus
vv       XQ LOSS MUTATED XQ LOSS WILD-TYPE
  CLUS_1               4                81
  CLUS_2              14                89
  CLUS_3              13                93
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  XQ LOSS MUTATED        6     22     10
  XQ LOSS WILD-TYPE     79    123    115
D81V5, multiclass
        clus
vv       XQ LOSS MUTATED XQ LOSS WILD-TYPE
  CLUS_1               6                79
  CLUS_2              22               123
  CLUS_3              10               115
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  XQ LOSS MUTATED        8      1     10      5      3      5      2      3
  XQ LOSS WILD-TYPE     43     32     25     34     40     81     20     17
                   vv
clus                CLUS_9
  XQ LOSS MUTATED        1
  XQ LOSS WILD-TYPE     25
D81V6, multiclass
        clus
vv       XQ LOSS MUTATED XQ LOSS WILD-TYPE
  CLUS_1               8                43
  CLUS_2               1                32
  CLUS_3              10                25
  CLUS_4               5                34
  CLUS_5               3                40
  CLUS_6               5                81
  CLUS_7               2                20
  CLUS_8               3                17
  CLUS_9               1                25
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger 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       19      9      7     16
  XQ LOSS WILD-TYPE    108     85     90    115
D81V7, multiclass
        clus
vv       XQ LOSS MUTATED XQ LOSS WILD-TYPE
  CLUS_1              19               108
  CLUS_2               9                85
  CLUS_3               7                90
  CLUS_4              16               115
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  XQ LOSS MUTATED        7     16      8     18      2
  XQ LOSS WILD-TYPE     72     92     88    111     35
D81V8, multiclass
        clus
vv       XQ LOSS MUTATED XQ LOSS WILD-TYPE
  CLUS_1               7                72
  CLUS_2              16                92
  CLUS_3               8                88
  CLUS_4              18               111
  CLUS_5               2                35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  XQ LOSS MUTATED       13      4      3     11      9
  XQ LOSS WILD-TYPE     47     84     68     64     95
D81V9, multiclass
        clus
vv       XQ LOSS MUTATED XQ LOSS WILD-TYPE
  CLUS_1              13                47
  CLUS_2               4                84
  CLUS_3               3                68
  CLUS_4              11                64
  CLUS_5               9                95
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  XQ LOSS MUTATED        6      3      4      0      9      7      0      3
  XQ LOSS WILD-TYPE     73     52     42     17     46     13     26     39
                   vv
clus                CLUS_9
  XQ LOSS MUTATED        8
  XQ LOSS WILD-TYPE     50
D81V10, multiclass
        clus
vv       XQ LOSS MUTATED XQ LOSS WILD-TYPE
  CLUS_1               6                73
  CLUS_2               3                52
  CLUS_3               4                42
  CLUS_4               0                17
  CLUS_5               9                46
  CLUS_6               7                13
  CLUS_7               0                26
  CLUS_8               3                39
  CLUS_9               8                50
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  XQ LOSS MUTATED        5      1      1      2      1      0
  XQ LOSS WILD-TYPE     13     19     15      9     10      9
D81V11, multiclass
        clus
vv       XQ LOSS MUTATED XQ LOSS WILD-TYPE
  CLUS_1               5                13
  CLUS_2               1                19
  CLUS_3               1                15
  CLUS_4               2                 9
  CLUS_5               1                10
  CLUS_6               0                 9
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  XQ LOSS MUTATED        0      0      2      2      0      1      0      1
  XQ LOSS WILD-TYPE     12      9      6     10      9      6     13      8
                   vv
clus                CLUS_9
  XQ LOSS MUTATED        4
  XQ LOSS WILD-TYPE      2
D81V12, multiclass
        clus
vv       XQ LOSS MUTATED XQ LOSS WILD-TYPE
  CLUS_1               0                12
  CLUS_2               0                 9
  CLUS_3               2                 6
  CLUS_4               2                10
  CLUS_5               0                 9
  CLUS_6               1                 6
  CLUS_7               0                13
  CLUS_8               1                 8
  CLUS_9               4                 2
[1] 9 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
