[1] "ofn"      "-oTOV-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/OV-TP/22555032/OV-TP.transferedmergedcluster.txt"
[1] "dfn:"
[1] "/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_Correlate_Genomic_Events_Preprocess/OV-TP/22534547/transformed.cor.cli.txt"

nPatients in clinical file=596, in cluster file=579, common to both=579
[1]  82 579
[1] "1P GAIN MUTATION ANALYSIS"
[1] 3
  1P GAIN MUTATED 1P GAIN WILD-TYPE 
              173               406 
  1P GAIN MUTATED 1P GAIN WILD-TYPE 
              173               406 
[1] "1Q GAIN MUTATION ANALYSIS"
[1] 3
  1Q GAIN MUTATED 1Q GAIN WILD-TYPE 
              223               356 
  1Q GAIN MUTATED 1Q GAIN WILD-TYPE 
              223               356 
[1] "2P GAIN MUTATION ANALYSIS"
[1] 3
  2P GAIN MUTATED 2P GAIN WILD-TYPE 
              187               392 
  2P GAIN MUTATED 2P GAIN WILD-TYPE 
              187               392 
[1] "2Q GAIN MUTATION ANALYSIS"
[1] 3
  2Q GAIN MUTATED 2Q GAIN WILD-TYPE 
              154               425 
  2Q GAIN MUTATED 2Q GAIN WILD-TYPE 
              154               425 
[1] "3P GAIN MUTATION ANALYSIS"
[1] 3
  3P GAIN MUTATED 3P GAIN WILD-TYPE 
              162               417 
  3P GAIN MUTATED 3P GAIN WILD-TYPE 
              162               417 
[1] "3Q GAIN MUTATION ANALYSIS"
[1] 3
  3Q GAIN MUTATED 3Q GAIN WILD-TYPE 
              278               301 
  3Q GAIN MUTATED 3Q GAIN WILD-TYPE 
              278               301 
[1] "4P GAIN MUTATION ANALYSIS"
[1] 3
  4P GAIN MUTATED 4P GAIN WILD-TYPE 
               61               518 
  4P GAIN MUTATED 4P GAIN WILD-TYPE 
               61               518 
[1] "4Q GAIN MUTATION ANALYSIS"
[1] 3
  4Q GAIN MUTATED 4Q GAIN WILD-TYPE 
               32               547 
  4Q GAIN MUTATED 4Q GAIN WILD-TYPE 
               32               547 
[1] "5P GAIN MUTATION ANALYSIS"
[1] 3
  5P GAIN MUTATED 5P GAIN WILD-TYPE 
              199               380 
  5P GAIN MUTATED 5P GAIN WILD-TYPE 
              199               380 
[1] "5Q GAIN MUTATION ANALYSIS"
[1] 3
  5Q GAIN MUTATED 5Q GAIN WILD-TYPE 
               59               520 
  5Q GAIN MUTATED 5Q GAIN WILD-TYPE 
               59               520 
[1] "6P GAIN MUTATION ANALYSIS"
[1] 3
  6P GAIN MUTATED 6P GAIN WILD-TYPE 
              172               407 
  6P GAIN MUTATED 6P GAIN WILD-TYPE 
              172               407 
[1] "6Q GAIN MUTATION ANALYSIS"
[1] 3
  6Q GAIN MUTATED 6Q GAIN WILD-TYPE 
              100               479 
  6Q GAIN MUTATED 6Q GAIN WILD-TYPE 
              100               479 
[1] "7P GAIN MUTATION ANALYSIS"
[1] 3
  7P GAIN MUTATED 7P GAIN WILD-TYPE 
              177               402 
  7P GAIN MUTATED 7P GAIN WILD-TYPE 
              177               402 
[1] "7Q GAIN MUTATION ANALYSIS"
[1] 3
  7Q GAIN MUTATED 7Q GAIN WILD-TYPE 
              203               376 
  7Q GAIN MUTATED 7Q GAIN WILD-TYPE 
              203               376 
[1] "8P GAIN MUTATION ANALYSIS"
[1] 3
  8P GAIN MUTATED 8P GAIN WILD-TYPE 
              125               454 
  8P GAIN MUTATED 8P GAIN WILD-TYPE 
              125               454 
[1] "8Q GAIN MUTATION ANALYSIS"
[1] 3
  8Q GAIN MUTATED 8Q GAIN WILD-TYPE 
              249               330 
  8Q GAIN MUTATED 8Q GAIN WILD-TYPE 
              249               330 
[1] "9P GAIN MUTATION ANALYSIS"
[1] 3
  9P GAIN MUTATED 9P GAIN WILD-TYPE 
               91               488 
  9P GAIN MUTATED 9P GAIN WILD-TYPE 
               91               488 
[1] "9Q GAIN MUTATION ANALYSIS"
[1] 3
  9Q GAIN MUTATED 9Q GAIN WILD-TYPE 
               43               536 
  9Q GAIN MUTATED 9Q GAIN WILD-TYPE 
               43               536 
[1] "10P GAIN MUTATION ANALYSIS"
[1] 3
  10P GAIN MUTATED 10P GAIN WILD-TYPE 
               189                390 
  10P GAIN MUTATED 10P GAIN WILD-TYPE 
               189                390 
[1] "10Q GAIN MUTATION ANALYSIS"
[1] 3
  10Q GAIN MUTATED 10Q GAIN WILD-TYPE 
               109                470 
  10Q GAIN MUTATED 10Q GAIN WILD-TYPE 
               109                470 
[1] "11P GAIN MUTATION ANALYSIS"
[1] 3
  11P GAIN MUTATED 11P GAIN WILD-TYPE 
                73                506 
  11P GAIN MUTATED 11P GAIN WILD-TYPE 
                73                506 
[1] "11Q GAIN MUTATION ANALYSIS"
[1] 3
  11Q GAIN MUTATED 11Q GAIN WILD-TYPE 
               114                465 
  11Q GAIN MUTATED 11Q GAIN WILD-TYPE 
               114                465 
[1] "12P GAIN MUTATION ANALYSIS"
[1] 3
  12P GAIN MUTATED 12P GAIN WILD-TYPE 
               257                322 
  12P GAIN MUTATED 12P GAIN WILD-TYPE 
               257                322 
[1] "12Q GAIN MUTATION ANALYSIS"
[1] 3
  12Q GAIN MUTATED 12Q GAIN WILD-TYPE 
               178                401 
  12Q GAIN MUTATED 12Q GAIN WILD-TYPE 
               178                401 
[1] "13Q GAIN MUTATION ANALYSIS"
[1] 3
  13Q GAIN MUTATED 13Q GAIN WILD-TYPE 
                61                518 
  13Q GAIN MUTATED 13Q GAIN WILD-TYPE 
                61                518 
[1] "14Q GAIN MUTATION ANALYSIS"
[1] 3
  14Q GAIN MUTATED 14Q GAIN WILD-TYPE 
                58                521 
  14Q GAIN MUTATED 14Q GAIN WILD-TYPE 
                58                521 
[1] "15Q GAIN MUTATION ANALYSIS"
[1] 3
  15Q GAIN MUTATED 15Q GAIN WILD-TYPE 
                38                541 
  15Q GAIN MUTATED 15Q GAIN WILD-TYPE 
                38                541 
[1] "16P GAIN MUTATION ANALYSIS"
[1] 3
  16P GAIN MUTATED 16P GAIN WILD-TYPE 
                59                520 
  16P GAIN MUTATED 16P GAIN WILD-TYPE 
                59                520 
[1] "16Q GAIN MUTATION ANALYSIS"
[1] 3
  16Q GAIN MUTATED 16Q GAIN WILD-TYPE 
                32                547 
  16Q GAIN MUTATED 16Q GAIN WILD-TYPE 
                32                547 
[1] "17P GAIN MUTATION ANALYSIS"
[1] 3
  17P GAIN MUTATED 17P GAIN WILD-TYPE 
                21                558 
  17P GAIN MUTATED 17P GAIN WILD-TYPE 
                21                558 
[1] "17Q GAIN MUTATION ANALYSIS"
[1] 3
  17Q GAIN MUTATED 17Q GAIN WILD-TYPE 
                41                538 
  17Q GAIN MUTATED 17Q GAIN WILD-TYPE 
                41                538 
[1] "18P GAIN MUTATION ANALYSIS"
[1] 3
  18P GAIN MUTATED 18P GAIN WILD-TYPE 
               119                460 
  18P GAIN MUTATED 18P GAIN WILD-TYPE 
               119                460 
[1] "18Q GAIN MUTATION ANALYSIS"
[1] 3
  18Q GAIN MUTATED 18Q GAIN WILD-TYPE 
                67                512 
  18Q GAIN MUTATED 18Q GAIN WILD-TYPE 
                67                512 
[1] "19P GAIN MUTATION ANALYSIS"
[1] 3
  19P GAIN MUTATED 19P GAIN WILD-TYPE 
               170                409 
  19P GAIN MUTATED 19P GAIN WILD-TYPE 
               170                409 
[1] "19Q GAIN MUTATION ANALYSIS"
[1] 3
  19Q GAIN MUTATED 19Q GAIN WILD-TYPE 
               163                416 
  19Q GAIN MUTATED 19Q GAIN WILD-TYPE 
               163                416 
[1] "20P GAIN MUTATION ANALYSIS"
[1] 3
  20P GAIN MUTATED 20P GAIN WILD-TYPE 
               287                292 
  20P GAIN MUTATED 20P GAIN WILD-TYPE 
               287                292 
[1] "20Q GAIN MUTATION ANALYSIS"
[1] 3
  20Q GAIN MUTATED 20Q GAIN WILD-TYPE 
               326                253 
  20Q GAIN MUTATED 20Q GAIN WILD-TYPE 
               326                253 
[1] "21Q GAIN MUTATION ANALYSIS"
[1] 3
  21Q GAIN MUTATED 21Q GAIN WILD-TYPE 
               107                472 
  21Q GAIN MUTATED 21Q GAIN WILD-TYPE 
               107                472 
[1] "22Q GAIN MUTATION ANALYSIS"
[1] 3
  22Q GAIN MUTATED 22Q GAIN WILD-TYPE 
                23                556 
  22Q GAIN MUTATED 22Q GAIN WILD-TYPE 
                23                556 
[1] "XP GAIN MUTATION ANALYSIS"
[1] 3
  XP GAIN MUTATED XP GAIN WILD-TYPE 
               78               501 
  XP GAIN MUTATED XP GAIN WILD-TYPE 
               78               501 
[1] "XQ GAIN MUTATION ANALYSIS"
[1] 3
  XQ GAIN MUTATED XQ GAIN WILD-TYPE 
              108               471 
  XQ GAIN MUTATED XQ GAIN WILD-TYPE 
              108               471 
[1] "1P LOSS MUTATION ANALYSIS"
[1] 3
  1P LOSS MUTATED 1P LOSS WILD-TYPE 
               61               518 
  1P LOSS MUTATED 1P LOSS WILD-TYPE 
               61               518 
[1] "1Q LOSS MUTATION ANALYSIS"
[1] 3
  1Q LOSS MUTATED 1Q LOSS WILD-TYPE 
               40               539 
  1Q LOSS MUTATED 1Q LOSS WILD-TYPE 
               40               539 
[1] "2P LOSS MUTATION ANALYSIS"
[1] 3
  2P LOSS MUTATED 2P LOSS WILD-TYPE 
               52               527 
  2P LOSS MUTATED 2P LOSS WILD-TYPE 
               52               527 
[1] "2Q LOSS MUTATION ANALYSIS"
[1] 3
  2Q LOSS MUTATED 2Q LOSS WILD-TYPE 
               62               517 
  2Q LOSS MUTATED 2Q LOSS WILD-TYPE 
               62               517 
[1] "3P LOSS MUTATION ANALYSIS"
[1] 3
  3P LOSS MUTATED 3P LOSS WILD-TYPE 
               97               482 
  3P LOSS MUTATED 3P LOSS WILD-TYPE 
               97               482 
[1] "3Q LOSS MUTATION ANALYSIS"
[1] 3
  3Q LOSS MUTATED 3Q LOSS WILD-TYPE 
               42               537 
  3Q LOSS MUTATED 3Q LOSS WILD-TYPE 
               42               537 
[1] "4P LOSS MUTATION ANALYSIS"
[1] 3
  4P LOSS MUTATED 4P LOSS WILD-TYPE 
              315               264 
  4P LOSS MUTATED 4P LOSS WILD-TYPE 
              315               264 
[1] "4Q LOSS MUTATION ANALYSIS"
[1] 3
  4Q LOSS MUTATED 4Q LOSS WILD-TYPE 
              363               216 
  4Q LOSS MUTATED 4Q LOSS WILD-TYPE 
              363               216 
[1] "5P LOSS MUTATION ANALYSIS"
[1] 3
  5P LOSS MUTATED 5P LOSS WILD-TYPE 
              134               445 
  5P LOSS MUTATED 5P LOSS WILD-TYPE 
              134               445 
[1] "5Q LOSS MUTATION ANALYSIS"
[1] 3
  5Q LOSS MUTATED 5Q LOSS WILD-TYPE 
              228               351 
  5Q LOSS MUTATED 5Q LOSS WILD-TYPE 
              228               351 
[1] "6P LOSS MUTATION ANALYSIS"
[1] 3
  6P LOSS MUTATED 6P LOSS WILD-TYPE 
              161               418 
  6P LOSS MUTATED 6P LOSS WILD-TYPE 
              161               418 
[1] "6Q LOSS MUTATION ANALYSIS"
[1] 3
  6Q LOSS MUTATED 6Q LOSS WILD-TYPE 
              240               339 
  6Q LOSS MUTATED 6Q LOSS WILD-TYPE 
              240               339 
[1] "7P LOSS MUTATION ANALYSIS"
[1] 3
  7P LOSS MUTATED 7P LOSS WILD-TYPE 
              122               457 
  7P LOSS MUTATED 7P LOSS WILD-TYPE 
              122               457 
[1] "7Q LOSS MUTATION ANALYSIS"
[1] 3
  7Q LOSS MUTATED 7Q LOSS WILD-TYPE 
               79               500 
  7Q LOSS MUTATED 7Q LOSS WILD-TYPE 
               79               500 
[1] "8P LOSS MUTATION ANALYSIS"
[1] 3
  8P LOSS MUTATED 8P LOSS WILD-TYPE 
              272               307 
  8P LOSS MUTATED 8P LOSS WILD-TYPE 
              272               307 
[1] "8Q LOSS MUTATION ANALYSIS"
[1] 3
  8Q LOSS MUTATED 8Q LOSS WILD-TYPE 
               91               488 
  8Q LOSS MUTATED 8Q LOSS WILD-TYPE 
               91               488 
[1] "9P LOSS MUTATION ANALYSIS"
[1] 3
  9P LOSS MUTATED 9P LOSS WILD-TYPE 
              264               315 
  9P LOSS MUTATED 9P LOSS WILD-TYPE 
              264               315 
[1] "9Q LOSS MUTATION ANALYSIS"
[1] 3
  9Q LOSS MUTATED 9Q LOSS WILD-TYPE 
              287               292 
  9Q LOSS MUTATED 9Q LOSS WILD-TYPE 
              287               292 
[1] "10P LOSS MUTATION ANALYSIS"
[1] 3
  10P LOSS MUTATED 10P LOSS WILD-TYPE 
                99                480 
  10P LOSS MUTATED 10P LOSS WILD-TYPE 
                99                480 
[1] "10Q LOSS MUTATION ANALYSIS"
[1] 3
  10Q LOSS MUTATED 10Q LOSS WILD-TYPE 
               127                452 
  10Q LOSS MUTATED 10Q LOSS WILD-TYPE 
               127                452 
[1] "11P LOSS MUTATION ANALYSIS"
[1] 3
  11P LOSS MUTATED 11P LOSS WILD-TYPE 
               200                379 
  11P LOSS MUTATED 11P LOSS WILD-TYPE 
               200                379 
[1] "11Q LOSS MUTATION ANALYSIS"
[1] 3
  11Q LOSS MUTATED 11Q LOSS WILD-TYPE 
               147                432 
  11Q LOSS MUTATED 11Q LOSS WILD-TYPE 
               147                432 
[1] "12P LOSS MUTATION ANALYSIS"
[1] 3
  12P LOSS MUTATED 12P LOSS WILD-TYPE 
                79                500 
  12P LOSS MUTATED 12P LOSS WILD-TYPE 
                79                500 
[1] "12Q LOSS MUTATION ANALYSIS"
[1] 3
  12Q LOSS MUTATED 12Q LOSS WILD-TYPE 
               107                472 
  12Q LOSS MUTATED 12Q LOSS WILD-TYPE 
               107                472 
[1] "13Q LOSS MUTATION ANALYSIS"
[1] 3
  13Q LOSS MUTATED 13Q LOSS WILD-TYPE 
               308                271 
  13Q LOSS MUTATED 13Q LOSS WILD-TYPE 
               308                271 
[1] "14Q LOSS MUTATION ANALYSIS"
[1] 3
  14Q LOSS MUTATED 14Q LOSS WILD-TYPE 
               217                362 
  14Q LOSS MUTATED 14Q LOSS WILD-TYPE 
               217                362 
[1] "15Q LOSS MUTATION ANALYSIS"
[1] 3
  15Q LOSS MUTATED 15Q LOSS WILD-TYPE 
               281                298 
  15Q LOSS MUTATED 15Q LOSS WILD-TYPE 
               281                298 
[1] "16P LOSS MUTATION ANALYSIS"
[1] 3
  16P LOSS MUTATED 16P LOSS WILD-TYPE 
               335                244 
  16P LOSS MUTATED 16P LOSS WILD-TYPE 
               335                244 
[1] "16Q LOSS MUTATION ANALYSIS"
[1] 3
  16Q LOSS MUTATED 16Q LOSS WILD-TYPE 
               413                166 
  16Q LOSS MUTATED 16Q LOSS WILD-TYPE 
               413                166 
[1] "17P LOSS MUTATION ANALYSIS"
[1] 3
  17P LOSS MUTATED 17P LOSS WILD-TYPE 
               478                101 
  17P LOSS MUTATED 17P LOSS WILD-TYPE 
               478                101 
[1] "17Q LOSS MUTATION ANALYSIS"
[1] 3
  17Q LOSS MUTATED 17Q LOSS WILD-TYPE 
               387                192 
  17Q LOSS MUTATED 17Q LOSS WILD-TYPE 
               387                192 
[1] "18P LOSS MUTATION ANALYSIS"
[1] 3
  18P LOSS MUTATED 18P LOSS WILD-TYPE 
               233                346 
  18P LOSS MUTATED 18P LOSS WILD-TYPE 
               233                346 
[1] "18Q LOSS MUTATION ANALYSIS"
[1] 3
  18Q LOSS MUTATED 18Q LOSS WILD-TYPE 
               288                291 
  18Q LOSS MUTATED 18Q LOSS WILD-TYPE 
               288                291 
[1] "19P LOSS MUTATION ANALYSIS"
[1] 3
  19P LOSS MUTATED 19P LOSS WILD-TYPE 
               184                395 
  19P LOSS MUTATED 19P LOSS WILD-TYPE 
               184                395 
[1] "19Q LOSS MUTATION ANALYSIS"
[1] 3
  19Q LOSS MUTATED 19Q LOSS WILD-TYPE 
               175                404 
  19Q LOSS MUTATED 19Q LOSS WILD-TYPE 
               175                404 
[1] "20P LOSS MUTATION ANALYSIS"
[1] 3
  20P LOSS MUTATED 20P LOSS WILD-TYPE 
                51                528 
  20P LOSS MUTATED 20P LOSS WILD-TYPE 
                51                528 
[1] "20Q LOSS MUTATION ANALYSIS"
[1] 3
  20Q LOSS MUTATED 20Q LOSS WILD-TYPE 
                33                546 
  20Q LOSS MUTATED 20Q LOSS WILD-TYPE 
                33                546 
[1] "21Q LOSS MUTATION ANALYSIS"
[1] 3
  21Q LOSS MUTATED 21Q LOSS WILD-TYPE 
               202                377 
  21Q LOSS MUTATED 21Q LOSS WILD-TYPE 
               202                377 
[1] "22Q LOSS MUTATION ANALYSIS"
[1] 3
  22Q LOSS MUTATED 22Q LOSS WILD-TYPE 
               431                148 
  22Q LOSS MUTATED 22Q LOSS WILD-TYPE 
               431                148 
[1] "XP LOSS MUTATION ANALYSIS"
[1] 3
  XP LOSS MUTATED XP LOSS WILD-TYPE 
              328               251 
  XP LOSS MUTATED XP LOSS WILD-TYPE 
              328               251 
[1] "XQ LOSS MUTATION ANALYSIS"
[1] 3
  XQ LOSS MUTATED XQ LOSS WILD-TYPE 
              285               294 
  XQ LOSS MUTATED XQ LOSS WILD-TYPE 
              285               294 
[1] "data2feature, selection=ALL"
 [1] "MRNA_CNMF"                   "MRNA_CHIERARCHICAL"         
 [3] "MIR_CNMF"                    "MIR_CHIERARCHICAL"          
 [5] "CN_CNMF"                     "METHLYATION_CNMF"           
 [7] "RPPA_CNMF"                   "RPPA_CHIERARCHICAL"         
 [9] "MRNASEQ_CNMF"                "MRNASEQ_CHIERARCHICAL"      
[11] "MIRSEQ_CNMF"                 "MIRSEQ_CHIERARCHICAL"       
[13] "MIRSEQ_MATURE_CNMF"          "MIRSEQ_MATURE_CHIERARCHICAL"

Input Data has 14 rows and 579 columns.

Variable 1:'MRNA_CNMF':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 2:'MRNA_CHIERARCHICAL':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 3:'MIR_CNMF':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 4:'MIR_CHIERARCHICAL':	nDistinctValues=10,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 5:'CN_CNMF':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 6:'METHLYATION_CNMF':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 7:'RPPA_CNMF':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 8:'RPPA_CHIERARCHICAL':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 9:'MRNASEQ_CNMF':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 10:'MRNASEQ_CHIERARCHICAL':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 11:'MIRSEQ_CNMF':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 12:'MIRSEQ_CHIERARCHICAL':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 13:'MIRSEQ_MATURE_CNMF':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 14:'MIRSEQ_MATURE_CHIERARCHICAL':	nDistinctValues=6,	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 579 columns, 0 survival variables, and 14 non-survival variables.
[1] "* survival variables: "
NULL
[1] "* non-survival variables: "
 [1] "MRNA_CNMF"                   "MRNA_CHIERARCHICAL"         
 [3] "MIR_CNMF"                    "MIR_CHIERARCHICAL"          
 [5] "CN_CNMF"                     "METHLYATION_CNMF"           
 [7] "RPPA_CNMF"                   "RPPA_CHIERARCHICAL"         
 [9] "MRNASEQ_CNMF"                "MRNASEQ_CHIERARCHICAL"      
[11] "MIRSEQ_CNMF"                 "MIRSEQ_CHIERARCHICAL"       
[13] "MIRSEQ_MATURE_CNMF"          "MIRSEQ_MATURE_CHIERARCHICAL"
MRNA_CNMF, nv=4, binary=FALSE, numeric=FALSE
MRNA_CHIERARCHICAL, nv=3, binary=FALSE, numeric=FALSE
MIR_CNMF, nv=3, binary=FALSE, numeric=FALSE
MIR_CHIERARCHICAL, nv=10, binary=FALSE, numeric=FALSE
CN_CNMF, nv=3, binary=FALSE, numeric=FALSE
METHLYATION_CNMF, nv=4, binary=FALSE, numeric=FALSE
RPPA_CNMF, nv=3, binary=FALSE, numeric=FALSE
RPPA_CHIERARCHICAL, nv=4, binary=FALSE, numeric=FALSE
MRNASEQ_CNMF, nv=3, binary=FALSE, numeric=FALSE
MRNASEQ_CHIERARCHICAL, nv=3, binary=FALSE, numeric=FALSE
MIRSEQ_CNMF, nv=4, binary=FALSE, numeric=FALSE
MIRSEQ_CHIERARCHICAL, nv=4, binary=FALSE, numeric=FALSE
MIRSEQ_MATURE_CNMF, nv=4, binary=FALSE, numeric=FALSE
MIRSEQ_MATURE_CHIERARCHICAL, nv=6, binary=FALSE, numeric=FALSE

Clustering(1) Variable = 1P GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  1P GAIN MUTATED       50     33     25     56
  1P GAIN WILD-TYPE    126     79     93     95
D1V1, multiclass
        clus
vv       1P GAIN MUTATED 1P GAIN WILD-TYPE
  CLUS_1              50               126
  CLUS_2              33                79
  CLUS_3              25                93
  CLUS_4              56                95
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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       94     48     22
  1P GAIN WILD-TYPE    216    110     67
D1V2, multiclass
        clus
vv       1P GAIN MUTATED 1P GAIN WILD-TYPE
  CLUS_1              94               216
  CLUS_2              48               110
  CLUS_3              22                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
  1P GAIN MUTATED       58     30     74
  1P GAIN WILD-TYPE    123    101    169
D1V3, multiclass
        clus
vv       1P GAIN MUTATED 1P GAIN WILD-TYPE
  CLUS_1              58               123
  CLUS_2              30               101
  CLUS_3              74               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_10 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  1P GAIN MUTATED       28      12     16     29      9     21     11     11
  1P GAIN WILD-TYPE     57      45     42     53     25     54     23     25
                   vv
clus                CLUS_8 CLUS_9
  1P GAIN MUTATED       16      9
  1P GAIN WILD-TYPE     36     33
D1V4, multiclass
         clus
vv        1P GAIN MUTATED 1P GAIN WILD-TYPE
  CLUS_1               28                57
  CLUS_10              12                45
  CLUS_2               16                42
  CLUS_3               29                53
  CLUS_4                9                25
  CLUS_5               21                54
  CLUS_6               11                23
  CLUS_7               11                25
  CLUS_8               16                36
  CLUS_9                9                33
[1] 10  2
[1] TRUE
[1] "dimension of contingency table 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      103     25     45
  1P GAIN WILD-TYPE    139    105    162
D1V5, multiclass
        clus
vv       1P GAIN MUTATED 1P GAIN WILD-TYPE
  CLUS_1             103               139
  CLUS_2              25               105
  CLUS_3              45               162
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger 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       39     33     35     63
  1P GAIN WILD-TYPE     74     65    152    107
D1V6, multiclass
        clus
vv       1P GAIN MUTATED 1P GAIN WILD-TYPE
  CLUS_1              39                74
  CLUS_2              33                65
  CLUS_3              35               152
  CLUS_4              63               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
  1P GAIN MUTATED       36     55     24
  1P GAIN WILD-TYPE    110    134     52
D1V7, multiclass
        clus
vv       1P GAIN MUTATED 1P GAIN WILD-TYPE
  CLUS_1              36               110
  CLUS_2              55               134
  CLUS_3              24                52
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  1P GAIN MUTATED       42     17     14     42
  1P GAIN WILD-TYPE    101     37     46    112
D1V8, multiclass
        clus
vv       1P GAIN MUTATED 1P GAIN WILD-TYPE
  CLUS_1              42               101
  CLUS_2              17                37
  CLUS_3              14                46
  CLUS_4              42               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
  1P GAIN MUTATED       22     40     31
  1P GAIN WILD-TYPE     57     69     81
D1V9, multiclass
        clus
vv       1P GAIN MUTATED 1P GAIN WILD-TYPE
  CLUS_1              22                57
  CLUS_2              40                69
  CLUS_3              31                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
  1P GAIN MUTATED       43     22     28
  1P GAIN WILD-TYPE    103     37     67
D1V10, multiclass
        clus
vv       1P GAIN MUTATED 1P GAIN WILD-TYPE
  CLUS_1              43               103
  CLUS_2              22                37
  CLUS_3              28                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
  1P GAIN MUTATED       18     48     43     33
  1P GAIN WILD-TYPE     53     87     98     67
D1V11, multiclass
        clus
vv       1P GAIN MUTATED 1P GAIN WILD-TYPE
  CLUS_1              18                53
  CLUS_2              48                87
  CLUS_3              43                98
  CLUS_4              33                67
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger 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       27     21     58     36
  1P GAIN WILD-TYPE     78     50    107     70
D1V12, multiclass
        clus
vv       1P GAIN MUTATED 1P GAIN WILD-TYPE
  CLUS_1              27                78
  CLUS_2              21                50
  CLUS_3              58               107
  CLUS_4              36                70
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  1P GAIN MUTATED        4      1      1      4
  1P GAIN WILD-TYPE      2      5      4      1
D1V13, multiclass
        clus
vv       1P GAIN MUTATED 1P GAIN WILD-TYPE
  CLUS_1               4                 2
  CLUS_2               1                 5
  CLUS_3               1                 4
  CLUS_4               4                 1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  1P GAIN MUTATED        2      0      0      1      3      4
  1P GAIN WILD-TYPE      3      2      2      3      2      0
D1V14, multiclass
        clus
vv       1P GAIN MUTATED 1P GAIN WILD-TYPE
  CLUS_1               2                 3
  CLUS_2               0                 2
  CLUS_3               0                 2
  CLUS_4               1                 3
  CLUS_5               3                 2
  CLUS_6               4                 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"

Clustering(2) Variable = 1Q GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  1Q GAIN MUTATED       76     38     37     61
  1Q GAIN WILD-TYPE    100     74     81     90
D2V1, multiclass
        clus
vv       1Q GAIN MUTATED 1Q GAIN WILD-TYPE
  CLUS_1              76               100
  CLUS_2              38                74
  CLUS_3              37                81
  CLUS_4              61                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
  1Q GAIN MUTATED      119     52     41
  1Q GAIN WILD-TYPE    191    106     48
D2V2, multiclass
        clus
vv       1Q GAIN MUTATED 1Q GAIN WILD-TYPE
  CLUS_1             119               191
  CLUS_2              52               106
  CLUS_3              41                48
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  1Q GAIN MUTATED       70     42     98
  1Q GAIN WILD-TYPE    111     89    145
D2V3, multiclass
        clus
vv       1Q GAIN MUTATED 1Q GAIN WILD-TYPE
  CLUS_1              70               111
  CLUS_2              42                89
  CLUS_3              98               145
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_10 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  1Q GAIN MUTATED       32      18     23     31      8     34     12     15
  1Q GAIN WILD-TYPE     53      39     35     51     26     41     22     21
                   vv
clus                CLUS_8 CLUS_9
  1Q GAIN MUTATED       28      9
  1Q GAIN WILD-TYPE     24     33
D2V4, multiclass
         clus
vv        1Q GAIN MUTATED 1Q GAIN WILD-TYPE
  CLUS_1               32                53
  CLUS_10              18                39
  CLUS_2               23                35
  CLUS_3               31                51
  CLUS_4                8                26
  CLUS_5               34                41
  CLUS_6               12                22
  CLUS_7               15                21
  CLUS_8               28                24
  CLUS_9                9                33
[1] 10  2
[1] TRUE
[1] "dimension of contingency table 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      133     37     53
  1Q GAIN WILD-TYPE    109     93    154
D2V5, multiclass
        clus
vv       1Q GAIN MUTATED 1Q GAIN WILD-TYPE
  CLUS_1             133               109
  CLUS_2              37                93
  CLUS_3              53               154
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger 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       43     49     43     84
  1Q GAIN WILD-TYPE     70     49    144     86
D2V6, multiclass
        clus
vv       1Q GAIN MUTATED 1Q GAIN WILD-TYPE
  CLUS_1              43                70
  CLUS_2              49                49
  CLUS_3              43               144
  CLUS_4              84                86
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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       54     78     25
  1Q GAIN WILD-TYPE     92    111     51
D2V7, multiclass
        clus
vv       1Q GAIN MUTATED 1Q GAIN WILD-TYPE
  CLUS_1              54                92
  CLUS_2              78               111
  CLUS_3              25                51
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  1Q GAIN MUTATED       55     22     18     62
  1Q GAIN WILD-TYPE     88     32     42     92
D2V8, multiclass
        clus
vv       1Q GAIN MUTATED 1Q GAIN WILD-TYPE
  CLUS_1              55                88
  CLUS_2              22                32
  CLUS_3              18                42
  CLUS_4              62                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
  1Q GAIN MUTATED       27     56     39
  1Q GAIN WILD-TYPE     52     53     73
D2V9, multiclass
        clus
vv       1Q GAIN MUTATED 1Q GAIN WILD-TYPE
  CLUS_1              27                52
  CLUS_2              56                53
  CLUS_3              39                73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       54     33     35
  1Q GAIN WILD-TYPE     92     26     60
D2V10, multiclass
        clus
vv       1Q GAIN MUTATED 1Q GAIN WILD-TYPE
  CLUS_1              54                92
  CLUS_2              33                26
  CLUS_3              35                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
  1Q GAIN MUTATED       24     59     58     39
  1Q GAIN WILD-TYPE     47     76     83     61
D2V11, multiclass
        clus
vv       1Q GAIN MUTATED 1Q GAIN WILD-TYPE
  CLUS_1              24                47
  CLUS_2              59                76
  CLUS_3              58                83
  CLUS_4              39                61
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger 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       29     30     72     49
  1Q GAIN WILD-TYPE     76     41     93     57
D2V12, multiclass
        clus
vv       1Q GAIN MUTATED 1Q GAIN WILD-TYPE
  CLUS_1              29                76
  CLUS_2              30                41
  CLUS_3              72                93
  CLUS_4              49                57
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger 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        5      2      0      4
  1Q GAIN WILD-TYPE      1      4      5      1
D2V13, multiclass
        clus
vv       1Q GAIN MUTATED 1Q GAIN WILD-TYPE
  CLUS_1               5                 1
  CLUS_2               2                 4
  CLUS_3               0                 5
  CLUS_4               4                 1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  1Q GAIN MUTATED        3      0      0      2      2      4
  1Q GAIN WILD-TYPE      2      2      2      2      3      0
D2V14, multiclass
        clus
vv       1Q GAIN MUTATED 1Q GAIN WILD-TYPE
  CLUS_1               3                 2
  CLUS_2               0                 2
  CLUS_3               0                 2
  CLUS_4               2                 2
  CLUS_5               2                 3
  CLUS_6               4                 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"

Clustering(3) Variable = 2P GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  2P GAIN MUTATED       87     31     24     33
  2P GAIN WILD-TYPE     89     81     94    118
D3V1, multiclass
        clus
vv       2P GAIN MUTATED 2P GAIN WILD-TYPE
  CLUS_1              87                89
  CLUS_2              31                81
  CLUS_3              24                94
  CLUS_4              33               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
  2P GAIN MUTATED       77     48     50
  2P GAIN WILD-TYPE    233    110     39
D3V2, multiclass
        clus
vv       2P GAIN MUTATED 2P GAIN WILD-TYPE
  CLUS_1              77               233
  CLUS_2              48               110
  CLUS_3              50                39
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  2P GAIN MUTATED       52     36     87
  2P GAIN WILD-TYPE    129     95    156
D3V3, multiclass
        clus
vv       2P GAIN MUTATED 2P GAIN WILD-TYPE
  CLUS_1              52               129
  CLUS_2              36                95
  CLUS_3              87               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_10 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  2P GAIN MUTATED       21      16     22     22     10     21     17      7
  2P GAIN WILD-TYPE     64      41     36     60     24     54     17     29
                   vv
clus                CLUS_8 CLUS_9
  2P GAIN MUTATED       30      9
  2P GAIN WILD-TYPE     22     33
D3V4, multiclass
         clus
vv        2P GAIN MUTATED 2P GAIN WILD-TYPE
  CLUS_1               21                64
  CLUS_10              16                41
  CLUS_2               22                36
  CLUS_3               22                60
  CLUS_4               10                24
  CLUS_5               21                54
  CLUS_6               17                17
  CLUS_7                7                29
  CLUS_8               30                22
  CLUS_9                9                33
[1] 10  2
[1] TRUE
[1] "dimension of contingency table 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      117     22     48
  2P GAIN WILD-TYPE    125    108    159
D3V5, multiclass
        clus
vv       2P GAIN MUTATED 2P GAIN WILD-TYPE
  CLUS_1             117               125
  CLUS_2              22               108
  CLUS_3              48               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 CLUS_4
  2P GAIN MUTATED       35     39     31     75
  2P GAIN WILD-TYPE     78     59    156     95
D3V6, multiclass
        clus
vv       2P GAIN MUTATED 2P GAIN WILD-TYPE
  CLUS_1              35                78
  CLUS_2              39                59
  CLUS_3              31               156
  CLUS_4              75                95
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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       47     74     14
  2P GAIN WILD-TYPE     99    115     62
D3V7, multiclass
        clus
vv       2P GAIN MUTATED 2P GAIN WILD-TYPE
  CLUS_1              47                99
  CLUS_2              74               115
  CLUS_3              14                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 CLUS_4
  2P GAIN MUTATED       48     13     23     51
  2P GAIN WILD-TYPE     95     41     37    103
D3V8, multiclass
        clus
vv       2P GAIN MUTATED 2P GAIN WILD-TYPE
  CLUS_1              48                95
  CLUS_2              13                41
  CLUS_3              23                37
  CLUS_4              51               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
  2P GAIN MUTATED       13     55     40
  2P GAIN WILD-TYPE     66     54     72
D3V9, multiclass
        clus
vv       2P GAIN MUTATED 2P GAIN WILD-TYPE
  CLUS_1              13                66
  CLUS_2              55                54
  CLUS_3              40                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
  2P GAIN MUTATED       34     38     36
  2P GAIN WILD-TYPE    112     21     59
D3V10, multiclass
        clus
vv       2P GAIN MUTATED 2P GAIN WILD-TYPE
  CLUS_1              34               112
  CLUS_2              38                21
  CLUS_3              36                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
  2P GAIN MUTATED       23     38     50     36
  2P GAIN WILD-TYPE     48     97     91     64
D3V11, multiclass
        clus
vv       2P GAIN MUTATED 2P GAIN WILD-TYPE
  CLUS_1              23                48
  CLUS_2              38                97
  CLUS_3              50                91
  CLUS_4              36                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
  2P GAIN MUTATED       23     27     64     33
  2P GAIN WILD-TYPE     82     44    101     73
D3V12, multiclass
        clus
vv       2P GAIN MUTATED 2P GAIN WILD-TYPE
  CLUS_1              23                82
  CLUS_2              27                44
  CLUS_3              64               101
  CLUS_4              33                73
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  2P GAIN MUTATED        1      2      2      4
  2P GAIN WILD-TYPE      5      4      3      1
D3V13, multiclass
        clus
vv       2P GAIN MUTATED 2P GAIN WILD-TYPE
  CLUS_1               1                 5
  CLUS_2               2                 4
  CLUS_3               2                 3
  CLUS_4               4                 1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  2P GAIN MUTATED        1      1      0      1      4      2
  2P GAIN WILD-TYPE      4      1      2      3      1      2
D3V14, multiclass
        clus
vv       2P GAIN MUTATED 2P GAIN WILD-TYPE
  CLUS_1               1                 4
  CLUS_2               1                 1
  CLUS_3               0                 2
  CLUS_4               1                 3
  CLUS_5               4                 1
  CLUS_6               2                 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"

Clustering(4) Variable = 2Q GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  2Q GAIN MUTATED       68     25     25     28
  2Q GAIN WILD-TYPE    108     87     93    123
D4V1, multiclass
        clus
vv       2Q GAIN MUTATED 2Q GAIN WILD-TYPE
  CLUS_1              68               108
  CLUS_2              25                87
  CLUS_3              25                93
  CLUS_4              28               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
  2Q GAIN MUTATED       69     36     41
  2Q GAIN WILD-TYPE    241    122     48
D4V2, multiclass
        clus
vv       2Q GAIN MUTATED 2Q GAIN WILD-TYPE
  CLUS_1              69               241
  CLUS_2              36               122
  CLUS_3              41                48
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  2Q GAIN MUTATED       43     33     69
  2Q GAIN WILD-TYPE    138     98    174
D4V3, multiclass
        clus
vv       2Q GAIN MUTATED 2Q GAIN WILD-TYPE
  CLUS_1              43               138
  CLUS_2              33                98
  CLUS_3              69               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_10 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  2Q GAIN MUTATED       16      13     17     18      9     20     15      4
  2Q GAIN WILD-TYPE     69      44     41     64     25     55     19     32
                   vv
clus                CLUS_8 CLUS_9
  2Q GAIN MUTATED       24      9
  2Q GAIN WILD-TYPE     28     33
D4V4, multiclass
         clus
vv        2Q GAIN MUTATED 2Q GAIN WILD-TYPE
  CLUS_1               16                69
  CLUS_10              13                44
  CLUS_2               17                41
  CLUS_3               18                64
  CLUS_4                9                25
  CLUS_5               20                55
  CLUS_6               15                19
  CLUS_7                4                32
  CLUS_8               24                28
  CLUS_9                9                33
[1] 10  2
[1] TRUE
[1] "dimension of contingency table 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      100     14     40
  2Q GAIN WILD-TYPE    142    116    167
D4V5, multiclass
        clus
vv       2Q GAIN MUTATED 2Q GAIN WILD-TYPE
  CLUS_1             100               142
  CLUS_2              14               116
  CLUS_3              40               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 CLUS_4
  2Q GAIN MUTATED       32     30     29     59
  2Q GAIN WILD-TYPE     81     68    158    111
D4V6, multiclass
        clus
vv       2Q GAIN MUTATED 2Q GAIN WILD-TYPE
  CLUS_1              32                81
  CLUS_2              30                68
  CLUS_3              29               158
  CLUS_4              59               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
  2Q GAIN MUTATED       36     57     13
  2Q GAIN WILD-TYPE    110    132     63
D4V7, multiclass
        clus
vv       2Q GAIN MUTATED 2Q GAIN WILD-TYPE
  CLUS_1              36               110
  CLUS_2              57               132
  CLUS_3              13                63
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger 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       38     12     17     39
  2Q GAIN WILD-TYPE    105     42     43    115
D4V8, multiclass
        clus
vv       2Q GAIN MUTATED 2Q GAIN WILD-TYPE
  CLUS_1              38               105
  CLUS_2              12                42
  CLUS_3              17                43
  CLUS_4              39               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
  2Q GAIN MUTATED        9     44     31
  2Q GAIN WILD-TYPE     70     65     81
D4V9, multiclass
        clus
vv       2Q GAIN MUTATED 2Q GAIN WILD-TYPE
  CLUS_1               9                70
  CLUS_2              44                65
  CLUS_3              31                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
  2Q GAIN MUTATED       29     29     26
  2Q GAIN WILD-TYPE    117     30     69
D4V10, multiclass
        clus
vv       2Q GAIN MUTATED 2Q GAIN WILD-TYPE
  CLUS_1              29               117
  CLUS_2              29                30
  CLUS_3              26                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
  2Q GAIN MUTATED       15     35     39     33
  2Q GAIN WILD-TYPE     56    100    102     67
D4V11, multiclass
        clus
vv       2Q GAIN MUTATED 2Q GAIN WILD-TYPE
  CLUS_1              15                56
  CLUS_2              35               100
  CLUS_3              39               102
  CLUS_4              33                67
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger 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       16     22     55     29
  2Q GAIN WILD-TYPE     89     49    110     77
D4V12, multiclass
        clus
vv       2Q GAIN MUTATED 2Q GAIN WILD-TYPE
  CLUS_1              16                89
  CLUS_2              22                49
  CLUS_3              55               110
  CLUS_4              29                77
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger 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        1      1      2      2
  2Q GAIN WILD-TYPE      5      5      3      3
D4V13, multiclass
        clus
vv       2Q GAIN MUTATED 2Q GAIN WILD-TYPE
  CLUS_1               1                 5
  CLUS_2               1                 5
  CLUS_3               2                 3
  CLUS_4               2                 3
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  2Q GAIN MUTATED        1      0      0      1      3      1
  2Q GAIN WILD-TYPE      4      2      2      3      2      3
D4V14, multiclass
        clus
vv       2Q GAIN MUTATED 2Q GAIN WILD-TYPE
  CLUS_1               1                 4
  CLUS_2               0                 2
  CLUS_3               0                 2
  CLUS_4               1                 3
  CLUS_5               3                 2
  CLUS_6               1                 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"

Clustering(5) Variable = 3P GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  3P GAIN MUTATED       47     34     32     43
  3P GAIN WILD-TYPE    129     78     86    108
D5V1, multiclass
        clus
vv       3P GAIN MUTATED 3P GAIN WILD-TYPE
  CLUS_1              47               129
  CLUS_2              34                78
  CLUS_3              32                86
  CLUS_4              43               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
  3P GAIN MUTATED       87     47     22
  3P GAIN WILD-TYPE    223    111     67
D5V2, multiclass
        clus
vv       3P GAIN MUTATED 3P GAIN WILD-TYPE
  CLUS_1              87               223
  CLUS_2              47               111
  CLUS_3              22                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
  3P GAIN MUTATED       57     39     59
  3P GAIN WILD-TYPE    124     92    184
D5V3, multiclass
        clus
vv       3P GAIN MUTATED 3P GAIN WILD-TYPE
  CLUS_1              57               124
  CLUS_2              39                92
  CLUS_3              59               184
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_10 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  3P GAIN MUTATED       24      21     20     19     11     21      8     11
  3P GAIN WILD-TYPE     61      36     38     63     23     54     26     25
                   vv
clus                CLUS_8 CLUS_9
  3P GAIN MUTATED       11      9
  3P GAIN WILD-TYPE     41     33
D5V4, multiclass
         clus
vv        3P GAIN MUTATED 3P GAIN WILD-TYPE
  CLUS_1               24                61
  CLUS_10              21                36
  CLUS_2               20                38
  CLUS_3               19                63
  CLUS_4               11                23
  CLUS_5               21                54
  CLUS_6                8                26
  CLUS_7               11                25
  CLUS_8               11                41
  CLUS_9                9                33
[1] 10  2
[1] TRUE
[1] "dimension of contingency table 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       82     23     57
  3P GAIN WILD-TYPE    160    107    150
D5V5, multiclass
        clus
vv       3P GAIN MUTATED 3P GAIN WILD-TYPE
  CLUS_1              82               160
  CLUS_2              23               107
  CLUS_3              57               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 CLUS_4
  3P GAIN MUTATED       41     27     40     51
  3P GAIN WILD-TYPE     72     71    147    119
D5V6, multiclass
        clus
vv       3P GAIN MUTATED 3P GAIN WILD-TYPE
  CLUS_1              41                72
  CLUS_2              27                71
  CLUS_3              40               147
  CLUS_4              51               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
  3P GAIN MUTATED       40     52     24
  3P GAIN WILD-TYPE    106    137     52
D5V7, multiclass
        clus
vv       3P GAIN MUTATED 3P GAIN WILD-TYPE
  CLUS_1              40               106
  CLUS_2              52               137
  CLUS_3              24                52
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  3P GAIN MUTATED       46     15     15     40
  3P GAIN WILD-TYPE     97     39     45    114
D5V8, multiclass
        clus
vv       3P GAIN MUTATED 3P GAIN WILD-TYPE
  CLUS_1              46                97
  CLUS_2              15                39
  CLUS_3              15                45
  CLUS_4              40               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
  3P GAIN MUTATED       19     31     38
  3P GAIN WILD-TYPE     60     78     74
D5V9, multiclass
        clus
vv       3P GAIN MUTATED 3P GAIN WILD-TYPE
  CLUS_1              19                60
  CLUS_2              31                78
  CLUS_3              38                74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       42     17     29
  3P GAIN WILD-TYPE    104     42     66
D5V10, multiclass
        clus
vv       3P GAIN MUTATED 3P GAIN WILD-TYPE
  CLUS_1              42               104
  CLUS_2              17                42
  CLUS_3              29                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 CLUS_4
  3P GAIN MUTATED       21     38     46     22
  3P GAIN WILD-TYPE     50     97     95     78
D5V11, multiclass
        clus
vv       3P GAIN MUTATED 3P GAIN WILD-TYPE
  CLUS_1              21                50
  CLUS_2              38                97
  CLUS_3              46                95
  CLUS_4              22                78
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger 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       26     19     48     34
  3P GAIN WILD-TYPE     79     52    117     72
D5V12, multiclass
        clus
vv       3P GAIN MUTATED 3P GAIN WILD-TYPE
  CLUS_1              26                79
  CLUS_2              19                52
  CLUS_3              48               117
  CLUS_4              34                72
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger 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        2      1      2      2
  3P GAIN WILD-TYPE      4      5      3      3
D5V13, multiclass
        clus
vv       3P GAIN MUTATED 3P GAIN WILD-TYPE
  CLUS_1               2                 4
  CLUS_2               1                 5
  CLUS_3               2                 3
  CLUS_4               2                 3
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  3P GAIN MUTATED        3      0      0      1      2      1
  3P GAIN WILD-TYPE      2      2      2      3      3      3
D5V14, multiclass
        clus
vv       3P GAIN MUTATED 3P GAIN WILD-TYPE
  CLUS_1               3                 2
  CLUS_2               0                 2
  CLUS_3               0                 2
  CLUS_4               1                 3
  CLUS_5               2                 3
  CLUS_6               1                 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"

Clustering(6) Variable = 3Q GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  3Q GAIN MUTATED       94     54     44     75
  3Q GAIN WILD-TYPE     82     58     74     76
D6V1, multiclass
        clus
vv       3Q GAIN MUTATED 3Q GAIN WILD-TYPE
  CLUS_1              94                82
  CLUS_2              54                58
  CLUS_3              44                74
  CLUS_4              75                76
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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      146     76     45
  3Q GAIN WILD-TYPE    164     82     44
D6V2, multiclass
        clus
vv       3Q GAIN MUTATED 3Q GAIN WILD-TYPE
  CLUS_1             146               164
  CLUS_2              76                82
  CLUS_3              45                44
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  3Q GAIN MUTATED       86     70    110
  3Q GAIN WILD-TYPE     95     61    133
D6V3, multiclass
        clus
vv       3Q GAIN MUTATED 3Q GAIN WILD-TYPE
  CLUS_1              86                95
  CLUS_2              70                61
  CLUS_3             110               133
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_10 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  3Q GAIN MUTATED       34      30     30     33     18     38     16     22
  3Q GAIN WILD-TYPE     51      27     28     49     16     37     18     14
                   vv
clus                CLUS_8 CLUS_9
  3Q GAIN MUTATED       29     16
  3Q GAIN WILD-TYPE     23     26
D6V4, multiclass
         clus
vv        3Q GAIN MUTATED 3Q GAIN WILD-TYPE
  CLUS_1               34                51
  CLUS_10              30                27
  CLUS_2               30                28
  CLUS_3               33                49
  CLUS_4               18                16
  CLUS_5               38                37
  CLUS_6               16                18
  CLUS_7               22                14
  CLUS_8               29                23
  CLUS_9               16                26
[1] 10  2
[1] TRUE
[1] "dimension of contingency table 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      149     37     92
  3Q GAIN WILD-TYPE     93     93    115
D6V5, multiclass
        clus
vv       3Q GAIN MUTATED 3Q GAIN WILD-TYPE
  CLUS_1             149                93
  CLUS_2              37                93
  CLUS_3              92               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
  3Q GAIN MUTATED       61     53     64     92
  3Q GAIN WILD-TYPE     52     45    123     78
D6V6, multiclass
        clus
vv       3Q GAIN MUTATED 3Q GAIN WILD-TYPE
  CLUS_1              61                52
  CLUS_2              53                45
  CLUS_3              64               123
  CLUS_4              92                78
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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       68     91     37
  3Q GAIN WILD-TYPE     78     98     39
D6V7, multiclass
        clus
vv       3Q GAIN MUTATED 3Q GAIN WILD-TYPE
  CLUS_1              68                78
  CLUS_2              91                98
  CLUS_3              37                39
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  3Q GAIN MUTATED       73     21     34     68
  3Q GAIN WILD-TYPE     70     33     26     86
D6V8, multiclass
        clus
vv       3Q GAIN MUTATED 3Q GAIN WILD-TYPE
  CLUS_1              73                70
  CLUS_2              21                33
  CLUS_3              34                26
  CLUS_4              68                86
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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       35     61     53
  3Q GAIN WILD-TYPE     44     48     59
D6V9, multiclass
        clus
vv       3Q GAIN MUTATED 3Q GAIN WILD-TYPE
  CLUS_1              35                44
  CLUS_2              61                48
  CLUS_3              53                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
  3Q GAIN MUTATED       69     33     47
  3Q GAIN WILD-TYPE     77     26     48
D6V10, multiclass
        clus
vv       3Q GAIN MUTATED 3Q GAIN WILD-TYPE
  CLUS_1              69                77
  CLUS_2              33                26
  CLUS_3              47                48
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  3Q GAIN MUTATED       35     59     75     44
  3Q GAIN WILD-TYPE     36     76     66     56
D6V11, multiclass
        clus
vv       3Q GAIN MUTATED 3Q GAIN WILD-TYPE
  CLUS_1              35                36
  CLUS_2              59                76
  CLUS_3              75                66
  CLUS_4              44                56
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger 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       38     35     84     56
  3Q GAIN WILD-TYPE     67     36     81     50
D6V12, multiclass
        clus
vv       3Q GAIN MUTATED 3Q GAIN WILD-TYPE
  CLUS_1              38                67
  CLUS_2              35                36
  CLUS_3              84                81
  CLUS_4              56                50
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  3Q GAIN MUTATED        3      2      2      2
  3Q GAIN WILD-TYPE      3      4      3      3
D6V13, multiclass
        clus
vv       3Q GAIN MUTATED 3Q GAIN WILD-TYPE
  CLUS_1               3                 3
  CLUS_2               2                 4
  CLUS_3               2                 3
  CLUS_4               2                 3
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  3Q GAIN MUTATED        4      0      0      2      2      1
  3Q GAIN WILD-TYPE      1      2      2      2      3      3
D6V14, multiclass
        clus
vv       3Q GAIN MUTATED 3Q GAIN WILD-TYPE
  CLUS_1               4                 1
  CLUS_2               0                 2
  CLUS_3               0                 2
  CLUS_4               2                 2
  CLUS_5               2                 3
  CLUS_6               1                 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"

Clustering(7) Variable = 4P GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  4P GAIN MUTATED       18     15      7     17
  4P GAIN WILD-TYPE    158     97    111    134
D7V1, multiclass
        clus
vv       4P GAIN MUTATED 4P GAIN WILD-TYPE
  CLUS_1              18               158
  CLUS_2              15                97
  CLUS_3               7               111
  CLUS_4              17               134
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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       27     21      9
  4P GAIN WILD-TYPE    283    137     80
D7V2, multiclass
        clus
vv       4P GAIN MUTATED 4P GAIN WILD-TYPE
  CLUS_1              27               283
  CLUS_2              21               137
  CLUS_3               9                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
  4P GAIN MUTATED       13     11     33
  4P GAIN WILD-TYPE    168    120    210
D7V3, multiclass
        clus
vv       4P GAIN MUTATED 4P GAIN WILD-TYPE
  CLUS_1              13               168
  CLUS_2              11               120
  CLUS_3              33               210
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_10 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  4P GAIN MUTATED        5       4      2      6      3     13      6      4
  4P GAIN WILD-TYPE     80      53     56     76     31     62     28     32
                   vv
clus                CLUS_8 CLUS_9
  4P GAIN MUTATED        8      6
  4P GAIN WILD-TYPE     44     36
D7V4, multiclass
         clus
vv        4P GAIN MUTATED 4P GAIN WILD-TYPE
  CLUS_1                5                80
  CLUS_10               4                53
  CLUS_2                2                56
  CLUS_3                6                76
  CLUS_4                3                31
  CLUS_5               13                62
  CLUS_6                6                28
  CLUS_7                4                32
  CLUS_8                8                44
  CLUS_9                6                36
[1] 10  2
[1] TRUE
[1] "dimension of contingency table 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       29      8     24
  4P GAIN WILD-TYPE    213    122    183
D7V5, multiclass
        clus
vv       4P GAIN MUTATED 4P GAIN WILD-TYPE
  CLUS_1              29               213
  CLUS_2               8               122
  CLUS_3              24               183
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger 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       11     14     10     23
  4P GAIN WILD-TYPE    102     84    177    147
D7V6, multiclass
        clus
vv       4P GAIN MUTATED 4P GAIN WILD-TYPE
  CLUS_1              11               102
  CLUS_2              14                84
  CLUS_3              10               177
  CLUS_4              23               147
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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       12     25      9
  4P GAIN WILD-TYPE    134    164     67
D7V7, multiclass
        clus
vv       4P GAIN MUTATED 4P GAIN WILD-TYPE
  CLUS_1              12               134
  CLUS_2              25               164
  CLUS_3               9                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
  4P GAIN MUTATED       13      9      9     15
  4P GAIN WILD-TYPE    130     45     51    139
D7V8, multiclass
        clus
vv       4P GAIN MUTATED 4P GAIN WILD-TYPE
  CLUS_1              13               130
  CLUS_2               9                45
  CLUS_3               9                51
  CLUS_4              15               139
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        8     16     16
  4P GAIN WILD-TYPE     71     93     96
D7V9, multiclass
        clus
vv       4P GAIN MUTATED 4P GAIN WILD-TYPE
  CLUS_1               8                71
  CLUS_2              16                93
  CLUS_3              16                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
  4P GAIN MUTATED       15     10     15
  4P GAIN WILD-TYPE    131     49     80
D7V10, multiclass
        clus
vv       4P GAIN MUTATED 4P GAIN WILD-TYPE
  CLUS_1              15               131
  CLUS_2              10                49
  CLUS_3              15                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 CLUS_4
  4P GAIN MUTATED       11     17     14     10
  4P GAIN WILD-TYPE     60    118    127     90
D7V11, multiclass
        clus
vv       4P GAIN MUTATED 4P GAIN WILD-TYPE
  CLUS_1              11                60
  CLUS_2              17               118
  CLUS_3              14               127
  CLUS_4              10                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
  4P GAIN MUTATED        7     12     26      7
  4P GAIN WILD-TYPE     98     59    139     99
D7V12, multiclass
        clus
vv       4P GAIN MUTATED 4P GAIN WILD-TYPE
  CLUS_1               7                98
  CLUS_2              12                59
  CLUS_3              26               139
  CLUS_4               7                99
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger 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        1      0      1      1
  4P GAIN WILD-TYPE      5      6      4      4
D7V13, multiclass
        clus
vv       4P GAIN MUTATED 4P GAIN WILD-TYPE
  CLUS_1               1                 5
  CLUS_2               0                 6
  CLUS_3               1                 4
  CLUS_4               1                 4
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  4P GAIN MUTATED        1      0      0      0      1      1
  4P GAIN WILD-TYPE      4      2      2      4      4      3
D7V14, multiclass
        clus
vv       4P GAIN MUTATED 4P GAIN WILD-TYPE
  CLUS_1               1                 4
  CLUS_2               0                 2
  CLUS_3               0                 2
  CLUS_4               0                 4
  CLUS_5               1                 4
  CLUS_6               1                 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"

Clustering(8) Variable = 4Q GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  4Q GAIN MUTATED       12      5      5      9
  4Q GAIN WILD-TYPE    164    107    113    142
D8V1, multiclass
        clus
vv       4Q GAIN MUTATED 4Q GAIN WILD-TYPE
  CLUS_1              12               164
  CLUS_2               5               107
  CLUS_3               5               113
  CLUS_4               9               142
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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       19      7      5
  4Q GAIN WILD-TYPE    291    151     84
D8V2, multiclass
        clus
vv       4Q GAIN MUTATED 4Q GAIN WILD-TYPE
  CLUS_1              19               291
  CLUS_2               7               151
  CLUS_3               5                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 GAIN MUTATED        6      5     20
  4Q GAIN WILD-TYPE    175    126    223
D8V3, multiclass
        clus
vv       4Q GAIN MUTATED 4Q GAIN WILD-TYPE
  CLUS_1               6               175
  CLUS_2               5               126
  CLUS_3              20               223
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_10 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  4Q GAIN MUTATED        2       3      1      3      1      6      4      3
  4Q GAIN WILD-TYPE     83      54     57     79     33     69     30     33
                   vv
clus                CLUS_8 CLUS_9
  4Q GAIN MUTATED        5      3
  4Q GAIN WILD-TYPE     47     39
D8V4, multiclass
         clus
vv        4Q GAIN MUTATED 4Q GAIN WILD-TYPE
  CLUS_1                2                83
  CLUS_10               3                54
  CLUS_2                1                57
  CLUS_3                3                79
  CLUS_4                1                33
  CLUS_5                6                69
  CLUS_6                4                30
  CLUS_7                3                33
  CLUS_8                5                47
  CLUS_9                3                39
[1] 10  2
[1] TRUE
[1] "dimension of contingency table 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       14      2     16
  4Q GAIN WILD-TYPE    228    128    191
D8V5, multiclass
        clus
vv       4Q GAIN MUTATED 4Q GAIN WILD-TYPE
  CLUS_1              14               228
  CLUS_2               2               128
  CLUS_3              16               191
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger 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        4      6      5     16
  4Q GAIN WILD-TYPE    109     92    182    154
D8V6, multiclass
        clus
vv       4Q GAIN MUTATED 4Q GAIN WILD-TYPE
  CLUS_1               4               109
  CLUS_2               6                92
  CLUS_3               5               182
  CLUS_4              16               154
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        7     14      4
  4Q GAIN WILD-TYPE    139    175     72
D8V7, multiclass
        clus
vv       4Q GAIN MUTATED 4Q GAIN WILD-TYPE
  CLUS_1               7               139
  CLUS_2              14               175
  CLUS_3               4                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 CLUS_4
  4Q GAIN MUTATED        8      4      8      5
  4Q GAIN WILD-TYPE    135     50     52    149
D8V8, multiclass
        clus
vv       4Q GAIN MUTATED 4Q GAIN WILD-TYPE
  CLUS_1               8               135
  CLUS_2               4                50
  CLUS_3               8                52
  CLUS_4               5               149
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        4      9      6
  4Q GAIN WILD-TYPE     75    100    106
D8V9, multiclass
        clus
vv       4Q GAIN MUTATED 4Q GAIN WILD-TYPE
  CLUS_1               4                75
  CLUS_2               9               100
  CLUS_3               6               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
  4Q GAIN MUTATED        8      6      5
  4Q GAIN WILD-TYPE    138     53     90
D8V10, multiclass
        clus
vv       4Q GAIN MUTATED 4Q GAIN WILD-TYPE
  CLUS_1               8               138
  CLUS_2               6                53
  CLUS_3               5                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 CLUS_4
  4Q GAIN MUTATED        5     10      6      6
  4Q GAIN WILD-TYPE     66    125    135     94
D8V11, multiclass
        clus
vv       4Q GAIN MUTATED 4Q GAIN WILD-TYPE
  CLUS_1               5                66
  CLUS_2              10               125
  CLUS_3               6               135
  CLUS_4               6                94
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger 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        3      7     14      3
  4Q GAIN WILD-TYPE    102     64    151    103
D8V12, multiclass
        clus
vv       4Q GAIN MUTATED 4Q GAIN WILD-TYPE
  CLUS_1               3               102
  CLUS_2               7                64
  CLUS_3              14               151
  CLUS_4               3               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
  4Q GAIN MUTATED        0      0      0      0
  4Q GAIN WILD-TYPE      6      6      5      5
D8V13, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  4Q GAIN MUTATED        0      0      0      0      0      0
  4Q GAIN WILD-TYPE      5      2      2      4      5      4
D8V14, multiclass

Clustering(9) Variable = 5P GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  5P GAIN MUTATED       61     41     34     54
  5P GAIN WILD-TYPE    115     71     84     97
D9V1, multiclass
        clus
vv       5P GAIN MUTATED 5P GAIN WILD-TYPE
  CLUS_1              61               115
  CLUS_2              41                71
  CLUS_3              34                84
  CLUS_4              54                97
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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      110     53     27
  5P GAIN WILD-TYPE    200    105     62
D9V2, multiclass
        clus
vv       5P GAIN MUTATED 5P GAIN WILD-TYPE
  CLUS_1             110               200
  CLUS_2              53               105
  CLUS_3              27                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
  5P GAIN MUTATED       64     41     85
  5P GAIN WILD-TYPE    117     90    158
D9V3, multiclass
        clus
vv       5P GAIN MUTATED 5P GAIN WILD-TYPE
  CLUS_1              64               117
  CLUS_2              41                90
  CLUS_3              85               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_10 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  5P GAIN MUTATED       26      16     22     29     11     32     13      9
  5P GAIN WILD-TYPE     59      41     36     53     23     43     21     27
                   vv
clus                CLUS_8 CLUS_9
  5P GAIN MUTATED       18     14
  5P GAIN WILD-TYPE     34     28
D9V4, multiclass
         clus
vv        5P GAIN MUTATED 5P GAIN WILD-TYPE
  CLUS_1               26                59
  CLUS_10              16                41
  CLUS_2               22                36
  CLUS_3               29                53
  CLUS_4               11                23
  CLUS_5               32                43
  CLUS_6               13                21
  CLUS_7                9                27
  CLUS_8               18                34
  CLUS_9               14                28
[1] 10  2
[1] TRUE
[1] "dimension of contingency table 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       95     25     79
  5P GAIN WILD-TYPE    147    105    128
D9V5, multiclass
        clus
vv       5P GAIN MUTATED 5P GAIN WILD-TYPE
  CLUS_1              95               147
  CLUS_2              25               105
  CLUS_3              79               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 CLUS_4
  5P GAIN MUTATED       52     31     49     63
  5P GAIN WILD-TYPE     61     67    138    107
D9V6, multiclass
        clus
vv       5P GAIN MUTATED 5P GAIN WILD-TYPE
  CLUS_1              52                61
  CLUS_2              31                67
  CLUS_3              49               138
  CLUS_4              63               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
  5P GAIN MUTATED       57     61     24
  5P GAIN WILD-TYPE     89    128     52
D9V7, multiclass
        clus
vv       5P GAIN MUTATED 5P GAIN WILD-TYPE
  CLUS_1              57                89
  CLUS_2              61               128
  CLUS_3              24                52
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  5P GAIN MUTATED       57     16     21     48
  5P GAIN WILD-TYPE     86     38     39    106
D9V8, multiclass
        clus
vv       5P GAIN MUTATED 5P GAIN WILD-TYPE
  CLUS_1              57                86
  CLUS_2              16                38
  CLUS_3              21                39
  CLUS_4              48               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
  5P GAIN MUTATED       31     36     33
  5P GAIN WILD-TYPE     48     73     79
D9V9, multiclass
        clus
vv       5P GAIN MUTATED 5P GAIN WILD-TYPE
  CLUS_1              31                48
  CLUS_2              36                73
  CLUS_3              33                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
  5P GAIN MUTATED       54     16     30
  5P GAIN WILD-TYPE     92     43     65
D9V10, multiclass
        clus
vv       5P GAIN MUTATED 5P GAIN WILD-TYPE
  CLUS_1              54                92
  CLUS_2              16                43
  CLUS_3              30                65
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger 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       20     51     45     39
  5P GAIN WILD-TYPE     51     84     96     61
D9V11, multiclass
        clus
vv       5P GAIN MUTATED 5P GAIN WILD-TYPE
  CLUS_1              20                51
  CLUS_2              51                84
  CLUS_3              45                96
  CLUS_4              39                61
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger 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       34     23     63     35
  5P GAIN WILD-TYPE     71     48    102     71
D9V12, multiclass
        clus
vv       5P GAIN MUTATED 5P GAIN WILD-TYPE
  CLUS_1              34                71
  CLUS_2              23                48
  CLUS_3              63               102
  CLUS_4              35                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
  5P GAIN MUTATED        2      2      3      3
  5P GAIN WILD-TYPE      4      4      2      2
D9V13, multiclass
        clus
vv       5P GAIN MUTATED 5P GAIN WILD-TYPE
  CLUS_1               2                 4
  CLUS_2               2                 4
  CLUS_3               3                 2
  CLUS_4               3                 2
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  5P GAIN MUTATED        3      1      0      1      4      1
  5P GAIN WILD-TYPE      2      1      2      3      1      3
D9V14, multiclass
        clus
vv       5P GAIN MUTATED 5P GAIN WILD-TYPE
  CLUS_1               3                 2
  CLUS_2               1                 1
  CLUS_3               0                 2
  CLUS_4               1                 3
  CLUS_5               4                 1
  CLUS_6               1                 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"

Clustering(10) Variable = 5Q GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  5Q GAIN MUTATED       14     16      9     17
  5Q GAIN WILD-TYPE    162     96    109    134
D10V1, multiclass
        clus
vv       5Q GAIN MUTATED 5Q GAIN WILD-TYPE
  CLUS_1              14               162
  CLUS_2              16                96
  CLUS_3               9               109
  CLUS_4              17               134
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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       28     21      7
  5Q GAIN WILD-TYPE    282    137     82
D10V2, multiclass
        clus
vv       5Q GAIN MUTATED 5Q GAIN WILD-TYPE
  CLUS_1              28               282
  CLUS_2              21               137
  CLUS_3               7                82
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       20     13     23
  5Q GAIN WILD-TYPE    161    118    220
D10V3, multiclass
        clus
vv       5Q GAIN MUTATED 5Q GAIN WILD-TYPE
  CLUS_1              20               161
  CLUS_2              13               118
  CLUS_3              23               220
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_10 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  5Q GAIN MUTATED        7       3      8      9      3      8      5      3
  5Q GAIN WILD-TYPE     78      54     50     73     31     67     29     33
                   vv
clus                CLUS_8 CLUS_9
  5Q GAIN MUTATED        4      6
  5Q GAIN WILD-TYPE     48     36
D10V4, multiclass
         clus
vv        5Q GAIN MUTATED 5Q GAIN WILD-TYPE
  CLUS_1                7                78
  CLUS_10               3                54
  CLUS_2                8                50
  CLUS_3                9                73
  CLUS_4                3                31
  CLUS_5                8                67
  CLUS_6                5                29
  CLUS_7                3                33
  CLUS_8                4                48
  CLUS_9                6                36
[1] 10  2
[1] TRUE
[1] "dimension of contingency table 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       30     10     19
  5Q GAIN WILD-TYPE    212    120    188
D10V5, multiclass
        clus
vv       5Q GAIN MUTATED 5Q GAIN WILD-TYPE
  CLUS_1              30               212
  CLUS_2              10               120
  CLUS_3              19               188
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger 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     12     17     15
  5Q GAIN WILD-TYPE     99     86    170    155
D10V6, multiclass
        clus
vv       5Q GAIN MUTATED 5Q GAIN WILD-TYPE
  CLUS_1              14                99
  CLUS_2              12                86
  CLUS_3              17               170
  CLUS_4              15               155
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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       14     18      9
  5Q GAIN WILD-TYPE    132    171     67
D10V7, multiclass
        clus
vv       5Q GAIN MUTATED 5Q GAIN WILD-TYPE
  CLUS_1              14               132
  CLUS_2              18               171
  CLUS_3               9                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
  5Q GAIN MUTATED       15      5      7     14
  5Q GAIN WILD-TYPE    128     49     53    140
D10V8, multiclass
        clus
vv       5Q GAIN MUTATED 5Q GAIN WILD-TYPE
  CLUS_1              15               128
  CLUS_2               5                49
  CLUS_3               7                53
  CLUS_4              14               140
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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      7      9
  5Q GAIN WILD-TYPE     70    102    103
D10V9, multiclass
        clus
vv       5Q GAIN MUTATED 5Q GAIN WILD-TYPE
  CLUS_1               9                70
  CLUS_2               7               102
  CLUS_3               9               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
  5Q GAIN MUTATED       11      3     11
  5Q GAIN WILD-TYPE    135     56     84
D10V10, multiclass
        clus
vv       5Q GAIN MUTATED 5Q GAIN WILD-TYPE
  CLUS_1              11               135
  CLUS_2               3                56
  CLUS_3              11                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 CLUS_4
  5Q GAIN MUTATED        4     13     11     15
  5Q GAIN WILD-TYPE     67    122    130     85
D10V11, multiclass
        clus
vv       5Q GAIN MUTATED 5Q GAIN WILD-TYPE
  CLUS_1               4                67
  CLUS_2              13               122
  CLUS_3              11               130
  CLUS_4              15                85
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger 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       11      7     17      8
  5Q GAIN WILD-TYPE     94     64    148     98
D10V12, multiclass
        clus
vv       5Q GAIN MUTATED 5Q GAIN WILD-TYPE
  CLUS_1              11                94
  CLUS_2               7                64
  CLUS_3              17               148
  CLUS_4               8                98
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  5Q GAIN MUTATED        0      0      0      2
  5Q GAIN WILD-TYPE      6      6      5      3
D10V13, multiclass
[1] "Remove cluster labels:" "5Q GAIN MUTATED"       
clus
  5Q GAIN MUTATED 5Q GAIN WILD-TYPE 
                2                20 
       TCGA-04-1652        TCGA-09-2050        TCGA-09-2054        TCGA-13-0908 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-23-2077        TCGA-24-1928        TCGA-24-2036        TCGA-24-2289 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-24-2290        TCGA-24-2297        TCGA-25-2399        TCGA-25-2400 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-25-2404        TCGA-57-1994        TCGA-59-2363        TCGA-61-1918 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-61-2088        TCGA-61-2098        TCGA-61-2109        TCGA-61-2111 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  5Q GAIN MUTATED        0      0      0      0      1      1
  5Q GAIN WILD-TYPE      5      2      2      4      4      3
D10V14, multiclass
[1] "Remove cluster labels:" "5Q GAIN MUTATED"       
clus
  5Q GAIN MUTATED 5Q GAIN WILD-TYPE 
                2                20 
       TCGA-04-1652        TCGA-09-2050        TCGA-09-2054        TCGA-13-0908 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-23-2077        TCGA-24-1928        TCGA-24-2036        TCGA-24-2289 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-24-2290        TCGA-24-2297        TCGA-25-2399        TCGA-25-2400 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-25-2404        TCGA-57-1994        TCGA-59-2363        TCGA-61-1918 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 
       TCGA-61-2088        TCGA-61-2098        TCGA-61-2109        TCGA-61-2111 
"5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" "5Q GAIN WILD-TYPE" 

Clustering(11) Variable = 6P GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  6P GAIN MUTATED       68     37     13     46
  6P GAIN WILD-TYPE    108     75    105    105
D11V1, multiclass
        clus
vv       6P GAIN MUTATED 6P GAIN WILD-TYPE
  CLUS_1              68               108
  CLUS_2              37                75
  CLUS_3              13               105
  CLUS_4              46               105
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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       80     45     39
  6P GAIN WILD-TYPE    230    113     50
D11V2, multiclass
        clus
vv       6P GAIN MUTATED 6P GAIN WILD-TYPE
  CLUS_1              80               230
  CLUS_2              45               113
  CLUS_3              39                50
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  6P GAIN MUTATED       48     38     77
  6P GAIN WILD-TYPE    133     93    166
D11V3, multiclass
        clus
vv       6P GAIN MUTATED 6P GAIN WILD-TYPE
  CLUS_1              48               133
  CLUS_2              38                93
  CLUS_3              77               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_10 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  6P GAIN MUTATED       21      15     14     19     12     28     11     12
  6P GAIN WILD-TYPE     64      42     44     63     22     47     23     24
                   vv
clus                CLUS_8 CLUS_9
  6P GAIN MUTATED       25      6
  6P GAIN WILD-TYPE     27     36
D11V4, multiclass
         clus
vv        6P GAIN MUTATED 6P GAIN WILD-TYPE
  CLUS_1               21                64
  CLUS_10              15                42
  CLUS_2               14                44
  CLUS_3               19                63
  CLUS_4               12                22
  CLUS_5               28                47
  CLUS_6               11                23
  CLUS_7               12                24
  CLUS_8               25                27
  CLUS_9                6                36
[1] 10  2
[1] TRUE
[1] "dimension of contingency table 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       96     15     61
  6P GAIN WILD-TYPE    146    115    146
D11V5, multiclass
        clus
vv       6P GAIN MUTATED 6P GAIN WILD-TYPE
  CLUS_1              96               146
  CLUS_2              15               115
  CLUS_3              61               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 CLUS_4
  6P GAIN MUTATED       43     31     29     65
  6P GAIN WILD-TYPE     70     67    158    105
D11V6, multiclass
        clus
vv       6P GAIN MUTATED 6P GAIN WILD-TYPE
  CLUS_1              43                70
  CLUS_2              31                67
  CLUS_3              29               158
  CLUS_4              65               105
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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       46     54     21
  6P GAIN WILD-TYPE    100    135     55
D11V7, multiclass
        clus
vv       6P GAIN MUTATED 6P GAIN WILD-TYPE
  CLUS_1              46               100
  CLUS_2              54               135
  CLUS_3              21                55
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  6P GAIN MUTATED       42     14     21     44
  6P GAIN WILD-TYPE    101     40     39    110
D11V8, multiclass
        clus
vv       6P GAIN MUTATED 6P GAIN WILD-TYPE
  CLUS_1              42               101
  CLUS_2              14                40
  CLUS_3              21                39
  CLUS_4              44               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
  6P GAIN MUTATED       20     42     36
  6P GAIN WILD-TYPE     59     67     76
D11V9, multiclass
        clus
vv       6P GAIN MUTATED 6P GAIN WILD-TYPE
  CLUS_1              20                59
  CLUS_2              42                67
  CLUS_3              36                76
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       36     31     31
  6P GAIN WILD-TYPE    110     28     64
D11V10, multiclass
        clus
vv       6P GAIN MUTATED 6P GAIN WILD-TYPE
  CLUS_1              36               110
  CLUS_2              31                28
  CLUS_3              31                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
  6P GAIN MUTATED       23     41     46     26
  6P GAIN WILD-TYPE     48     94     95     74
D11V11, multiclass
        clus
vv       6P GAIN MUTATED 6P GAIN WILD-TYPE
  CLUS_1              23                48
  CLUS_2              41                94
  CLUS_3              46                95
  CLUS_4              26                74
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger 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       27     31     49     29
  6P GAIN WILD-TYPE     78     40    116     77
D11V12, multiclass
        clus
vv       6P GAIN MUTATED 6P GAIN WILD-TYPE
  CLUS_1              27                78
  CLUS_2              31                40
  CLUS_3              49               116
  CLUS_4              29                77
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  6P GAIN MUTATED        2      2      2      4
  6P GAIN WILD-TYPE      4      4      3      1
D11V13, multiclass
        clus
vv       6P GAIN MUTATED 6P GAIN WILD-TYPE
  CLUS_1               2                 4
  CLUS_2               2                 4
  CLUS_3               2                 3
  CLUS_4               4                 1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  6P GAIN MUTATED        3      1      0      1      2      3
  6P GAIN WILD-TYPE      2      1      2      3      3      1
D11V14, multiclass
        clus
vv       6P GAIN MUTATED 6P GAIN WILD-TYPE
  CLUS_1               3                 2
  CLUS_2               1                 1
  CLUS_3               0                 2
  CLUS_4               1                 3
  CLUS_5               2                 3
  CLUS_6               3                 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"

Clustering(12) Variable = 6Q GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  6Q GAIN MUTATED       40     23      5     28
  6Q GAIN WILD-TYPE    136     89    113    123
D12V1, multiclass
        clus
vv       6Q GAIN MUTATED 6Q GAIN WILD-TYPE
  CLUS_1              40               136
  CLUS_2              23                89
  CLUS_3               5               113
  CLUS_4              28               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
  6Q GAIN MUTATED       48     26     22
  6Q GAIN WILD-TYPE    262    132     67
D12V2, multiclass
        clus
vv       6Q GAIN MUTATED 6Q GAIN WILD-TYPE
  CLUS_1              48               262
  CLUS_2              26               132
  CLUS_3              22                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
  6Q GAIN MUTATED       32     17     46
  6Q GAIN WILD-TYPE    149    114    197
D12V3, multiclass
        clus
vv       6Q GAIN MUTATED 6Q GAIN WILD-TYPE
  CLUS_1              32               149
  CLUS_2              17               114
  CLUS_3              46               197
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_10 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  6Q GAIN MUTATED       12       5      9     14      8      9     10      8
  6Q GAIN WILD-TYPE     73      52     49     68     26     66     24     28
                   vv
clus                CLUS_8 CLUS_9
  6Q GAIN MUTATED       17      3
  6Q GAIN WILD-TYPE     35     39
D12V4, multiclass
         clus
vv        6Q GAIN MUTATED 6Q GAIN WILD-TYPE
  CLUS_1               12                73
  CLUS_10               5                52
  CLUS_2                9                49
  CLUS_3               14                68
  CLUS_4                8                26
  CLUS_5                9                66
  CLUS_6               10                24
  CLUS_7                8                28
  CLUS_8               17                35
  CLUS_9                3                39
[1] 10  2
[1] TRUE
[1] "dimension of contingency table 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       60      7     33
  6Q GAIN WILD-TYPE    182    123    174
D12V5, multiclass
        clus
vv       6Q GAIN MUTATED 6Q GAIN WILD-TYPE
  CLUS_1              60               182
  CLUS_2               7               123
  CLUS_3              33               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 CLUS_4
  6Q GAIN MUTATED       30     14     14     41
  6Q GAIN WILD-TYPE     83     84    173    129
D12V6, multiclass
        clus
vv       6Q GAIN MUTATED 6Q GAIN WILD-TYPE
  CLUS_1              30                83
  CLUS_2              14                84
  CLUS_3              14               173
  CLUS_4              41               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
  6Q GAIN MUTATED       23     31     14
  6Q GAIN WILD-TYPE    123    158     62
D12V7, multiclass
        clus
vv       6Q GAIN MUTATED 6Q GAIN WILD-TYPE
  CLUS_1              23               123
  CLUS_2              31               158
  CLUS_3              14                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 CLUS_4
  6Q GAIN MUTATED       23      9     13     23
  6Q GAIN WILD-TYPE    120     45     47    131
D12V8, multiclass
        clus
vv       6Q GAIN MUTATED 6Q GAIN WILD-TYPE
  CLUS_1              23               120
  CLUS_2               9                45
  CLUS_3              13                47
  CLUS_4              23               131
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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     27     20
  6Q GAIN WILD-TYPE     69     82     92
D12V9, multiclass
        clus
vv       6Q GAIN MUTATED 6Q GAIN WILD-TYPE
  CLUS_1              10                69
  CLUS_2              27                82
  CLUS_3              20                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
  6Q GAIN MUTATED       24     18     15
  6Q GAIN WILD-TYPE    122     41     80
D12V10, multiclass
        clus
vv       6Q GAIN MUTATED 6Q GAIN WILD-TYPE
  CLUS_1              24               122
  CLUS_2              18                41
  CLUS_3              15                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 CLUS_4
  6Q GAIN MUTATED       12     27     23     21
  6Q GAIN WILD-TYPE     59    108    118     79
D12V11, multiclass
        clus
vv       6Q GAIN MUTATED 6Q GAIN WILD-TYPE
  CLUS_1              12                59
  CLUS_2              27               108
  CLUS_3              23               118
  CLUS_4              21                79
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger 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       15     20     36     12
  6Q GAIN WILD-TYPE     90     51    129     94
D12V12, multiclass
        clus
vv       6Q GAIN MUTATED 6Q GAIN WILD-TYPE
  CLUS_1              15                90
  CLUS_2              20                51
  CLUS_3              36               129
  CLUS_4              12                94
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  6Q GAIN MUTATED        1      0      3      4
  6Q GAIN WILD-TYPE      5      6      2      1
D12V13, multiclass
        clus
vv       6Q GAIN MUTATED 6Q GAIN WILD-TYPE
  CLUS_1               1                 5
  CLUS_2               0                 6
  CLUS_3               3                 2
  CLUS_4               4                 1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  6Q GAIN MUTATED        2      0      0      0      3      3
  6Q GAIN WILD-TYPE      3      2      2      4      2      1
D12V14, multiclass
        clus
vv       6Q GAIN MUTATED 6Q GAIN WILD-TYPE
  CLUS_1               2                 3
  CLUS_2               0                 2
  CLUS_3               0                 2
  CLUS_4               0                 4
  CLUS_5               3                 2
  CLUS_6               3                 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"

Clustering(13) Variable = 7P GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  7P GAIN MUTATED       58     37     38     38
  7P GAIN WILD-TYPE    118     75     80    113
D13V1, multiclass
        clus
vv       7P GAIN MUTATED 7P GAIN WILD-TYPE
  CLUS_1              58               118
  CLUS_2              37                75
  CLUS_3              38                80
  CLUS_4              38               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
  7P GAIN MUTATED       97     44     30
  7P GAIN WILD-TYPE    213    114     59
D13V2, multiclass
        clus
vv       7P GAIN MUTATED 7P GAIN WILD-TYPE
  CLUS_1              97               213
  CLUS_2              44               114
  CLUS_3              30                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
  7P GAIN MUTATED       52     30     88
  7P GAIN WILD-TYPE    129    101    155
D13V3, multiclass
        clus
vv       7P GAIN MUTATED 7P GAIN WILD-TYPE
  CLUS_1              52               129
  CLUS_2              30               101
  CLUS_3              88               155
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_10 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  7P GAIN MUTATED       27      16     18     24     10     25     16      8
  7P GAIN WILD-TYPE     58      41     40     58     24     50     18     28
                   vv
clus                CLUS_8 CLUS_9
  7P GAIN MUTATED       20      6
  7P GAIN WILD-TYPE     32     36
D13V4, multiclass
         clus
vv        7P GAIN MUTATED 7P GAIN WILD-TYPE
  CLUS_1               27                58
  CLUS_10              16                41
  CLUS_2               18                40
  CLUS_3               24                58
  CLUS_4               10                24
  CLUS_5               25                50
  CLUS_6               16                18
  CLUS_7                8                28
  CLUS_8               20                32
  CLUS_9                6                36
[1] 10  2
[1] TRUE
[1] "dimension of contingency table 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      105     29     43
  7P GAIN WILD-TYPE    137    101    164
D13V5, multiclass
        clus
vv       7P GAIN MUTATED 7P GAIN WILD-TYPE
  CLUS_1             105               137
  CLUS_2              29               101
  CLUS_3              43               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 CLUS_4
  7P GAIN MUTATED       42     30     31     71
  7P GAIN WILD-TYPE     71     68    156     99
D13V6, multiclass
        clus
vv       7P GAIN MUTATED 7P GAIN WILD-TYPE
  CLUS_1              42                71
  CLUS_2              30                68
  CLUS_3              31               156
  CLUS_4              71                99
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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       42     59     21
  7P GAIN WILD-TYPE    104    130     55
D13V7, multiclass
        clus
vv       7P GAIN MUTATED 7P GAIN WILD-TYPE
  CLUS_1              42               104
  CLUS_2              59               130
  CLUS_3              21                55
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  7P GAIN MUTATED       40     16     12     54
  7P GAIN WILD-TYPE    103     38     48    100
D13V8, multiclass
        clus
vv       7P GAIN MUTATED 7P GAIN WILD-TYPE
  CLUS_1              40               103
  CLUS_2              16                38
  CLUS_3              12                48
  CLUS_4              54               100
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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       20     31     31
  7P GAIN WILD-TYPE     59     78     81
D13V9, multiclass
        clus
vv       7P GAIN MUTATED 7P GAIN WILD-TYPE
  CLUS_1              20                59
  CLUS_2              31                78
  CLUS_3              31                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
  7P GAIN MUTATED       36     18     28
  7P GAIN WILD-TYPE    110     41     67
D13V10, multiclass
        clus
vv       7P GAIN MUTATED 7P GAIN WILD-TYPE
  CLUS_1              36               110
  CLUS_2              18                41
  CLUS_3              28                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
  7P GAIN MUTATED       20     37     42     38
  7P GAIN WILD-TYPE     51     98     99     62
D13V11, multiclass
        clus
vv       7P GAIN MUTATED 7P GAIN WILD-TYPE
  CLUS_1              20                51
  CLUS_2              37                98
  CLUS_3              42                99
  CLUS_4              38                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
  7P GAIN MUTATED       24     20     59     34
  7P GAIN WILD-TYPE     81     51    106     72
D13V12, multiclass
        clus
vv       7P GAIN MUTATED 7P GAIN WILD-TYPE
  CLUS_1              24                81
  CLUS_2              20                51
  CLUS_3              59               106
  CLUS_4              34                72
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger 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        2      3      1      3
  7P GAIN WILD-TYPE      4      3      4      2
D13V13, multiclass
        clus
vv       7P GAIN MUTATED 7P GAIN WILD-TYPE
  CLUS_1               2                 4
  CLUS_2               3                 3
  CLUS_3               1                 4
  CLUS_4               3                 2
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  7P GAIN MUTATED        2      1      0      2      2      2
  7P GAIN WILD-TYPE      3      1      2      2      3      2
D13V14, multiclass
        clus
vv       7P GAIN MUTATED 7P GAIN WILD-TYPE
  CLUS_1               2                 3
  CLUS_2               1                 1
  CLUS_3               0                 2
  CLUS_4               2                 2
  CLUS_5               2                 3
  CLUS_6               2                 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"

Clustering(14) Variable = 7Q GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  7Q GAIN MUTATED       68     35     41     50
  7Q GAIN WILD-TYPE    108     77     77    101
D14V1, multiclass
        clus
vv       7Q GAIN MUTATED 7Q GAIN WILD-TYPE
  CLUS_1              68               108
  CLUS_2              35                77
  CLUS_3              41                77
  CLUS_4              50               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
  7Q GAIN MUTATED      120     43     31
  7Q GAIN WILD-TYPE    190    115     58
D14V2, multiclass
        clus
vv       7Q GAIN MUTATED 7Q GAIN WILD-TYPE
  CLUS_1             120               190
  CLUS_2              43               115
  CLUS_3              31                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
  7Q GAIN MUTATED       61     36     95
  7Q GAIN WILD-TYPE    120     95    148
D14V3, multiclass
        clus
vv       7Q GAIN MUTATED 7Q GAIN WILD-TYPE
  CLUS_1              61               120
  CLUS_2              36                95
  CLUS_3              95               148
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_10 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  7Q GAIN MUTATED       31      22     20     28     12     25     18      9
  7Q GAIN WILD-TYPE     54      35     38     54     22     50     16     27
                   vv
clus                CLUS_8 CLUS_9
  7Q GAIN MUTATED       18      9
  7Q GAIN WILD-TYPE     34     33
D14V4, multiclass
         clus
vv        7Q GAIN MUTATED 7Q GAIN WILD-TYPE
  CLUS_1               31                54
  CLUS_10              22                35
  CLUS_2               20                38
  CLUS_3               28                54
  CLUS_4               12                22
  CLUS_5               25                50
  CLUS_6               18                16
  CLUS_7                9                27
  CLUS_8               18                34
  CLUS_9                9                33
[1] 10  2
[1] TRUE
[1] "dimension of contingency table 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      113     29     61
  7Q GAIN WILD-TYPE    129    101    146
D14V5, multiclass
        clus
vv       7Q GAIN MUTATED 7Q GAIN WILD-TYPE
  CLUS_1             113               129
  CLUS_2              29               101
  CLUS_3              61               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 CLUS_4
  7Q GAIN MUTATED       46     32     42     78
  7Q GAIN WILD-TYPE     67     66    145     92
D14V6, multiclass
        clus
vv       7Q GAIN MUTATED 7Q GAIN WILD-TYPE
  CLUS_1              46                67
  CLUS_2              32                66
  CLUS_3              42               145
  CLUS_4              78                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
  7Q GAIN MUTATED       47     68     24
  7Q GAIN WILD-TYPE     99    121     52
D14V7, multiclass
        clus
vv       7Q GAIN MUTATED 7Q GAIN WILD-TYPE
  CLUS_1              47                99
  CLUS_2              68               121
  CLUS_3              24                52
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  7Q GAIN MUTATED       47     18     15     59
  7Q GAIN WILD-TYPE     96     36     45     95
D14V8, multiclass
        clus
vv       7Q GAIN MUTATED 7Q GAIN WILD-TYPE
  CLUS_1              47                96
  CLUS_2              18                36
  CLUS_3              15                45
  CLUS_4              59                95
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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       22     32     35
  7Q GAIN WILD-TYPE     57     77     77
D14V9, multiclass
        clus
vv       7Q GAIN MUTATED 7Q GAIN WILD-TYPE
  CLUS_1              22                57
  CLUS_2              32                77
  CLUS_3              35                77
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       43     17     29
  7Q GAIN WILD-TYPE    103     42     66
D14V10, multiclass
        clus
vv       7Q GAIN MUTATED 7Q GAIN WILD-TYPE
  CLUS_1              43               103
  CLUS_2              17                42
  CLUS_3              29                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 CLUS_4
  7Q GAIN MUTATED       18     48     50     39
  7Q GAIN WILD-TYPE     53     87     91     61
D14V11, multiclass
        clus
vv       7Q GAIN MUTATED 7Q GAIN WILD-TYPE
  CLUS_1              18                53
  CLUS_2              48                87
  CLUS_3              50                91
  CLUS_4              39                61
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger 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       32     24     58     41
  7Q GAIN WILD-TYPE     73     47    107     65
D14V12, multiclass
        clus
vv       7Q GAIN MUTATED 7Q GAIN WILD-TYPE
  CLUS_1              32                73
  CLUS_2              24                47
  CLUS_3              58               107
  CLUS_4              41                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
  7Q GAIN MUTATED        2      1      1      2
  7Q GAIN WILD-TYPE      4      5      4      3
D14V13, multiclass
        clus
vv       7Q GAIN MUTATED 7Q GAIN WILD-TYPE
  CLUS_1               2                 4
  CLUS_2               1                 5
  CLUS_3               1                 4
  CLUS_4               2                 3
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  7Q GAIN MUTATED        2      0      0      1      1      2
  7Q GAIN WILD-TYPE      3      2      2      3      4      2
D14V14, multiclass
        clus
vv       7Q GAIN MUTATED 7Q GAIN WILD-TYPE
  CLUS_1               2                 3
  CLUS_2               0                 2
  CLUS_3               0                 2
  CLUS_4               1                 3
  CLUS_5               1                 4
  CLUS_6               2                 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"

Clustering(15) Variable = 8P GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  8P GAIN MUTATED       43     29     25     25
  8P GAIN WILD-TYPE    133     83     93    126
D15V1, multiclass
        clus
vv       8P GAIN MUTATED 8P GAIN WILD-TYPE
  CLUS_1              43               133
  CLUS_2              29                83
  CLUS_3              25                93
  CLUS_4              25               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
  8P GAIN MUTATED       55     43     24
  8P GAIN WILD-TYPE    255    115     65
D15V2, multiclass
        clus
vv       8P GAIN MUTATED 8P GAIN WILD-TYPE
  CLUS_1              55               255
  CLUS_2              43               115
  CLUS_3              24                65
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       41     28     53
  8P GAIN WILD-TYPE    140    103    190
D15V3, multiclass
        clus
vv       8P GAIN MUTATED 8P GAIN WILD-TYPE
  CLUS_1              41               140
  CLUS_2              28               103
  CLUS_3              53               190
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_10 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  8P GAIN MUTATED       23      12     12     13      6     18     11      3
  8P GAIN WILD-TYPE     62      45     46     69     28     57     23     33
                   vv
clus                CLUS_8 CLUS_9
  8P GAIN MUTATED       13     11
  8P GAIN WILD-TYPE     39     31
D15V4, multiclass
         clus
vv        8P GAIN MUTATED 8P GAIN WILD-TYPE
  CLUS_1               23                62
  CLUS_10              12                45
  CLUS_2               12                46
  CLUS_3               13                69
  CLUS_4                6                28
  CLUS_5               18                57
  CLUS_6               11                23
  CLUS_7                3                33
  CLUS_8               13                39
  CLUS_9               11                31
[1] 10  2
[1] TRUE
[1] "dimension of contingency table 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       57     20     48
  8P GAIN WILD-TYPE    185    110    159
D15V5, multiclass
        clus
vv       8P GAIN MUTATED 8P GAIN WILD-TYPE
  CLUS_1              57               185
  CLUS_2              20               110
  CLUS_3              48               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 CLUS_4
  8P GAIN MUTATED       24     21     39     39
  8P GAIN WILD-TYPE     89     77    148    131
D15V6, multiclass
        clus
vv       8P GAIN MUTATED 8P GAIN WILD-TYPE
  CLUS_1              24                89
  CLUS_2              21                77
  CLUS_3              39               148
  CLUS_4              39               131
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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     34     20
  8P GAIN WILD-TYPE    118    155     56
D15V7, multiclass
        clus
vv       8P GAIN MUTATED 8P GAIN WILD-TYPE
  CLUS_1              28               118
  CLUS_2              34               155
  CLUS_3              20                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 CLUS_4
  8P GAIN MUTATED       32     14     11     25
  8P GAIN WILD-TYPE    111     40     49    129
D15V8, multiclass
        clus
vv       8P GAIN MUTATED 8P GAIN WILD-TYPE
  CLUS_1              32               111
  CLUS_2              14                40
  CLUS_3              11                49
  CLUS_4              25               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
  8P GAIN MUTATED       14     21     30
  8P GAIN WILD-TYPE     65     88     82
D15V9, multiclass
        clus
vv       8P GAIN MUTATED 8P GAIN WILD-TYPE
  CLUS_1              14                65
  CLUS_2              21                88
  CLUS_3              30                82
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       24     14     27
  8P GAIN WILD-TYPE    122     45     68
D15V10, multiclass
        clus
vv       8P GAIN MUTATED 8P GAIN WILD-TYPE
  CLUS_1              24               122
  CLUS_2              14                45
  CLUS_3              27                68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger 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       22     36     27     14
  8P GAIN WILD-TYPE     49     99    114     86
D15V11, multiclass
        clus
vv       8P GAIN MUTATED 8P GAIN WILD-TYPE
  CLUS_1              22                49
  CLUS_2              36                99
  CLUS_3              27               114
  CLUS_4              14                86
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger 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       27     15     37     20
  8P GAIN WILD-TYPE     78     56    128     86
D15V12, multiclass
        clus
vv       8P GAIN MUTATED 8P GAIN WILD-TYPE
  CLUS_1              27                78
  CLUS_2              15                56
  CLUS_3              37               128
  CLUS_4              20                86
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger 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        0      0      1      1
  8P GAIN WILD-TYPE      6      6      4      4
D15V13, multiclass
[1] "Remove cluster labels:" "8P GAIN MUTATED"       
clus
  8P GAIN MUTATED 8P GAIN WILD-TYPE 
                2                20 
       TCGA-04-1652        TCGA-09-2050        TCGA-09-2054        TCGA-23-2077 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-24-1928        TCGA-24-2036        TCGA-24-2288        TCGA-24-2289 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-24-2290        TCGA-24-2297        TCGA-25-2399        TCGA-25-2400 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-25-2404        TCGA-57-1994        TCGA-59-2363        TCGA-61-1918 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-61-2088        TCGA-61-2098        TCGA-61-2109        TCGA-61-2111 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  8P GAIN MUTATED        0      0      1      0      0      1
  8P GAIN WILD-TYPE      5      2      1      4      5      3
D15V14, multiclass
[1] "Remove cluster labels:" "8P GAIN MUTATED"       
clus
  8P GAIN MUTATED 8P GAIN WILD-TYPE 
                2                20 
       TCGA-04-1652        TCGA-09-2050        TCGA-09-2054        TCGA-23-2077 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-24-1928        TCGA-24-2036        TCGA-24-2288        TCGA-24-2289 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-24-2290        TCGA-24-2297        TCGA-25-2399        TCGA-25-2400 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-25-2404        TCGA-57-1994        TCGA-59-2363        TCGA-61-1918 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-61-2088        TCGA-61-2098        TCGA-61-2109        TCGA-61-2111 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 

Clustering(16) Variable = 8Q GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  8Q GAIN MUTATED       68     57     49     68
  8Q GAIN WILD-TYPE    108     55     69     83
D16V1, multiclass
        clus
vv       8Q GAIN MUTATED 8Q GAIN WILD-TYPE
  CLUS_1              68               108
  CLUS_2              57                55
  CLUS_3              49                69
  CLUS_4              68                83
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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      121     87     34
  8Q GAIN WILD-TYPE    189     71     55
D16V2, multiclass
        clus
vv       8Q GAIN MUTATED 8Q GAIN WILD-TYPE
  CLUS_1             121               189
  CLUS_2              87                71
  CLUS_3              34                55
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  8Q GAIN MUTATED       83     58     99
  8Q GAIN WILD-TYPE     98     73    144
D16V3, multiclass
        clus
vv       8Q GAIN MUTATED 8Q GAIN WILD-TYPE
  CLUS_1              83                98
  CLUS_2              58                73
  CLUS_3              99               144
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_10 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  8Q GAIN MUTATED       37      26     22     31     18     36     16     12
  8Q GAIN WILD-TYPE     48      31     36     51     16     39     18     24
                   vv
clus                CLUS_8 CLUS_9
  8Q GAIN MUTATED       19     23
  8Q GAIN WILD-TYPE     33     19
D16V4, multiclass
         clus
vv        8Q GAIN MUTATED 8Q GAIN WILD-TYPE
  CLUS_1               37                48
  CLUS_10              26                31
  CLUS_2               22                36
  CLUS_3               31                51
  CLUS_4               18                16
  CLUS_5               36                39
  CLUS_6               16                18
  CLUS_7               12                24
  CLUS_8               19                33
  CLUS_9               23                19
[1] 10  2
[1] TRUE
[1] "dimension of contingency table 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      108     44     97
  8Q GAIN WILD-TYPE    134     86    110
D16V5, multiclass
        clus
vv       8Q GAIN MUTATED 8Q GAIN WILD-TYPE
  CLUS_1             108               134
  CLUS_2              44                86
  CLUS_3              97               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
  8Q GAIN MUTATED       52     34     74     85
  8Q GAIN WILD-TYPE     61     64    113     85
D16V6, multiclass
        clus
vv       8Q GAIN MUTATED 8Q GAIN WILD-TYPE
  CLUS_1              52                61
  CLUS_2              34                64
  CLUS_3              74               113
  CLUS_4              85                85
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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       57     80     35
  8Q GAIN WILD-TYPE     89    109     41
D16V7, multiclass
        clus
vv       8Q GAIN MUTATED 8Q GAIN WILD-TYPE
  CLUS_1              57                89
  CLUS_2              80               109
  CLUS_3              35                41
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  8Q GAIN MUTATED       60     27     26     59
  8Q GAIN WILD-TYPE     83     27     34     95
D16V8, multiclass
        clus
vv       8Q GAIN MUTATED 8Q GAIN WILD-TYPE
  CLUS_1              60                83
  CLUS_2              27                27
  CLUS_3              26                34
  CLUS_4              59                95
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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     37     59
  8Q GAIN WILD-TYPE     36     72     53
D16V9, multiclass
        clus
vv       8Q GAIN MUTATED 8Q GAIN WILD-TYPE
  CLUS_1              43                36
  CLUS_2              37                72
  CLUS_3              59                53
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  8Q GAIN MUTATED       67     20     52
  8Q GAIN WILD-TYPE     79     39     43
D16V10, multiclass
        clus
vv       8Q GAIN MUTATED 8Q GAIN WILD-TYPE
  CLUS_1              67                79
  CLUS_2              20                39
  CLUS_3              52                43
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  8Q GAIN MUTATED       38     62     59     39
  8Q GAIN WILD-TYPE     33     73     82     61
D16V11, multiclass
        clus
vv       8Q GAIN MUTATED 8Q GAIN WILD-TYPE
  CLUS_1              38                33
  CLUS_2              62                73
  CLUS_3              59                82
  CLUS_4              39                61
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger 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       47     30     74     47
  8Q GAIN WILD-TYPE     58     41     91     59
D16V12, multiclass
        clus
vv       8Q GAIN MUTATED 8Q GAIN WILD-TYPE
  CLUS_1              47                58
  CLUS_2              30                41
  CLUS_3              74                91
  CLUS_4              47                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
  8Q GAIN MUTATED        3      1      1      2
  8Q GAIN WILD-TYPE      3      5      4      3
D16V13, multiclass
        clus
vv       8Q GAIN MUTATED 8Q GAIN WILD-TYPE
  CLUS_1               3                 3
  CLUS_2               1                 5
  CLUS_3               1                 4
  CLUS_4               2                 3
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  8Q GAIN MUTATED        1      0      1      1      1      3
  8Q GAIN WILD-TYPE      4      2      1      3      4      1
D16V14, multiclass
        clus
vv       8Q GAIN MUTATED 8Q GAIN WILD-TYPE
  CLUS_1               1                 4
  CLUS_2               0                 2
  CLUS_3               1                 1
  CLUS_4               1                 3
  CLUS_5               1                 4
  CLUS_6               3                 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"

Clustering(17) Variable = 9P GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  9P GAIN MUTATED       28     14     12     35
  9P GAIN WILD-TYPE    148     98    106    116
D17V1, multiclass
        clus
vv       9P GAIN MUTATED 9P GAIN WILD-TYPE
  CLUS_1              28               148
  CLUS_2              14                98
  CLUS_3              12               106
  CLUS_4              35               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
  9P GAIN MUTATED       55     23     11
  9P GAIN WILD-TYPE    255    135     78
D17V2, multiclass
        clus
vv       9P GAIN MUTATED 9P GAIN WILD-TYPE
  CLUS_1              55               255
  CLUS_2              23               135
  CLUS_3              11                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
  9P GAIN MUTATED       36     12     41
  9P GAIN WILD-TYPE    145    119    202
D17V3, multiclass
        clus
vv       9P GAIN MUTATED 9P GAIN WILD-TYPE
  CLUS_1              36               145
  CLUS_2              12               119
  CLUS_3              41               202
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_10 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  9P GAIN MUTATED       13       8      6     18      7     13      5      5
  9P GAIN WILD-TYPE     72      49     52     64     27     62     29     31
                   vv
clus                CLUS_8 CLUS_9
  9P GAIN MUTATED        8      6
  9P GAIN WILD-TYPE     44     36
D17V4, multiclass
         clus
vv        9P GAIN MUTATED 9P GAIN WILD-TYPE
  CLUS_1               13                72
  CLUS_10               8                49
  CLUS_2                6                52
  CLUS_3               18                64
  CLUS_4                7                27
  CLUS_5               13                62
  CLUS_6                5                29
  CLUS_7                5                31
  CLUS_8                8                44
  CLUS_9                6                36
[1] 10  2
[1] TRUE
[1] "dimension of contingency table 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       55      6     30
  9P GAIN WILD-TYPE    187    124    177
D17V5, multiclass
        clus
vv       9P GAIN MUTATED 9P GAIN WILD-TYPE
  CLUS_1              55               187
  CLUS_2               6               124
  CLUS_3              30               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 CLUS_4
  9P GAIN MUTATED       21      8     24     37
  9P GAIN WILD-TYPE     92     90    163    133
D17V6, multiclass
        clus
vv       9P GAIN MUTATED 9P GAIN WILD-TYPE
  CLUS_1              21                92
  CLUS_2               8                90
  CLUS_3              24               163
  CLUS_4              37               133
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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       23     34     10
  9P GAIN WILD-TYPE    123    155     66
D17V7, multiclass
        clus
vv       9P GAIN MUTATED 9P GAIN WILD-TYPE
  CLUS_1              23               123
  CLUS_2              34               155
  CLUS_3              10                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 CLUS_4
  9P GAIN MUTATED       22      7     13     25
  9P GAIN WILD-TYPE    121     47     47    129
D17V8, multiclass
        clus
vv       9P GAIN MUTATED 9P GAIN WILD-TYPE
  CLUS_1              22               121
  CLUS_2               7                47
  CLUS_3              13                47
  CLUS_4              25               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
  9P GAIN MUTATED       17     20     19
  9P GAIN WILD-TYPE     62     89     93
D17V9, multiclass
        clus
vv       9P GAIN MUTATED 9P GAIN WILD-TYPE
  CLUS_1              17                62
  CLUS_2              20                89
  CLUS_3              19                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
  9P GAIN MUTATED       27     13     16
  9P GAIN WILD-TYPE    119     46     79
D17V10, multiclass
        clus
vv       9P GAIN MUTATED 9P GAIN WILD-TYPE
  CLUS_1              27               119
  CLUS_2              13                46
  CLUS_3              16                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 CLUS_4
  9P GAIN MUTATED       10     31     17     18
  9P GAIN WILD-TYPE     61    104    124     82
D17V11, multiclass
        clus
vv       9P GAIN MUTATED 9P GAIN WILD-TYPE
  CLUS_1              10                61
  CLUS_2              31               104
  CLUS_3              17               124
  CLUS_4              18                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
  9P GAIN MUTATED       15     10     37     14
  9P GAIN WILD-TYPE     90     61    128     92
D17V12, multiclass
        clus
vv       9P GAIN MUTATED 9P GAIN WILD-TYPE
  CLUS_1              15                90
  CLUS_2              10                61
  CLUS_3              37               128
  CLUS_4              14                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
  9P GAIN MUTATED        0      1      2      2
  9P GAIN WILD-TYPE      6      5      3      3
D17V13, multiclass
        clus
vv       9P GAIN MUTATED 9P GAIN WILD-TYPE
  CLUS_1               0                 6
  CLUS_2               1                 5
  CLUS_3               2                 3
  CLUS_4               2                 3
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  9P GAIN MUTATED        1      0      0      1      3      0
  9P GAIN WILD-TYPE      4      2      2      3      2      4
D17V14, multiclass
        clus
vv       9P GAIN MUTATED 9P GAIN WILD-TYPE
  CLUS_1               1                 4
  CLUS_2               0                 2
  CLUS_3               0                 2
  CLUS_4               1                 3
  CLUS_5               3                 2
  CLUS_6               0                 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"

Clustering(18) Variable = 9Q GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  9Q GAIN MUTATED       11     11      6     14
  9Q GAIN WILD-TYPE    165    101    112    137
D18V1, multiclass
        clus
vv       9Q GAIN MUTATED 9Q GAIN WILD-TYPE
  CLUS_1              11               165
  CLUS_2              11               101
  CLUS_3               6               112
  CLUS_4              14               137
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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       21     17      4
  9Q GAIN WILD-TYPE    289    141     85
D18V2, multiclass
        clus
vv       9Q GAIN MUTATED 9Q GAIN WILD-TYPE
  CLUS_1              21               289
  CLUS_2              17               141
  CLUS_3               4                85
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       21      7     14
  9Q GAIN WILD-TYPE    160    124    229
D18V3, multiclass
        clus
vv       9Q GAIN MUTATED 9Q GAIN WILD-TYPE
  CLUS_1              21               160
  CLUS_2               7               124
  CLUS_3              14               229
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_10 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  9Q GAIN MUTATED        9       4      2      8      2      7      0      3
  9Q GAIN WILD-TYPE     76      53     56     74     32     68     34     33
                   vv
clus                CLUS_8 CLUS_9
  9Q GAIN MUTATED        4      3
  9Q GAIN WILD-TYPE     48     39
D18V4, multiclass
         clus
vv        9Q GAIN MUTATED 9Q GAIN WILD-TYPE
  CLUS_1                9                76
  CLUS_10               4                53
  CLUS_2                2                56
  CLUS_3                8                74
  CLUS_4                2                32
  CLUS_5                7                68
  CLUS_6                0                34
  CLUS_7                3                33
  CLUS_8                4                48
  CLUS_9                3                39
[1] 10  2
[1] TRUE
[1] "dimension of contingency table 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       21      3     19
  9Q GAIN WILD-TYPE    221    127    188
D18V5, multiclass
        clus
vv       9Q GAIN MUTATED 9Q GAIN WILD-TYPE
  CLUS_1              21               221
  CLUS_2               3               127
  CLUS_3              19               188
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger 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       11      6     13     13
  9Q GAIN WILD-TYPE    102     92    174    157
D18V6, multiclass
        clus
vv       9Q GAIN MUTATED 9Q GAIN WILD-TYPE
  CLUS_1              11               102
  CLUS_2               6                92
  CLUS_3              13               174
  CLUS_4              13               157
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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       11     16      5
  9Q GAIN WILD-TYPE    135    173     71
D18V7, multiclass
        clus
vv       9Q GAIN MUTATED 9Q GAIN WILD-TYPE
  CLUS_1              11               135
  CLUS_2              16               173
  CLUS_3               5                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
  9Q GAIN MUTATED       12      2      8     10
  9Q GAIN WILD-TYPE    131     52     52    144
D18V8, multiclass
        clus
vv       9Q GAIN MUTATED 9Q GAIN WILD-TYPE
  CLUS_1              12               131
  CLUS_2               2                52
  CLUS_3               8                52
  CLUS_4              10               144
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        7      8     16
  9Q GAIN WILD-TYPE     72    101     96
D18V9, multiclass
        clus
vv       9Q GAIN MUTATED 9Q GAIN WILD-TYPE
  CLUS_1               7                72
  CLUS_2               8               101
  CLUS_3              16                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
  9Q GAIN MUTATED       16      3     12
  9Q GAIN WILD-TYPE    130     56     83
D18V10, multiclass
        clus
vv       9Q GAIN MUTATED 9Q GAIN WILD-TYPE
  CLUS_1              16               130
  CLUS_2               3                56
  CLUS_3              12                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 CLUS_4
  9Q GAIN MUTATED        7     15     10      5
  9Q GAIN WILD-TYPE     64    120    131     95
D18V11, multiclass
        clus
vv       9Q GAIN MUTATED 9Q GAIN WILD-TYPE
  CLUS_1               7                64
  CLUS_2              15               120
  CLUS_3              10               131
  CLUS_4               5                95
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger 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       11      4     15      7
  9Q GAIN WILD-TYPE     94     67    150     99
D18V12, multiclass
        clus
vv       9Q GAIN MUTATED 9Q GAIN WILD-TYPE
  CLUS_1              11                94
  CLUS_2               4                67
  CLUS_3              15               150
  CLUS_4               7                99
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  9Q GAIN MUTATED        0      0      1      0
  9Q GAIN WILD-TYPE      6      6      4      5
D18V13, multiclass
[1] "Remove cluster labels:" "9Q GAIN MUTATED"       
clus
  9Q GAIN MUTATED 9Q GAIN WILD-TYPE 
                1                21 
       TCGA-04-1652        TCGA-09-2050        TCGA-09-2054        TCGA-13-0908 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-23-2077        TCGA-24-1928        TCGA-24-2036        TCGA-24-2288 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-24-2289        TCGA-24-2290        TCGA-24-2297        TCGA-25-2392 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-25-2399        TCGA-25-2400        TCGA-57-1994        TCGA-59-2363 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-61-1918        TCGA-61-2088        TCGA-61-2098        TCGA-61-2109 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-61-2111 
"9Q GAIN WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  9Q GAIN MUTATED        1      0      0      0      0      0
  9Q GAIN WILD-TYPE      4      2      2      4      5      4
D18V14, multiclass
[1] "Remove cluster labels:" "9Q GAIN MUTATED"       
clus
  9Q GAIN MUTATED 9Q GAIN WILD-TYPE 
                1                21 
       TCGA-04-1652        TCGA-09-2050        TCGA-09-2054        TCGA-13-0908 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-23-2077        TCGA-24-1928        TCGA-24-2036        TCGA-24-2288 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-24-2289        TCGA-24-2290        TCGA-24-2297        TCGA-25-2392 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-25-2399        TCGA-25-2400        TCGA-57-1994        TCGA-59-2363 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-61-1918        TCGA-61-2088        TCGA-61-2098        TCGA-61-2109 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-61-2111 
"9Q GAIN WILD-TYPE" 

Clustering(19) Variable = 10P GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  10P GAIN MUTATED       73     44     23     43
  10P GAIN WILD-TYPE    103     68     95    108
D19V1, multiclass
        clus
vv       10P GAIN MUTATED 10P GAIN WILD-TYPE
  CLUS_1               73                103
  CLUS_2               44                 68
  CLUS_3               23                 95
  CLUS_4               43                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
  10P GAIN MUTATED       90     53     40
  10P GAIN WILD-TYPE    220    105     49
D19V2, multiclass
        clus
vv       10P GAIN MUTATED 10P GAIN WILD-TYPE
  CLUS_1               90                220
  CLUS_2               53                105
  CLUS_3               40                 49
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  10P GAIN MUTATED       55     44     83
  10P GAIN WILD-TYPE    126     87    160
D19V3, multiclass
        clus
vv       10P GAIN MUTATED 10P GAIN WILD-TYPE
  CLUS_1               55                126
  CLUS_2               44                 87
  CLUS_3               83                160
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_10 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  10P GAIN MUTATED       24      15     19     25     14     26     15     10
  10P GAIN WILD-TYPE     61      42     39     57     20     49     19     26
                    vv
clus                 CLUS_8 CLUS_9
  10P GAIN MUTATED       23     11
  10P GAIN WILD-TYPE     29     31
D19V4, multiclass
         clus
vv        10P GAIN MUTATED 10P GAIN WILD-TYPE
  CLUS_1                24                 61
  CLUS_10               15                 42
  CLUS_2                19                 39
  CLUS_3                25                 57
  CLUS_4                14                 20
  CLUS_5                26                 49
  CLUS_6                15                 19
  CLUS_7                10                 26
  CLUS_8                23                 29
  CLUS_9                11                 31
[1] 10  2
[1] TRUE
[1] "dimension of contingency table 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      119     29     41
  10P GAIN WILD-TYPE    123    101    166
D19V5, multiclass
        clus
vv       10P GAIN MUTATED 10P GAIN WILD-TYPE
  CLUS_1              119                123
  CLUS_2               29                101
  CLUS_3               41                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 CLUS_4
  10P GAIN MUTATED       48     38     23     76
  10P GAIN WILD-TYPE     65     60    164     94
D19V6, multiclass
        clus
vv       10P GAIN MUTATED 10P GAIN WILD-TYPE
  CLUS_1               48                 65
  CLUS_2               38                 60
  CLUS_3               23                164
  CLUS_4               76                 94
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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       44     62     25
  10P GAIN WILD-TYPE    102    127     51
D19V7, multiclass
        clus
vv       10P GAIN MUTATED 10P GAIN WILD-TYPE
  CLUS_1               44                102
  CLUS_2               62                127
  CLUS_3               25                 51
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  10P GAIN MUTATED       48     16     20     47
  10P GAIN WILD-TYPE     95     38     40    107
D19V8, multiclass
        clus
vv       10P GAIN MUTATED 10P GAIN WILD-TYPE
  CLUS_1               48                 95
  CLUS_2               16                 38
  CLUS_3               20                 40
  CLUS_4               47                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
  10P GAIN MUTATED       14     45     40
  10P GAIN WILD-TYPE     65     64     72
D19V9, multiclass
        clus
vv       10P GAIN MUTATED 10P GAIN WILD-TYPE
  CLUS_1               14                 65
  CLUS_2               45                 64
  CLUS_3               40                 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
  10P GAIN MUTATED       42     26     31
  10P GAIN WILD-TYPE    104     33     64
D19V10, multiclass
        clus
vv       10P GAIN MUTATED 10P GAIN WILD-TYPE
  CLUS_1               42                104
  CLUS_2               26                 33
  CLUS_3               31                 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
  10P GAIN MUTATED       27     44     40     36
  10P GAIN WILD-TYPE     44     91    101     64
D19V11, multiclass
        clus
vv       10P GAIN MUTATED 10P GAIN WILD-TYPE
  CLUS_1               27                 44
  CLUS_2               44                 91
  CLUS_3               40                101
  CLUS_4               36                 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
  10P GAIN MUTATED       22     27     71     27
  10P GAIN WILD-TYPE     83     44     94     79
D19V12, multiclass
        clus
vv       10P GAIN MUTATED 10P GAIN WILD-TYPE
  CLUS_1               22                 83
  CLUS_2               27                 44
  CLUS_3               71                 94
  CLUS_4               27                 79
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  10P GAIN MUTATED        3      3      1      2
  10P GAIN WILD-TYPE      3      3      4      3
D19V13, multiclass
        clus
vv       10P GAIN MUTATED 10P GAIN WILD-TYPE
  CLUS_1                3                  3
  CLUS_2                3                  3
  CLUS_3                1                  4
  CLUS_4                2                  3
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  10P GAIN MUTATED        3      1      0      2      2      1
  10P GAIN WILD-TYPE      2      1      2      2      3      3
D19V14, multiclass
        clus
vv       10P GAIN MUTATED 10P GAIN WILD-TYPE
  CLUS_1                3                  2
  CLUS_2                1                  1
  CLUS_3                0                  2
  CLUS_4                2                  2
  CLUS_5                2                  3
  CLUS_6                1                  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"

Clustering(20) Variable = 10Q GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  10Q GAIN MUTATED       46     24     17     18
  10Q GAIN WILD-TYPE    130     88    101    133
D20V1, multiclass
        clus
vv       10Q GAIN MUTATED 10Q GAIN WILD-TYPE
  CLUS_1               46                130
  CLUS_2               24                 88
  CLUS_3               17                101
  CLUS_4               18                133
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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       51     28     26
  10Q GAIN WILD-TYPE    259    130     63
D20V2, multiclass
        clus
vv       10Q GAIN MUTATED 10Q GAIN WILD-TYPE
  CLUS_1               51                259
  CLUS_2               28                130
  CLUS_3               26                 63
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       24     30     51
  10Q GAIN WILD-TYPE    157    101    192
D20V3, multiclass
        clus
vv       10Q GAIN MUTATED 10Q GAIN WILD-TYPE
  CLUS_1               24                157
  CLUS_2               30                101
  CLUS_3               51                192
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_10 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  10Q GAIN MUTATED       12      10     15     14      3     15      9      5
  10Q GAIN WILD-TYPE     73      47     43     68     31     60     25     31
                    vv
clus                 CLUS_8 CLUS_9
  10Q GAIN MUTATED       15      7
  10Q GAIN WILD-TYPE     37     35
D20V4, multiclass
         clus
vv        10Q GAIN MUTATED 10Q GAIN WILD-TYPE
  CLUS_1                12                 73
  CLUS_10               10                 47
  CLUS_2                15                 43
  CLUS_3                14                 68
  CLUS_4                 3                 31
  CLUS_5                15                 60
  CLUS_6                 9                 25
  CLUS_7                 5                 31
  CLUS_8                15                 37
  CLUS_9                 7                 35
[1] 10  2
[1] TRUE
[1] "dimension of contingency table 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       60     17     32
  10Q GAIN WILD-TYPE    182    113    175
D20V5, multiclass
        clus
vv       10Q GAIN MUTATED 10Q GAIN WILD-TYPE
  CLUS_1               60                182
  CLUS_2               17                113
  CLUS_3               32                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 CLUS_4
  10Q GAIN MUTATED       27     28     14     37
  10Q GAIN WILD-TYPE     86     70    173    133
D20V6, multiclass
        clus
vv       10Q GAIN MUTATED 10Q GAIN WILD-TYPE
  CLUS_1               27                 86
  CLUS_2               28                 70
  CLUS_3               14                173
  CLUS_4               37                133
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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       24     35     15
  10Q GAIN WILD-TYPE    122    154     61
D20V7, multiclass
        clus
vv       10Q GAIN MUTATED 10Q GAIN WILD-TYPE
  CLUS_1               24                122
  CLUS_2               35                154
  CLUS_3               15                 61
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger 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       22     10      8     34
  10Q GAIN WILD-TYPE    121     44     52    120
D20V8, multiclass
        clus
vv       10Q GAIN MUTATED 10Q GAIN WILD-TYPE
  CLUS_1               22                121
  CLUS_2               10                 44
  CLUS_3                8                 52
  CLUS_4               34                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
  10Q GAIN MUTATED        7     27     20
  10Q GAIN WILD-TYPE     72     82     92
D20V9, multiclass
        clus
vv       10Q GAIN MUTATED 10Q GAIN WILD-TYPE
  CLUS_1                7                 72
  CLUS_2               27                 82
  CLUS_3               20                 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
  10Q GAIN MUTATED       22     16     16
  10Q GAIN WILD-TYPE    124     43     79
D20V10, multiclass
        clus
vv       10Q GAIN MUTATED 10Q GAIN WILD-TYPE
  CLUS_1               22                124
  CLUS_2               16                 43
  CLUS_3               16                 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 CLUS_4
  10Q GAIN MUTATED       15     25     27     14
  10Q GAIN WILD-TYPE     56    110    114     86
D20V11, multiclass
        clus
vv       10Q GAIN MUTATED 10Q GAIN WILD-TYPE
  CLUS_1               15                 56
  CLUS_2               25                110
  CLUS_3               27                114
  CLUS_4               14                 86
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger 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       13     16     35     17
  10Q GAIN WILD-TYPE     92     55    130     89
D20V12, multiclass
        clus
vv       10Q GAIN MUTATED 10Q GAIN WILD-TYPE
  CLUS_1               13                 92
  CLUS_2               16                 55
  CLUS_3               35                130
  CLUS_4               17                 89
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  10Q GAIN MUTATED        2      2      0      2
  10Q GAIN WILD-TYPE      4      4      5      3
D20V13, multiclass
        clus
vv       10Q GAIN MUTATED 10Q GAIN WILD-TYPE
  CLUS_1                2                  4
  CLUS_2                2                  4
  CLUS_3                0                  5
  CLUS_4                2                  3
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  10Q GAIN MUTATED        2      0      0      2      1      1
  10Q GAIN WILD-TYPE      3      2      2      2      4      3
D20V14, multiclass
        clus
vv       10Q GAIN MUTATED 10Q GAIN WILD-TYPE
  CLUS_1                2                  3
  CLUS_2                0                  2
  CLUS_3                0                  2
  CLUS_4                2                  2
  CLUS_5                1                  4
  CLUS_6                1                  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"

Clustering(21) Variable = 11P GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  11P GAIN MUTATED       23     13     15     21
  11P GAIN WILD-TYPE    153     99    103    130
D21V1, multiclass
        clus
vv       11P GAIN MUTATED 11P GAIN WILD-TYPE
  CLUS_1               23                153
  CLUS_2               13                 99
  CLUS_3               15                103
  CLUS_4               21                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
  11P GAIN MUTATED       48     16      8
  11P GAIN WILD-TYPE    262    142     81
D21V2, multiclass
        clus
vv       11P GAIN MUTATED 11P GAIN WILD-TYPE
  CLUS_1               48                262
  CLUS_2               16                142
  CLUS_3                8                 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
  11P GAIN MUTATED       23     15     34
  11P GAIN WILD-TYPE    158    116    209
D21V3, multiclass
        clus
vv       11P GAIN MUTATED 11P GAIN WILD-TYPE
  CLUS_1               23                158
  CLUS_2               15                116
  CLUS_3               34                209
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_10 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  11P GAIN MUTATED       13       4      8     14      3     11      5      4
  11P GAIN WILD-TYPE     72      53     50     68     31     64     29     32
                    vv
clus                 CLUS_8 CLUS_9
  11P GAIN MUTATED        8      2
  11P GAIN WILD-TYPE     44     40
D21V4, multiclass
         clus
vv        11P GAIN MUTATED 11P GAIN WILD-TYPE
  CLUS_1                13                 72
  CLUS_10                4                 53
  CLUS_2                 8                 50
  CLUS_3                14                 68
  CLUS_4                 3                 31
  CLUS_5                11                 64
  CLUS_6                 5                 29
  CLUS_7                 4                 32
  CLUS_8                 8                 44
  CLUS_9                 2                 40
[1] 10  2
[1] TRUE
[1] "dimension of contingency table 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       38      9     26
  11P GAIN WILD-TYPE    204    121    181
D21V5, multiclass
        clus
vv       11P GAIN MUTATED 11P GAIN WILD-TYPE
  CLUS_1               38                204
  CLUS_2                9                121
  CLUS_3               26                181
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger 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       20      6     22     24
  11P GAIN WILD-TYPE     93     92    165    146
D21V6, multiclass
        clus
vv       11P GAIN MUTATED 11P GAIN WILD-TYPE
  CLUS_1               20                 93
  CLUS_2                6                 92
  CLUS_3               22                165
  CLUS_4               24                146
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        8     29     11
  11P GAIN WILD-TYPE    138    160     65
D21V7, multiclass
        clus
vv       11P GAIN MUTATED 11P GAIN WILD-TYPE
  CLUS_1                8                138
  CLUS_2               29                160
  CLUS_3               11                 65
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger 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       13      6      4     25
  11P GAIN WILD-TYPE    130     48     56    129
D21V8, multiclass
        clus
vv       11P GAIN MUTATED 11P GAIN WILD-TYPE
  CLUS_1               13                130
  CLUS_2                6                 48
  CLUS_3                4                 56
  CLUS_4               25                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
  11P GAIN MUTATED       12     12     18
  11P GAIN WILD-TYPE     67     97     94
D21V9, multiclass
        clus
vv       11P GAIN MUTATED 11P GAIN WILD-TYPE
  CLUS_1               12                 67
  CLUS_2               12                 97
  CLUS_3               18                 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
  11P GAIN MUTATED       24      5     13
  11P GAIN WILD-TYPE    122     54     82
D21V10, multiclass
        clus
vv       11P GAIN MUTATED 11P GAIN WILD-TYPE
  CLUS_1               24                122
  CLUS_2                5                 54
  CLUS_3               13                 82
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger 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       10     15     19     16
  11P GAIN WILD-TYPE     61    120    122     84
D21V11, multiclass
        clus
vv       11P GAIN MUTATED 11P GAIN WILD-TYPE
  CLUS_1               10                 61
  CLUS_2               15                120
  CLUS_3               19                122
  CLUS_4               16                 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
  11P GAIN MUTATED       13      8     25     14
  11P GAIN WILD-TYPE     92     63    140     92
D21V12, multiclass
        clus
vv       11P GAIN MUTATED 11P GAIN WILD-TYPE
  CLUS_1               13                 92
  CLUS_2                8                 63
  CLUS_3               25                140
  CLUS_4               14                 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
  11P GAIN MUTATED        0      0      1      1
  11P GAIN WILD-TYPE      6      6      4      4
D21V13, multiclass
[1] "Remove cluster labels:" "11P GAIN MUTATED"      
clus
  11P GAIN MUTATED 11P GAIN WILD-TYPE 
                 2                 20 
        TCGA-04-1652         TCGA-09-2050         TCGA-09-2054 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-13-0908         TCGA-23-2077         TCGA-24-2036 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-24-2288         TCGA-24-2289         TCGA-24-2290 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-24-2297         TCGA-25-2392         TCGA-25-2399 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-25-2404         TCGA-57-1994         TCGA-59-2363 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-61-1918         TCGA-61-2088         TCGA-61-2098 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-61-2109         TCGA-61-2111 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  11P GAIN MUTATED        0      0      0      0      1      1
  11P GAIN WILD-TYPE      5      2      2      4      4      3
D21V14, multiclass
[1] "Remove cluster labels:" "11P GAIN MUTATED"      
clus
  11P GAIN MUTATED 11P GAIN WILD-TYPE 
                 2                 20 
        TCGA-04-1652         TCGA-09-2050         TCGA-09-2054 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-13-0908         TCGA-23-2077         TCGA-24-2036 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-24-2288         TCGA-24-2289         TCGA-24-2290 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-24-2297         TCGA-25-2392         TCGA-25-2399 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-25-2404         TCGA-57-1994         TCGA-59-2363 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-61-1918         TCGA-61-2088         TCGA-61-2098 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 
        TCGA-61-2109         TCGA-61-2111 
"11P GAIN WILD-TYPE" "11P GAIN WILD-TYPE" 

Clustering(22) Variable = 11Q GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  11Q GAIN MUTATED       35     19     19     36
  11Q GAIN WILD-TYPE    141     93     99    115
D22V1, multiclass
        clus
vv       11Q GAIN MUTATED 11Q GAIN WILD-TYPE
  CLUS_1               35                141
  CLUS_2               19                 93
  CLUS_3               19                 99
  CLUS_4               36                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
  11Q GAIN MUTATED       69     26     14
  11Q GAIN WILD-TYPE    241    132     75
D22V2, multiclass
        clus
vv       11Q GAIN MUTATED 11Q GAIN WILD-TYPE
  CLUS_1               69                241
  CLUS_2               26                132
  CLUS_3               14                 75
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       32     27     50
  11Q GAIN WILD-TYPE    149    104    193
D22V3, multiclass
        clus
vv       11Q GAIN MUTATED 11Q GAIN WILD-TYPE
  CLUS_1               32                149
  CLUS_2               27                104
  CLUS_3               50                193
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_10 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  11Q GAIN MUTATED       14       6     19     17      6     14      7      8
  11Q GAIN WILD-TYPE     71      51     39     65     28     61     27     28
                    vv
clus                 CLUS_8 CLUS_9
  11Q GAIN MUTATED       10      8
  11Q GAIN WILD-TYPE     42     34
D22V4, multiclass
         clus
vv        11Q GAIN MUTATED 11Q GAIN WILD-TYPE
  CLUS_1                14                 71
  CLUS_10                6                 51
  CLUS_2                19                 39
  CLUS_3                17                 65
  CLUS_4                 6                 28
  CLUS_5                14                 61
  CLUS_6                 7                 27
  CLUS_7                 8                 28
  CLUS_8                10                 42
  CLUS_9                 8                 34
[1] 10  2
[1] TRUE
[1] "dimension of contingency table 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       57     10     47
  11Q GAIN WILD-TYPE    185    120    160
D22V5, multiclass
        clus
vv       11Q GAIN MUTATED 11Q GAIN WILD-TYPE
  CLUS_1               57                185
  CLUS_2               10                120
  CLUS_3               47                160
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger 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       26      9     32     45
  11Q GAIN WILD-TYPE     87     89    155    125
D22V6, multiclass
        clus
vv       11Q GAIN MUTATED 11Q GAIN WILD-TYPE
  CLUS_1               26                 87
  CLUS_2                9                 89
  CLUS_3               32                155
  CLUS_4               45                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
  11Q GAIN MUTATED       22     39     15
  11Q GAIN WILD-TYPE    124    150     61
D22V7, multiclass
        clus
vv       11Q GAIN MUTATED 11Q GAIN WILD-TYPE
  CLUS_1               22                124
  CLUS_2               39                150
  CLUS_3               15                 61
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger 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       22      8     12     34
  11Q GAIN WILD-TYPE    121     46     48    120
D22V8, multiclass
        clus
vv       11Q GAIN MUTATED 11Q GAIN WILD-TYPE
  CLUS_1               22                121
  CLUS_2                8                 46
  CLUS_3               12                 48
  CLUS_4               34                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
  11Q GAIN MUTATED       17     20     27
  11Q GAIN WILD-TYPE     62     89     85
D22V9, multiclass
        clus
vv       11Q GAIN MUTATED 11Q GAIN WILD-TYPE
  CLUS_1               17                 62
  CLUS_2               20                 89
  CLUS_3               27                 85
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       34      8     22
  11Q GAIN WILD-TYPE    112     51     73
D22V10, multiclass
        clus
vv       11Q GAIN MUTATED 11Q GAIN WILD-TYPE
  CLUS_1               34                112
  CLUS_2                8                 51
  CLUS_3               22                 73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger 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       14     27     31     17
  11Q GAIN WILD-TYPE     57    108    110     83
D22V11, multiclass
        clus
vv       11Q GAIN MUTATED 11Q GAIN WILD-TYPE
  CLUS_1               14                 57
  CLUS_2               27                108
  CLUS_3               31                110
  CLUS_4               17                 83
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger 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       21     12     32     24
  11Q GAIN WILD-TYPE     84     59    133     82
D22V12, multiclass
        clus
vv       11Q GAIN MUTATED 11Q GAIN WILD-TYPE
  CLUS_1               21                 84
  CLUS_2               12                 59
  CLUS_3               32                133
  CLUS_4               24                 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
  11Q GAIN MUTATED        3      0      1      1
  11Q GAIN WILD-TYPE      3      6      4      4
D22V13, multiclass
        clus
vv       11Q GAIN MUTATED 11Q GAIN WILD-TYPE
  CLUS_1                3                  3
  CLUS_2                0                  6
  CLUS_3                1                  4
  CLUS_4                1                  4
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  11Q GAIN MUTATED        2      0      0      0      1      2
  11Q GAIN WILD-TYPE      3      2      2      4      4      2
D22V14, multiclass
        clus
vv       11Q GAIN MUTATED 11Q GAIN WILD-TYPE
  CLUS_1                2                  3
  CLUS_2                0                  2
  CLUS_3                0                  2
  CLUS_4                0                  4
  CLUS_5                1                  4
  CLUS_6                2                  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"

Clustering(23) Variable = 12P GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  12P GAIN MUTATED      104     45     38     57
  12P GAIN WILD-TYPE     72     67     80     94
D23V1, multiclass
        clus
vv       12P GAIN MUTATED 12P GAIN WILD-TYPE
  CLUS_1              104                 72
  CLUS_2               45                 67
  CLUS_3               38                 80
  CLUS_4               57                 94
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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      133     58     53
  12P GAIN WILD-TYPE    177    100     36
D23V2, multiclass
        clus
vv       12P GAIN MUTATED 12P GAIN WILD-TYPE
  CLUS_1              133                177
  CLUS_2               58                100
  CLUS_3               53                 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
  12P GAIN MUTATED       74     59    110
  12P GAIN WILD-TYPE    107     72    133
D23V3, multiclass
        clus
vv       12P GAIN MUTATED 12P GAIN WILD-TYPE
  CLUS_1               74                107
  CLUS_2               59                 72
  CLUS_3              110                133
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_10 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  12P GAIN MUTATED       33      21     28     36     16     30     19     11
  12P GAIN WILD-TYPE     52      36     30     46     18     45     15     25
                    vv
clus                 CLUS_8 CLUS_9
  12P GAIN MUTATED       37     12
  12P GAIN WILD-TYPE     15     30
D23V4, multiclass
         clus
vv        12P GAIN MUTATED 12P GAIN WILD-TYPE
  CLUS_1                33                 52
  CLUS_10               21                 36
  CLUS_2                28                 30
  CLUS_3                36                 46
  CLUS_4                16                 18
  CLUS_5                30                 45
  CLUS_6                19                 15
  CLUS_7                11                 25
  CLUS_8                37                 15
  CLUS_9                12                 30
[1] 10  2
[1] TRUE
[1] "dimension of contingency table 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      155     38     64
  12P GAIN WILD-TYPE     87     92    143
D23V5, multiclass
        clus
vv       12P GAIN MUTATED 12P GAIN WILD-TYPE
  CLUS_1              155                 87
  CLUS_2               38                 92
  CLUS_3               64                143
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger 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       58     57     43     93
  12P GAIN WILD-TYPE     55     41    144     77
D23V6, multiclass
        clus
vv       12P GAIN MUTATED 12P GAIN WILD-TYPE
  CLUS_1               58                 55
  CLUS_2               57                 41
  CLUS_3               43                144
  CLUS_4               93                 77
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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       66     85     24
  12P GAIN WILD-TYPE     80    104     52
D23V7, multiclass
        clus
vv       12P GAIN MUTATED 12P GAIN WILD-TYPE
  CLUS_1               66                 80
  CLUS_2               85                104
  CLUS_3               24                 52
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  12P GAIN MUTATED       62     20     29     64
  12P GAIN WILD-TYPE     81     34     31     90
D23V8, multiclass
        clus
vv       12P GAIN MUTATED 12P GAIN WILD-TYPE
  CLUS_1               62                 81
  CLUS_2               20                 34
  CLUS_3               29                 31
  CLUS_4               64                 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
  12P GAIN MUTATED       22     62     45
  12P GAIN WILD-TYPE     57     47     67
D23V9, multiclass
        clus
vv       12P GAIN MUTATED 12P GAIN WILD-TYPE
  CLUS_1               22                 57
  CLUS_2               62                 47
  CLUS_3               45                 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
  12P GAIN MUTATED       54     38     37
  12P GAIN WILD-TYPE     92     21     58
D23V10, multiclass
        clus
vv       12P GAIN MUTATED 12P GAIN WILD-TYPE
  CLUS_1               54                 92
  CLUS_2               38                 21
  CLUS_3               37                 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 CLUS_4
  12P GAIN MUTATED       34     49     68     42
  12P GAIN WILD-TYPE     37     86     73     58
D23V11, multiclass
        clus
vv       12P GAIN MUTATED 12P GAIN WILD-TYPE
  CLUS_1               34                 37
  CLUS_2               49                 86
  CLUS_3               68                 73
  CLUS_4               42                 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
  12P GAIN MUTATED       27     38     81     47
  12P GAIN WILD-TYPE     78     33     84     59
D23V12, multiclass
        clus
vv       12P GAIN MUTATED 12P GAIN WILD-TYPE
  CLUS_1               27                 78
  CLUS_2               38                 33
  CLUS_3               81                 84
  CLUS_4               47                 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
  12P GAIN MUTATED        2      1      2      4
  12P GAIN WILD-TYPE      4      5      3      1
D23V13, multiclass
        clus
vv       12P GAIN MUTATED 12P GAIN WILD-TYPE
  CLUS_1                2                  4
  CLUS_2                1                  5
  CLUS_3                2                  3
  CLUS_4                4                  1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  12P GAIN MUTATED        2      0      0      1      4      2
  12P GAIN WILD-TYPE      3      2      2      3      1      2
D23V14, multiclass
        clus
vv       12P GAIN MUTATED 12P GAIN WILD-TYPE
  CLUS_1                2                  3
  CLUS_2                0                  2
  CLUS_3                0                  2
  CLUS_4                1                  3
  CLUS_5                4                  1
  CLUS_6                2                  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"

Clustering(24) Variable = 12Q GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  12Q GAIN MUTATED       71     33     27     39
  12Q GAIN WILD-TYPE    105     79     91    112
D24V1, multiclass
        clus
vv       12Q GAIN MUTATED 12Q GAIN WILD-TYPE
  CLUS_1               71                105
  CLUS_2               33                 79
  CLUS_3               27                 91
  CLUS_4               39                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
  12Q GAIN MUTATED       95     40     35
  12Q GAIN WILD-TYPE    215    118     54
D24V2, multiclass
        clus
vv       12Q GAIN MUTATED 12Q GAIN WILD-TYPE
  CLUS_1               95                215
  CLUS_2               40                118
  CLUS_3               35                 54
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  12Q GAIN MUTATED       56     40     73
  12Q GAIN WILD-TYPE    125     91    170
D24V3, multiclass
        clus
vv       12Q GAIN MUTATED 12Q GAIN WILD-TYPE
  CLUS_1               56                125
  CLUS_2               40                 91
  CLUS_3               73                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_10 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  12Q GAIN MUTATED       26      16     20     21     11     20     15     10
  12Q GAIN WILD-TYPE     59      41     38     61     23     55     19     26
                    vv
clus                 CLUS_8 CLUS_9
  12Q GAIN MUTATED       23      7
  12Q GAIN WILD-TYPE     29     35
D24V4, multiclass
         clus
vv        12Q GAIN MUTATED 12Q GAIN WILD-TYPE
  CLUS_1                26                 59
  CLUS_10               16                 41
  CLUS_2                20                 38
  CLUS_3                21                 61
  CLUS_4                11                 23
  CLUS_5                20                 55
  CLUS_6                15                 19
  CLUS_7                10                 26
  CLUS_8                23                 29
  CLUS_9                 7                 35
[1] 10  2
[1] TRUE
[1] "dimension of contingency table 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      111     30     37
  12Q GAIN WILD-TYPE    131    100    170
D24V5, multiclass
        clus
vv       12Q GAIN MUTATED 12Q GAIN WILD-TYPE
  CLUS_1              111                131
  CLUS_2               30                100
  CLUS_3               37                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 CLUS_4
  12Q GAIN MUTATED       45     38     26     67
  12Q GAIN WILD-TYPE     68     60    161    103
D24V6, multiclass
        clus
vv       12Q GAIN MUTATED 12Q GAIN WILD-TYPE
  CLUS_1               45                 68
  CLUS_2               38                 60
  CLUS_3               26                161
  CLUS_4               67                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
  12Q GAIN MUTATED       40     65     15
  12Q GAIN WILD-TYPE    106    124     61
D24V7, multiclass
        clus
vv       12Q GAIN MUTATED 12Q GAIN WILD-TYPE
  CLUS_1               40                106
  CLUS_2               65                124
  CLUS_3               15                 61
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger 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       42     11     20     47
  12Q GAIN WILD-TYPE    101     43     40    107
D24V8, multiclass
        clus
vv       12Q GAIN MUTATED 12Q GAIN WILD-TYPE
  CLUS_1               42                101
  CLUS_2               11                 43
  CLUS_3               20                 40
  CLUS_4               47                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
  12Q GAIN MUTATED       20     46     32
  12Q GAIN WILD-TYPE     59     63     80
D24V9, multiclass
        clus
vv       12Q GAIN MUTATED 12Q GAIN WILD-TYPE
  CLUS_1               20                 59
  CLUS_2               46                 63
  CLUS_3               32                 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
  12Q GAIN MUTATED       46     27     25
  12Q GAIN WILD-TYPE    100     32     70
D24V10, multiclass
        clus
vv       12Q GAIN MUTATED 12Q GAIN WILD-TYPE
  CLUS_1               46                100
  CLUS_2               27                 32
  CLUS_3               25                 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 CLUS_4
  12Q GAIN MUTATED       24     31     49     32
  12Q GAIN WILD-TYPE     47    104     92     68
D24V11, multiclass
        clus
vv       12Q GAIN MUTATED 12Q GAIN WILD-TYPE
  CLUS_1               24                 47
  CLUS_2               31                104
  CLUS_3               49                 92
  CLUS_4               32                 68
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger 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       19     28     55     34
  12Q GAIN WILD-TYPE     86     43    110     72
D24V12, multiclass
        clus
vv       12Q GAIN MUTATED 12Q GAIN WILD-TYPE
  CLUS_1               19                 86
  CLUS_2               28                 43
  CLUS_3               55                110
  CLUS_4               34                 72
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  12Q GAIN MUTATED        2      0      1      4
  12Q GAIN WILD-TYPE      4      6      4      1
D24V13, multiclass
        clus
vv       12Q GAIN MUTATED 12Q GAIN WILD-TYPE
  CLUS_1                2                  4
  CLUS_2                0                  6
  CLUS_3                1                  4
  CLUS_4                4                  1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  12Q GAIN MUTATED        2      0      0      0      3      2
  12Q GAIN WILD-TYPE      3      2      2      4      2      2
D24V14, multiclass
        clus
vv       12Q GAIN MUTATED 12Q GAIN WILD-TYPE
  CLUS_1                2                  3
  CLUS_2                0                  2
  CLUS_3                0                  2
  CLUS_4                0                  4
  CLUS_5                3                  2
  CLUS_6                2                  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"

Clustering(25) Variable = 13Q GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  13Q GAIN MUTATED       25     17     10      6
  13Q GAIN WILD-TYPE    151     95    108    145
D25V1, multiclass
        clus
vv       13Q GAIN MUTATED 13Q GAIN WILD-TYPE
  CLUS_1               25                151
  CLUS_2               17                 95
  CLUS_3               10                108
  CLUS_4                6                145
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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       19     20     19
  13Q GAIN WILD-TYPE    291    138     70
D25V2, multiclass
        clus
vv       13Q GAIN MUTATED 13Q GAIN WILD-TYPE
  CLUS_1               19                291
  CLUS_2               20                138
  CLUS_3               19                 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
  13Q GAIN MUTATED       13     16     28
  13Q GAIN WILD-TYPE    168    115    215
D25V3, multiclass
        clus
vv       13Q GAIN MUTATED 13Q GAIN WILD-TYPE
  CLUS_1               13                168
  CLUS_2               16                115
  CLUS_3               28                215
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_10 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  13Q GAIN MUTATED        6       8      5      6      2     10      9      1
  13Q GAIN WILD-TYPE     79      49     53     76     32     65     25     35
                    vv
clus                 CLUS_8 CLUS_9
  13Q GAIN MUTATED        9      1
  13Q GAIN WILD-TYPE     43     41
D25V4, multiclass
         clus
vv        13Q GAIN MUTATED 13Q GAIN WILD-TYPE
  CLUS_1                 6                 79
  CLUS_10                8                 49
  CLUS_2                 5                 53
  CLUS_3                 6                 76
  CLUS_4                 2                 32
  CLUS_5                10                 65
  CLUS_6                 9                 25
  CLUS_7                 1                 35
  CLUS_8                 9                 43
  CLUS_9                 1                 41
[1] 10  2
[1] TRUE
[1] "dimension of contingency table 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       40     13      8
  13Q GAIN WILD-TYPE    202    117    199
D25V5, multiclass
        clus
vv       13Q GAIN MUTATED 13Q GAIN WILD-TYPE
  CLUS_1               40                202
  CLUS_2               13                117
  CLUS_3                8                199
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger 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       15     19      8     18
  13Q GAIN WILD-TYPE     98     79    179    152
D25V6, multiclass
        clus
vv       13Q GAIN MUTATED 13Q GAIN WILD-TYPE
  CLUS_1               15                 98
  CLUS_2               19                 79
  CLUS_3                8                179
  CLUS_4               18                152
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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       18     16      5
  13Q GAIN WILD-TYPE    128    173     71
D25V7, multiclass
        clus
vv       13Q GAIN MUTATED 13Q GAIN WILD-TYPE
  CLUS_1               18                128
  CLUS_2               16                173
  CLUS_3                5                 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
  13Q GAIN MUTATED       15      4      7     13
  13Q GAIN WILD-TYPE    128     50     53    141
D25V8, multiclass
        clus
vv       13Q GAIN MUTATED 13Q GAIN WILD-TYPE
  CLUS_1               15                128
  CLUS_2                4                 50
  CLUS_3                7                 53
  CLUS_4               13                141
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        3     15     16
  13Q GAIN WILD-TYPE     76     94     96
D25V9, multiclass
        clus
vv       13Q GAIN MUTATED 13Q GAIN WILD-TYPE
  CLUS_1                3                 76
  CLUS_2               15                 94
  CLUS_3               16                 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
  13Q GAIN MUTATED       11      9     14
  13Q GAIN WILD-TYPE    135     50     81
D25V10, multiclass
        clus
vv       13Q GAIN MUTATED 13Q GAIN WILD-TYPE
  CLUS_1               11                135
  CLUS_2                9                 50
  CLUS_3               14                 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 CLUS_4
  13Q GAIN MUTATED       11     11     16     10
  13Q GAIN WILD-TYPE     60    124    125     90
D25V11, multiclass
        clus
vv       13Q GAIN MUTATED 13Q GAIN WILD-TYPE
  CLUS_1               11                 60
  CLUS_2               11                124
  CLUS_3               16                125
  CLUS_4               10                 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
  13Q GAIN MUTATED        6      5     25     12
  13Q GAIN WILD-TYPE     99     66    140     94
D25V12, multiclass
        clus
vv       13Q GAIN MUTATED 13Q GAIN WILD-TYPE
  CLUS_1                6                 99
  CLUS_2                5                 66
  CLUS_3               25                140
  CLUS_4               12                 94
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger 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        0      1      0      0
  13Q GAIN WILD-TYPE      6      5      5      5
D25V13, multiclass
[1] "Remove cluster labels:" "13Q GAIN MUTATED"      
clus
  13Q GAIN MUTATED 13Q GAIN WILD-TYPE 
                 1                 21 
        TCGA-04-1652         TCGA-09-2050         TCGA-09-2054 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-13-0908         TCGA-23-2077         TCGA-24-1928 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-24-2036         TCGA-24-2288         TCGA-24-2289 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-24-2290         TCGA-24-2297         TCGA-25-2392 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-25-2399         TCGA-25-2400         TCGA-25-2404 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-57-1994         TCGA-59-2363         TCGA-61-1918 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-61-2088         TCGA-61-2109         TCGA-61-2111 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  13Q GAIN MUTATED        0      0      0      1      0      0
  13Q GAIN WILD-TYPE      5      2      2      3      5      4
D25V14, multiclass
[1] "Remove cluster labels:" "13Q GAIN MUTATED"      
clus
  13Q GAIN MUTATED 13Q GAIN WILD-TYPE 
                 1                 21 
        TCGA-04-1652         TCGA-09-2050         TCGA-09-2054 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-13-0908         TCGA-23-2077         TCGA-24-1928 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-24-2036         TCGA-24-2288         TCGA-24-2289 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-24-2290         TCGA-24-2297         TCGA-25-2392 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-25-2399         TCGA-25-2400         TCGA-25-2404 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-57-1994         TCGA-59-2363         TCGA-61-1918 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-61-2088         TCGA-61-2109         TCGA-61-2111 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 

Clustering(26) Variable = 14Q GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  14Q GAIN MUTATED       20     13     11     13
  14Q GAIN WILD-TYPE    156     99    107    138
D26V1, multiclass
        clus
vv       14Q GAIN MUTATED 14Q GAIN WILD-TYPE
  CLUS_1               20                156
  CLUS_2               13                 99
  CLUS_3               11                107
  CLUS_4               13                138
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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       25     21     11
  14Q GAIN WILD-TYPE    285    137     78
D26V2, multiclass
        clus
vv       14Q GAIN MUTATED 14Q GAIN WILD-TYPE
  CLUS_1               25                285
  CLUS_2               21                137
  CLUS_3               11                 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
  14Q GAIN MUTATED       13     16     28
  14Q GAIN WILD-TYPE    168    115    215
D26V3, multiclass
        clus
vv       14Q GAIN MUTATED 14Q GAIN WILD-TYPE
  CLUS_1               13                168
  CLUS_2               16                115
  CLUS_3               28                215
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_10 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  14Q GAIN MUTATED        7       7      7      9      4      5      3      6
  14Q GAIN WILD-TYPE     78      50     51     73     30     70     31     30
                    vv
clus                 CLUS_8 CLUS_9
  14Q GAIN MUTATED        7      2
  14Q GAIN WILD-TYPE     45     40
D26V4, multiclass
         clus
vv        14Q GAIN MUTATED 14Q GAIN WILD-TYPE
  CLUS_1                 7                 78
  CLUS_10                7                 50
  CLUS_2                 7                 51
  CLUS_3                 9                 73
  CLUS_4                 4                 30
  CLUS_5                 5                 70
  CLUS_6                 3                 31
  CLUS_7                 6                 30
  CLUS_8                 7                 45
  CLUS_9                 2                 40
[1] 10  2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  14Q GAIN MUTATED       22     13     23
  14Q GAIN WILD-TYPE    220    117    184
D26V5, multiclass
        clus
vv       14Q GAIN MUTATED 14Q GAIN WILD-TYPE
  CLUS_1               22                220
  CLUS_2               13                117
  CLUS_3               23                184
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger 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       15     12     13     17
  14Q GAIN WILD-TYPE     98     86    174    153
D26V6, multiclass
        clus
vv       14Q GAIN MUTATED 14Q GAIN WILD-TYPE
  CLUS_1               15                 98
  CLUS_2               12                 86
  CLUS_3               13                174
  CLUS_4               17                153
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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       12     20      6
  14Q GAIN WILD-TYPE    134    169     70
D26V7, multiclass
        clus
vv       14Q GAIN MUTATED 14Q GAIN WILD-TYPE
  CLUS_1               12                134
  CLUS_2               20                169
  CLUS_3                6                 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 CLUS_4
  14Q GAIN MUTATED       12      7      4     15
  14Q GAIN WILD-TYPE    131     47     56    139
D26V8, multiclass
        clus
vv       14Q GAIN MUTATED 14Q GAIN WILD-TYPE
  CLUS_1               12                131
  CLUS_2                7                 47
  CLUS_3                4                 56
  CLUS_4               15                139
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        7     12     12
  14Q GAIN WILD-TYPE     72     97    100
D26V9, multiclass
        clus
vv       14Q GAIN MUTATED 14Q GAIN WILD-TYPE
  CLUS_1                7                 72
  CLUS_2               12                 97
  CLUS_3               12                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
  14Q GAIN MUTATED       14      6     11
  14Q GAIN WILD-TYPE    132     53     84
D26V10, multiclass
        clus
vv       14Q GAIN MUTATED 14Q GAIN WILD-TYPE
  CLUS_1               14                132
  CLUS_2                6                 53
  CLUS_3               11                 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 CLUS_4
  14Q GAIN MUTATED       10      9     17      9
  14Q GAIN WILD-TYPE     61    126    124     91
D26V11, multiclass
        clus
vv       14Q GAIN MUTATED 14Q GAIN WILD-TYPE
  CLUS_1               10                 61
  CLUS_2                9                126
  CLUS_3               17                124
  CLUS_4                9                 91
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  14Q GAIN MUTATED       10      5     17     13
  14Q GAIN WILD-TYPE     95     66    148     93
D26V12, multiclass
        clus
vv       14Q GAIN MUTATED 14Q GAIN WILD-TYPE
  CLUS_1               10                 95
  CLUS_2                5                 66
  CLUS_3               17                148
  CLUS_4               13                 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
  14Q GAIN MUTATED        1      0      0      0
  14Q GAIN WILD-TYPE      5      6      5      5
D26V13, multiclass
[1] "Remove cluster labels:" "14Q GAIN MUTATED"      
clus
  14Q GAIN MUTATED 14Q GAIN WILD-TYPE 
                 1                 21 
        TCGA-09-2050         TCGA-09-2054         TCGA-13-0908 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-23-2077         TCGA-24-1928         TCGA-24-2036 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-24-2288         TCGA-24-2289         TCGA-24-2290 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-24-2297         TCGA-25-2392         TCGA-25-2399 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-25-2400         TCGA-25-2404         TCGA-57-1994 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-59-2363         TCGA-61-1918         TCGA-61-2088 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-61-2098         TCGA-61-2109         TCGA-61-2111 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  14Q GAIN MUTATED        1      0      0      0      0      0
  14Q GAIN WILD-TYPE      4      2      2      4      5      4
D26V14, multiclass
[1] "Remove cluster labels:" "14Q GAIN MUTATED"      
clus
  14Q GAIN MUTATED 14Q GAIN WILD-TYPE 
                 1                 21 
        TCGA-09-2050         TCGA-09-2054         TCGA-13-0908 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-23-2077         TCGA-24-1928         TCGA-24-2036 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-24-2288         TCGA-24-2289         TCGA-24-2290 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-24-2297         TCGA-25-2392         TCGA-25-2399 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-25-2400         TCGA-25-2404         TCGA-57-1994 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-59-2363         TCGA-61-1918         TCGA-61-2088 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-61-2098         TCGA-61-2109         TCGA-61-2111 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 

Clustering(27) Variable = 15Q GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  15Q GAIN MUTATED       12      7      9      8
  15Q GAIN WILD-TYPE    164    105    109    143
D27V1, multiclass
        clus
vv       15Q GAIN MUTATED 15Q GAIN WILD-TYPE
  CLUS_1               12                164
  CLUS_2                7                105
  CLUS_3                9                109
  CLUS_4                8                143
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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       23      8      5
  15Q GAIN WILD-TYPE    287    150     84
D27V2, multiclass
        clus
vv       15Q GAIN MUTATED 15Q GAIN WILD-TYPE
  CLUS_1               23                287
  CLUS_2                8                150
  CLUS_3                5                 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
  15Q GAIN MUTATED       17      5     14
  15Q GAIN WILD-TYPE    164    126    229
D27V3, multiclass
        clus
vv       15Q GAIN MUTATED 15Q GAIN WILD-TYPE
  CLUS_1               17                164
  CLUS_2                5                126
  CLUS_3               14                229
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_10 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  15Q GAIN MUTATED        9       5      2      4      0      5      2      2
  15Q GAIN WILD-TYPE     76      52     56     78     34     70     32     34
                    vv
clus                 CLUS_8 CLUS_9
  15Q GAIN MUTATED        4      3
  15Q GAIN WILD-TYPE     48     39
D27V4, multiclass
         clus
vv        15Q GAIN MUTATED 15Q GAIN WILD-TYPE
  CLUS_1                 9                 76
  CLUS_10                5                 52
  CLUS_2                 2                 56
  CLUS_3                 4                 78
  CLUS_4                 0                 34
  CLUS_5                 5                 70
  CLUS_6                 2                 32
  CLUS_7                 2                 34
  CLUS_8                 4                 48
  CLUS_9                 3                 39
[1] 10  2
[1] TRUE
[1] "dimension of contingency table 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       13      7     18
  15Q GAIN WILD-TYPE    229    123    189
D27V5, multiclass
        clus
vv       15Q GAIN MUTATED 15Q GAIN WILD-TYPE
  CLUS_1               13                229
  CLUS_2                7                123
  CLUS_3               18                189
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  15Q GAIN MUTATED        7      8     13      9
  15Q GAIN WILD-TYPE    106     90    174    161
D27V6, multiclass
        clus
vv       15Q GAIN MUTATED 15Q GAIN WILD-TYPE
  CLUS_1                7                106
  CLUS_2                8                 90
  CLUS_3               13                174
  CLUS_4                9                161
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  15Q GAIN MUTATED        8     10      2
  15Q GAIN WILD-TYPE    138    179     74
D27V7, multiclass
        clus
vv       15Q GAIN MUTATED 15Q GAIN WILD-TYPE
  CLUS_1                8                138
  CLUS_2               10                179
  CLUS_3                2                 74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  15Q GAIN MUTATED        5      0      3     12
  15Q GAIN WILD-TYPE    138     54     57    142
D27V8, multiclass
        clus
vv       15Q GAIN MUTATED 15Q GAIN WILD-TYPE
  CLUS_1                5                138
  CLUS_2                0                 54
  CLUS_3                3                 57
  CLUS_4               12                142
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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      7      4
  15Q GAIN WILD-TYPE     75    102    108
D27V9, multiclass
        clus
vv       15Q GAIN MUTATED 15Q GAIN WILD-TYPE
  CLUS_1                4                 75
  CLUS_2                7                102
  CLUS_3                4                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
  15Q GAIN MUTATED        6      5      4
  15Q GAIN WILD-TYPE    140     54     91
D27V10, multiclass
        clus
vv       15Q GAIN MUTATED 15Q GAIN WILD-TYPE
  CLUS_1                6                140
  CLUS_2                5                 54
  CLUS_3                4                 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
  15Q GAIN MUTATED        5      5     11      4
  15Q GAIN WILD-TYPE     66    130    130     96
D27V11, multiclass
        clus
vv       15Q GAIN MUTATED 15Q GAIN WILD-TYPE
  CLUS_1                5                 66
  CLUS_2                5                130
  CLUS_3               11                130
  CLUS_4                4                 96
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  15Q GAIN MUTATED        5      3      7     10
  15Q GAIN WILD-TYPE    100     68    158     96
D27V12, multiclass
        clus
vv       15Q GAIN MUTATED 15Q GAIN WILD-TYPE
  CLUS_1                5                100
  CLUS_2                3                 68
  CLUS_3                7                158
  CLUS_4               10                 96
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  15Q GAIN MUTATED        1      0      0      0
  15Q GAIN WILD-TYPE      5      6      5      5
D27V13, multiclass
[1] "Remove cluster labels:" "15Q GAIN MUTATED"      
clus
  15Q GAIN MUTATED 15Q GAIN WILD-TYPE 
                 1                 21 
        TCGA-04-1652         TCGA-09-2050         TCGA-09-2054 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-13-0908         TCGA-23-2077         TCGA-24-1928 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-24-2036         TCGA-24-2288         TCGA-24-2289 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-24-2290         TCGA-24-2297         TCGA-25-2392 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-25-2399         TCGA-25-2400         TCGA-25-2404 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-59-2363         TCGA-61-1918         TCGA-61-2088 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-61-2098         TCGA-61-2109         TCGA-61-2111 
"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
  15Q GAIN MUTATED        1      0      0      0      0      0
  15Q GAIN WILD-TYPE      4      2      2      4      5      4
D27V14, multiclass
[1] "Remove cluster labels:" "15Q GAIN MUTATED"      
clus
  15Q GAIN MUTATED 15Q GAIN WILD-TYPE 
                 1                 21 
        TCGA-04-1652         TCGA-09-2050         TCGA-09-2054 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-13-0908         TCGA-23-2077         TCGA-24-1928 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-24-2036         TCGA-24-2288         TCGA-24-2289 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-24-2290         TCGA-24-2297         TCGA-25-2392 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-25-2399         TCGA-25-2400         TCGA-25-2404 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-59-2363         TCGA-61-1918         TCGA-61-2088 
"15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" "15Q GAIN WILD-TYPE" 
        TCGA-61-2098         TCGA-61-2109         TCGA-61-2111 
"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
  16P GAIN MUTATED       22      6     19     11
  16P GAIN WILD-TYPE    154    106     99    140
D28V1, multiclass
        clus
vv       16P GAIN MUTATED 16P GAIN WILD-TYPE
  CLUS_1               22                154
  CLUS_2                6                106
  CLUS_3               19                 99
  CLUS_4               11                140
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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       34      8     16
  16P GAIN WILD-TYPE    276    150     73
D28V2, multiclass
        clus
vv       16P GAIN MUTATED 16P GAIN WILD-TYPE
  CLUS_1               34                276
  CLUS_2                8                150
  CLUS_3               16                 73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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     14     29
  16P GAIN WILD-TYPE    166    117    214
D28V3, multiclass
        clus
vv       16P GAIN MUTATED 16P GAIN WILD-TYPE
  CLUS_1               15                166
  CLUS_2               14                117
  CLUS_3               29                214
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_10 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  16P GAIN MUTATED        8       7     10     10      1      5      4      1
  16P GAIN WILD-TYPE     77      50     48     72     33     70     30     35
                    vv
clus                 CLUS_8 CLUS_9
  16P GAIN MUTATED        9      3
  16P GAIN WILD-TYPE     43     39
D28V4, multiclass
         clus
vv        16P GAIN MUTATED 16P GAIN WILD-TYPE
  CLUS_1                 8                 77
  CLUS_10                7                 50
  CLUS_2                10                 48
  CLUS_3                10                 72
  CLUS_4                 1                 33
  CLUS_5                 5                 70
  CLUS_6                 4                 30
  CLUS_7                 1                 35
  CLUS_8                 9                 43
  CLUS_9                 3                 39
[1] 10  2
[1] TRUE
[1] "dimension of contingency table 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       32     12     15
  16P GAIN WILD-TYPE    210    118    192
D28V5, multiclass
        clus
vv       16P GAIN MUTATED 16P GAIN WILD-TYPE
  CLUS_1               32                210
  CLUS_2               12                118
  CLUS_3               15                192
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger 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       10     13     14     21
  16P GAIN WILD-TYPE    103     85    173    149
D28V6, multiclass
        clus
vv       16P GAIN MUTATED 16P GAIN WILD-TYPE
  CLUS_1               10                103
  CLUS_2               13                 85
  CLUS_3               14                173
  CLUS_4               21                149
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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       13     22      9
  16P GAIN WILD-TYPE    133    167     67
D28V7, multiclass
        clus
vv       16P GAIN MUTATED 16P GAIN WILD-TYPE
  CLUS_1               13                133
  CLUS_2               22                167
  CLUS_3                9                 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
  16P GAIN MUTATED       11      3      9     21
  16P GAIN WILD-TYPE    132     51     51    133
D28V8, multiclass
        clus
vv       16P GAIN MUTATED 16P GAIN WILD-TYPE
  CLUS_1               11                132
  CLUS_2                3                 51
  CLUS_3                9                 51
  CLUS_4               21                133
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  16P GAIN MUTATED        5     14      7
  16P GAIN WILD-TYPE     74     95    105
D28V9, multiclass
        clus
vv       16P GAIN MUTATED 16P GAIN WILD-TYPE
  CLUS_1                5                 74
  CLUS_2               14                 95
  CLUS_3                7                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
  16P GAIN MUTATED       14      5      7
  16P GAIN WILD-TYPE    132     54     88
D28V10, multiclass
        clus
vv       16P GAIN MUTATED 16P GAIN WILD-TYPE
  CLUS_1               14                132
  CLUS_2                5                 54
  CLUS_3                7                 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 CLUS_4
  16P GAIN MUTATED        6      7     19     12
  16P GAIN WILD-TYPE     65    128    122     88
D28V11, multiclass
        clus
vv       16P GAIN MUTATED 16P GAIN WILD-TYPE
  CLUS_1                6                 65
  CLUS_2                7                128
  CLUS_3               19                122
  CLUS_4               12                 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
  16P GAIN MUTATED        4     10     17     13
  16P GAIN WILD-TYPE    101     61    148     93
D28V12, multiclass
        clus
vv       16P GAIN MUTATED 16P GAIN WILD-TYPE
  CLUS_1                4                101
  CLUS_2               10                 61
  CLUS_3               17                148
  CLUS_4               13                 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
  16P GAIN MUTATED        1      0      0      1
  16P GAIN WILD-TYPE      5      6      5      4
D28V13, multiclass
[1] "Remove cluster labels:" "16P GAIN MUTATED"      
clus
  16P GAIN MUTATED 16P GAIN WILD-TYPE 
                 2                 20 
        TCGA-04-1652         TCGA-09-2050         TCGA-09-2054 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-13-0908         TCGA-23-2077         TCGA-24-1928 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-24-2036         TCGA-24-2288         TCGA-24-2289 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-24-2290         TCGA-24-2297         TCGA-25-2392 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-25-2399         TCGA-25-2400         TCGA-25-2404 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-57-1994         TCGA-59-2363         TCGA-61-2088 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-61-2098         TCGA-61-2109 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  16P GAIN MUTATED        1      0      0      0      1      0
  16P GAIN WILD-TYPE      4      2      2      4      4      4
D28V14, multiclass
[1] "Remove cluster labels:" "16P GAIN MUTATED"      
clus
  16P GAIN MUTATED 16P GAIN WILD-TYPE 
                 2                 20 
        TCGA-04-1652         TCGA-09-2050         TCGA-09-2054 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-13-0908         TCGA-23-2077         TCGA-24-1928 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-24-2036         TCGA-24-2288         TCGA-24-2289 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-24-2290         TCGA-24-2297         TCGA-25-2392 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-25-2399         TCGA-25-2400         TCGA-25-2404 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-57-1994         TCGA-59-2363         TCGA-61-2088 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 
        TCGA-61-2098         TCGA-61-2109 
"16P GAIN WILD-TYPE" "16P GAIN WILD-TYPE" 

Clustering(29) Variable = 16Q GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  16Q GAIN MUTATED       10      1     12      8
  16Q GAIN WILD-TYPE    166    111    106    143
D29V1, multiclass
        clus
vv       16Q GAIN MUTATED 16Q GAIN WILD-TYPE
  CLUS_1               10                166
  CLUS_2                1                111
  CLUS_3               12                106
  CLUS_4                8                143
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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       20      3      8
  16Q GAIN WILD-TYPE    290    155     81
D29V2, multiclass
        clus
vv       16Q GAIN MUTATED 16Q GAIN WILD-TYPE
  CLUS_1               20                290
  CLUS_2                3                155
  CLUS_3                8                 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
  16Q GAIN MUTATED        7      9     15
  16Q GAIN WILD-TYPE    174    122    228
D29V3, multiclass
        clus
vv       16Q GAIN MUTATED 16Q GAIN WILD-TYPE
  CLUS_1                7                174
  CLUS_2                9                122
  CLUS_3               15                228
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_10 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  16Q GAIN MUTATED        5       5      8      2      0      2      3      1
  16Q GAIN WILD-TYPE     80      52     50     80     34     73     31     35
                    vv
clus                 CLUS_8 CLUS_9
  16Q GAIN MUTATED        3      2
  16Q GAIN WILD-TYPE     49     40
D29V4, multiclass
         clus
vv        16Q GAIN MUTATED 16Q GAIN WILD-TYPE
  CLUS_1                 5                 80
  CLUS_10                5                 52
  CLUS_2                 8                 50
  CLUS_3                 2                 80
  CLUS_4                 0                 34
  CLUS_5                 2                 73
  CLUS_6                 3                 31
  CLUS_7                 1                 35
  CLUS_8                 3                 49
  CLUS_9                 2                 40
[1] 10  2
[1] TRUE
[1] "dimension of contingency table 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       16      8      8
  16Q GAIN WILD-TYPE    226    122    199
D29V5, multiclass
        clus
vv       16Q GAIN MUTATED 16Q GAIN WILD-TYPE
  CLUS_1               16                226
  CLUS_2                8                122
  CLUS_3                8                199
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger 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        2      5     12     12
  16Q GAIN WILD-TYPE    111     93    175    158
D29V6, multiclass
        clus
vv       16Q GAIN MUTATED 16Q GAIN WILD-TYPE
  CLUS_1                2                111
  CLUS_2                5                 93
  CLUS_3               12                175
  CLUS_4               12                158
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        8     12      5
  16Q GAIN WILD-TYPE    138    177     71
D29V7, multiclass
        clus
vv       16Q GAIN MUTATED 16Q GAIN WILD-TYPE
  CLUS_1                8                138
  CLUS_2               12                177
  CLUS_3                5                 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
  16Q GAIN MUTATED        6      2      2     15
  16Q GAIN WILD-TYPE    137     52     58    139
D29V8, multiclass
        clus
vv       16Q GAIN MUTATED 16Q GAIN WILD-TYPE
  CLUS_1                6                137
  CLUS_2                2                 52
  CLUS_3                2                 58
  CLUS_4               15                139
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  16Q GAIN MUTATED        3      9      2
  16Q GAIN WILD-TYPE     76    100    110
D29V9, multiclass
        clus
vv       16Q GAIN MUTATED 16Q GAIN WILD-TYPE
  CLUS_1                3                 76
  CLUS_2                9                100
  CLUS_3                2                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
  16Q GAIN MUTATED        8      4      2
  16Q GAIN WILD-TYPE    138     55     93
D29V10, multiclass
        clus
vv       16Q GAIN MUTATED 16Q GAIN WILD-TYPE
  CLUS_1                8                138
  CLUS_2                4                 55
  CLUS_3                2                 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 CLUS_4
  16Q GAIN MUTATED        1      3     13      5
  16Q GAIN WILD-TYPE     70    132    128     95
D29V11, multiclass
        clus
vv       16Q GAIN MUTATED 16Q GAIN WILD-TYPE
  CLUS_1                1                 70
  CLUS_2                3                132
  CLUS_3               13                128
  CLUS_4                5                 95
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger 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        2      7      5      8
  16Q GAIN WILD-TYPE    103     64    160     98
D29V12, multiclass
        clus
vv       16Q GAIN MUTATED 16Q GAIN WILD-TYPE
  CLUS_1                2                103
  CLUS_2                7                 64
  CLUS_3                5                160
  CLUS_4                8                 98
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  16Q GAIN MUTATED        1      0      0      0
  16Q GAIN WILD-TYPE      5      6      5      5
D29V13, multiclass
[1] "Remove cluster labels:" "16Q GAIN MUTATED"      
clus
  16Q GAIN MUTATED 16Q GAIN WILD-TYPE 
                 1                 21 
        TCGA-04-1652         TCGA-09-2050         TCGA-09-2054 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-13-0908         TCGA-23-2077         TCGA-24-1928 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-24-2036         TCGA-24-2288         TCGA-24-2289 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-24-2290         TCGA-24-2297         TCGA-25-2392 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-25-2399         TCGA-25-2400         TCGA-25-2404 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-57-1994         TCGA-59-2363         TCGA-61-2088 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-61-2098         TCGA-61-2109         TCGA-61-2111 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  16Q GAIN MUTATED        1      0      0      0      0      0
  16Q GAIN WILD-TYPE      4      2      2      4      5      4
D29V14, multiclass
[1] "Remove cluster labels:" "16Q GAIN MUTATED"      
clus
  16Q GAIN MUTATED 16Q GAIN WILD-TYPE 
                 1                 21 
        TCGA-04-1652         TCGA-09-2050         TCGA-09-2054 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-13-0908         TCGA-23-2077         TCGA-24-1928 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-24-2036         TCGA-24-2288         TCGA-24-2289 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-24-2290         TCGA-24-2297         TCGA-25-2392 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-25-2399         TCGA-25-2400         TCGA-25-2404 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-57-1994         TCGA-59-2363         TCGA-61-2088 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 
        TCGA-61-2098         TCGA-61-2109         TCGA-61-2111 
"16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" "16Q GAIN WILD-TYPE" 

Clustering(30) Variable = 17P GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  17P GAIN MUTATED       10      3      1      6
  17P GAIN WILD-TYPE    166    109    117    145
D30V1, multiclass
        clus
vv       17P GAIN MUTATED 17P GAIN WILD-TYPE
  CLUS_1               10                166
  CLUS_2                3                109
  CLUS_3                1                117
  CLUS_4                6                145
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        9      4      7
  17P GAIN WILD-TYPE    301    154     82
D30V2, multiclass
        clus
vv       17P GAIN MUTATED 17P GAIN WILD-TYPE
  CLUS_1                9                301
  CLUS_2                4                154
  CLUS_3                7                 82
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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      8     10
  17P GAIN WILD-TYPE    179    123    233
D30V3, multiclass
        clus
vv       17P GAIN MUTATED 17P GAIN WILD-TYPE
  CLUS_1                2                179
  CLUS_2                8                123
  CLUS_3               10                233
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_10 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  17P GAIN MUTATED        1       1      1      2      0      2      1      2
  17P GAIN WILD-TYPE     84      56     57     80     34     73     33     34
                    vv
clus                 CLUS_8 CLUS_9
  17P GAIN MUTATED        7      3
  17P GAIN WILD-TYPE     45     39
D30V4, multiclass
         clus
vv        17P GAIN MUTATED 17P GAIN WILD-TYPE
  CLUS_1                 1                 84
  CLUS_10                1                 56
  CLUS_2                 1                 57
  CLUS_3                 2                 80
  CLUS_4                 0                 34
  CLUS_5                 2                 73
  CLUS_6                 1                 33
  CLUS_7                 2                 34
  CLUS_8                 7                 45
  CLUS_9                 3                 39
[1] 10  2
[1] TRUE
[1] "dimension of contingency table 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       13      2      6
  17P GAIN WILD-TYPE    229    128    201
D30V5, multiclass
        clus
vv       17P GAIN MUTATED 17P GAIN WILD-TYPE
  CLUS_1               13                229
  CLUS_2                2                128
  CLUS_3                6                201
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger 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        4      6      4      7
  17P GAIN WILD-TYPE    109     92    183    163
D30V6, multiclass
        clus
vv       17P GAIN MUTATED 17P GAIN WILD-TYPE
  CLUS_1                4                109
  CLUS_2                6                 92
  CLUS_3                4                183
  CLUS_4                7                163
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        6      9      0
  17P GAIN WILD-TYPE    140    180     76
D30V7, multiclass
        clus
vv       17P GAIN MUTATED 17P GAIN WILD-TYPE
  CLUS_1                6                140
  CLUS_2                9                180
  CLUS_3                0                 76
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger 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        5      1      4      5
  17P GAIN WILD-TYPE    138     53     56    149
D30V8, multiclass
        clus
vv       17P GAIN MUTATED 17P GAIN WILD-TYPE
  CLUS_1                5                138
  CLUS_2                1                 53
  CLUS_3                4                 56
  CLUS_4                5                149
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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      7      5
  17P GAIN WILD-TYPE     77    102    107
D30V9, multiclass
        clus
vv       17P GAIN MUTATED 17P GAIN WILD-TYPE
  CLUS_1                2                 77
  CLUS_2                7                102
  CLUS_3                5                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
  17P GAIN MUTATED        5      6      3
  17P GAIN WILD-TYPE    141     53     92
D30V10, multiclass
        clus
vv       17P GAIN MUTATED 17P GAIN WILD-TYPE
  CLUS_1                5                141
  CLUS_2                6                 53
  CLUS_3                3                 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
  17P GAIN MUTATED        0      4      5      5
  17P GAIN WILD-TYPE     71    131    136     95
D30V11, multiclass
        clus
vv       17P GAIN MUTATED 17P GAIN WILD-TYPE
  CLUS_1                0                 71
  CLUS_2                4                131
  CLUS_3                5                136
  CLUS_4                5                 95
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger 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        2      3      5      4
  17P GAIN WILD-TYPE    103     68    160    102
D30V12, multiclass
        clus
vv       17P GAIN MUTATED 17P GAIN WILD-TYPE
  CLUS_1                2                103
  CLUS_2                3                 68
  CLUS_3                5                160
  CLUS_4                4                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
  17P GAIN MUTATED        0      0      0      0
  17P GAIN WILD-TYPE      6      6      5      5
D30V13, multiclass
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  17P GAIN MUTATED        0      0      0      0      0      0
  17P GAIN WILD-TYPE      5      2      2      4      5      4
D30V14, multiclass

Clustering(31) Variable = 17Q GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  17Q GAIN MUTATED       15     13      2     10
  17Q GAIN WILD-TYPE    161     99    116    141
D31V1, multiclass
        clus
vv       17Q GAIN MUTATED 17Q GAIN WILD-TYPE
  CLUS_1               15                161
  CLUS_2               13                 99
  CLUS_3                2                116
  CLUS_4               10                141
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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       13     16     11
  17Q GAIN WILD-TYPE    297    142     78
D31V2, multiclass
        clus
vv       17Q GAIN MUTATED 17Q GAIN WILD-TYPE
  CLUS_1               13                297
  CLUS_2               16                142
  CLUS_3               11                 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
  17Q GAIN MUTATED       10     14     16
  17Q GAIN WILD-TYPE    171    117    227
D31V3, multiclass
        clus
vv       17Q GAIN MUTATED 17Q GAIN WILD-TYPE
  CLUS_1               10                171
  CLUS_2               14                117
  CLUS_3               16                227
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_10 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  17Q GAIN MUTATED        7       4      4      3      1      3      0      3
  17Q GAIN WILD-TYPE     78      53     54     79     33     72     34     33
                    vv
clus                 CLUS_8 CLUS_9
  17Q GAIN MUTATED        9      6
  17Q GAIN WILD-TYPE     43     36
D31V4, multiclass
         clus
vv        17Q GAIN MUTATED 17Q GAIN WILD-TYPE
  CLUS_1                 7                 78
  CLUS_10                4                 53
  CLUS_2                 4                 54
  CLUS_3                 3                 79
  CLUS_4                 1                 33
  CLUS_5                 3                 72
  CLUS_6                 0                 34
  CLUS_7                 3                 33
  CLUS_8                 9                 43
  CLUS_9                 6                 36
[1] 10  2
[1] TRUE
[1] "dimension of contingency table 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       18      7     16
  17Q GAIN WILD-TYPE    224    123    191
D31V5, multiclass
        clus
vv       17Q GAIN MUTATED 17Q GAIN WILD-TYPE
  CLUS_1               18                224
  CLUS_2                7                123
  CLUS_3               16                191
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  17Q GAIN MUTATED        9      9      8     15
  17Q GAIN WILD-TYPE    104     89    179    155
D31V6, multiclass
        clus
vv       17Q GAIN MUTATED 17Q GAIN WILD-TYPE
  CLUS_1                9                104
  CLUS_2                9                 89
  CLUS_3                8                179
  CLUS_4               15                155
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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     15      3
  17Q GAIN WILD-TYPE    134    174     73
D31V7, multiclass
        clus
vv       17Q GAIN MUTATED 17Q GAIN WILD-TYPE
  CLUS_1               12                134
  CLUS_2               15                174
  CLUS_3                3                 73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger 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       13      3      5      9
  17Q GAIN WILD-TYPE    130     51     55    145
D31V8, multiclass
        clus
vv       17Q GAIN MUTATED 17Q GAIN WILD-TYPE
  CLUS_1               13                130
  CLUS_2                3                 51
  CLUS_3                5                 55
  CLUS_4                9                145
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  17Q GAIN MUTATED        6      8     10
  17Q GAIN WILD-TYPE     73    101    102
D31V9, multiclass
        clus
vv       17Q GAIN MUTATED 17Q GAIN WILD-TYPE
  CLUS_1                6                 73
  CLUS_2                8                101
  CLUS_3               10                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
  17Q GAIN MUTATED        8      8      8
  17Q GAIN WILD-TYPE    138     51     87
D31V10, multiclass
        clus
vv       17Q GAIN MUTATED 17Q GAIN WILD-TYPE
  CLUS_1                8                138
  CLUS_2                8                 51
  CLUS_3                8                 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
  17Q GAIN MUTATED        7      9     11      6
  17Q GAIN WILD-TYPE     64    126    130     94
D31V11, multiclass
        clus
vv       17Q GAIN MUTATED 17Q GAIN WILD-TYPE
  CLUS_1                7                 64
  CLUS_2                9                126
  CLUS_3               11                130
  CLUS_4                6                 94
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  17Q GAIN MUTATED        9      5     11      8
  17Q GAIN WILD-TYPE     96     66    154     98
D31V12, multiclass
        clus
vv       17Q GAIN MUTATED 17Q GAIN WILD-TYPE
  CLUS_1                9                 96
  CLUS_2                5                 66
  CLUS_3               11                154
  CLUS_4                8                 98
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  17Q GAIN MUTATED        0      1      0      1
  17Q GAIN WILD-TYPE      6      5      5      4
D31V13, multiclass
[1] "Remove cluster labels:" "17Q GAIN MUTATED"      
clus
  17Q GAIN MUTATED 17Q GAIN WILD-TYPE 
                 2                 20 
        TCGA-04-1652         TCGA-09-2050         TCGA-09-2054 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-13-0908         TCGA-23-2077         TCGA-24-1928 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-24-2036         TCGA-24-2288         TCGA-24-2289 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-24-2290         TCGA-24-2297         TCGA-25-2399 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-25-2400         TCGA-25-2404         TCGA-57-1994 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-59-2363         TCGA-61-1918         TCGA-61-2088 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-61-2109         TCGA-61-2111 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  17Q GAIN MUTATED        0      0      0      1      0      1
  17Q GAIN WILD-TYPE      5      2      2      3      5      3
D31V14, multiclass
[1] "Remove cluster labels:" "17Q GAIN MUTATED"      
clus
  17Q GAIN MUTATED 17Q GAIN WILD-TYPE 
                 2                 20 
        TCGA-04-1652         TCGA-09-2050         TCGA-09-2054 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-13-0908         TCGA-23-2077         TCGA-24-1928 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-24-2036         TCGA-24-2288         TCGA-24-2289 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-24-2290         TCGA-24-2297         TCGA-25-2399 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-25-2400         TCGA-25-2404         TCGA-57-1994 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-59-2363         TCGA-61-1918         TCGA-61-2088 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 
        TCGA-61-2109         TCGA-61-2111 
"17Q GAIN WILD-TYPE" "17Q GAIN WILD-TYPE" 

Clustering(32) Variable = 18P GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  18P GAIN MUTATED       47     19     19     30
  18P GAIN WILD-TYPE    129     93     99    121
D32V1, multiclass
        clus
vv       18P GAIN MUTATED 18P GAIN WILD-TYPE
  CLUS_1               47                129
  CLUS_2               19                 93
  CLUS_3               19                 99
  CLUS_4               30                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
  18P GAIN MUTATED       66     25     24
  18P GAIN WILD-TYPE    244    133     65
D32V2, multiclass
        clus
vv       18P GAIN MUTATED 18P GAIN WILD-TYPE
  CLUS_1               66                244
  CLUS_2               25                133
  CLUS_3               24                 65
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       36     24     54
  18P GAIN WILD-TYPE    145    107    189
D32V3, multiclass
        clus
vv       18P GAIN MUTATED 18P GAIN WILD-TYPE
  CLUS_1               36                145
  CLUS_2               24                107
  CLUS_3               54                189
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_10 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  18P GAIN MUTATED       13      15     12     19      6     12     10     10
  18P GAIN WILD-TYPE     72      42     46     63     28     63     24     26
                    vv
clus                 CLUS_8 CLUS_9
  18P GAIN MUTATED       11      6
  18P GAIN WILD-TYPE     41     36
D32V4, multiclass
         clus
vv        18P GAIN MUTATED 18P GAIN WILD-TYPE
  CLUS_1                13                 72
  CLUS_10               15                 42
  CLUS_2                12                 46
  CLUS_3                19                 63
  CLUS_4                 6                 28
  CLUS_5                12                 63
  CLUS_6                10                 24
  CLUS_7                10                 26
  CLUS_8                11                 41
  CLUS_9                 6                 36
[1] 10  2
[1] TRUE
[1] "dimension of contingency table 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       67     17     35
  18P GAIN WILD-TYPE    175    113    172
D32V5, multiclass
        clus
vv       18P GAIN MUTATED 18P GAIN WILD-TYPE
  CLUS_1               67                175
  CLUS_2               17                113
  CLUS_3               35                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 CLUS_4
  18P GAIN MUTATED       32     20     16     49
  18P GAIN WILD-TYPE     81     78    171    121
D32V6, multiclass
        clus
vv       18P GAIN MUTATED 18P GAIN WILD-TYPE
  CLUS_1               32                 81
  CLUS_2               20                 78
  CLUS_3               16                171
  CLUS_4               49                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
  18P GAIN MUTATED       26     46      9
  18P GAIN WILD-TYPE    120    143     67
D32V7, multiclass
        clus
vv       18P GAIN MUTATED 18P GAIN WILD-TYPE
  CLUS_1               26                120
  CLUS_2               46                143
  CLUS_3                9                 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
  18P GAIN MUTATED       26     10     13     32
  18P GAIN WILD-TYPE    117     44     47    122
D32V8, multiclass
        clus
vv       18P GAIN MUTATED 18P GAIN WILD-TYPE
  CLUS_1               26                117
  CLUS_2               10                 44
  CLUS_3               13                 47
  CLUS_4               32                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
  18P GAIN MUTATED        8     27     21
  18P GAIN WILD-TYPE     71     82     91
D32V9, multiclass
        clus
vv       18P GAIN MUTATED 18P GAIN WILD-TYPE
  CLUS_1                8                 71
  CLUS_2               27                 82
  CLUS_3               21                 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
  18P GAIN MUTATED       27     13     16
  18P GAIN WILD-TYPE    119     46     79
D32V10, multiclass
        clus
vv       18P GAIN MUTATED 18P GAIN WILD-TYPE
  CLUS_1               27                119
  CLUS_2               13                 46
  CLUS_3               16                 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 CLUS_4
  18P GAIN MUTATED       15     29     24     23
  18P GAIN WILD-TYPE     56    106    117     77
D32V11, multiclass
        clus
vv       18P GAIN MUTATED 18P GAIN WILD-TYPE
  CLUS_1               15                 56
  CLUS_2               29                106
  CLUS_3               24                117
  CLUS_4               23                 77
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger 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       15     17     40     19
  18P GAIN WILD-TYPE     90     54    125     87
D32V12, multiclass
        clus
vv       18P GAIN MUTATED 18P GAIN WILD-TYPE
  CLUS_1               15                 90
  CLUS_2               17                 54
  CLUS_3               40                125
  CLUS_4               19                 87
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger 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      2      1      2
  18P GAIN WILD-TYPE      4      4      4      3
D32V13, multiclass
        clus
vv       18P GAIN MUTATED 18P GAIN WILD-TYPE
  CLUS_1                2                  4
  CLUS_2                2                  4
  CLUS_3                1                  4
  CLUS_4                2                  3
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  18P GAIN MUTATED        2      1      0      1      2      1
  18P GAIN WILD-TYPE      3      1      2      3      3      3
D32V14, multiclass
        clus
vv       18P GAIN MUTATED 18P GAIN WILD-TYPE
  CLUS_1                2                  3
  CLUS_2                1                  1
  CLUS_3                0                  2
  CLUS_4                1                  3
  CLUS_5                2                  3
  CLUS_6                1                  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"

Clustering(33) Variable = 18Q GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  18Q GAIN MUTATED       21     11     13     21
  18Q GAIN WILD-TYPE    155    101    105    130
D33V1, multiclass
        clus
vv       18Q GAIN MUTATED 18Q GAIN WILD-TYPE
  CLUS_1               21                155
  CLUS_2               11                101
  CLUS_3               13                105
  CLUS_4               21                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
  18Q GAIN MUTATED       37     15     14
  18Q GAIN WILD-TYPE    273    143     75
D33V2, multiclass
        clus
vv       18Q GAIN MUTATED 18Q GAIN WILD-TYPE
  CLUS_1               37                273
  CLUS_2               15                143
  CLUS_3               14                 75
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       15     17     33
  18Q GAIN WILD-TYPE    166    114    210
D33V3, multiclass
        clus
vv       18Q GAIN MUTATED 18Q GAIN WILD-TYPE
  CLUS_1               15                166
  CLUS_2               17                114
  CLUS_3               33                210
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_10 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  18Q GAIN MUTATED        5       9      6     10      5      8      5      8
  18Q GAIN WILD-TYPE     80      48     52     72     29     67     29     28
                    vv
clus                 CLUS_8 CLUS_9
  18Q GAIN MUTATED        5      4
  18Q GAIN WILD-TYPE     47     38
D33V4, multiclass
         clus
vv        18Q GAIN MUTATED 18Q GAIN WILD-TYPE
  CLUS_1                 5                 80
  CLUS_10                9                 48
  CLUS_2                 6                 52
  CLUS_3                10                 72
  CLUS_4                 5                 29
  CLUS_5                 8                 67
  CLUS_6                 5                 29
  CLUS_7                 8                 28
  CLUS_8                 5                 47
  CLUS_9                 4                 38
[1] 10  2
[1] TRUE
[1] "dimension of contingency table 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       39      9     19
  18Q GAIN WILD-TYPE    203    121    188
D33V5, multiclass
        clus
vv       18Q GAIN MUTATED 18Q GAIN WILD-TYPE
  CLUS_1               39                203
  CLUS_2                9                121
  CLUS_3               19                188
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger 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       15     13     11     28
  18Q GAIN WILD-TYPE     98     85    176    142
D33V6, multiclass
        clus
vv       18Q GAIN MUTATED 18Q GAIN WILD-TYPE
  CLUS_1               15                 98
  CLUS_2               13                 85
  CLUS_3               11                176
  CLUS_4               28                142
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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       16     20      8
  18Q GAIN WILD-TYPE    130    169     68
D33V7, multiclass
        clus
vv       18Q GAIN MUTATED 18Q GAIN WILD-TYPE
  CLUS_1               16                130
  CLUS_2               20                169
  CLUS_3                8                 68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger 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       16      4      8     16
  18Q GAIN WILD-TYPE    127     50     52    138
D33V8, multiclass
        clus
vv       18Q GAIN MUTATED 18Q GAIN WILD-TYPE
  CLUS_1               16                127
  CLUS_2                4                 50
  CLUS_3                8                 52
  CLUS_4               16                138
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        6     14     14
  18Q GAIN WILD-TYPE     73     95     98
D33V9, multiclass
        clus
vv       18Q GAIN MUTATED 18Q GAIN WILD-TYPE
  CLUS_1                6                 73
  CLUS_2               14                 95
  CLUS_3               14                 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
  18Q GAIN MUTATED       18      5     11
  18Q GAIN WILD-TYPE    128     54     84
D33V10, multiclass
        clus
vv       18Q GAIN MUTATED 18Q GAIN WILD-TYPE
  CLUS_1               18                128
  CLUS_2                5                 54
  CLUS_3               11                 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 CLUS_4
  18Q GAIN MUTATED        6     19     11     16
  18Q GAIN WILD-TYPE     65    116    130     84
D33V11, multiclass
        clus
vv       18Q GAIN MUTATED 18Q GAIN WILD-TYPE
  CLUS_1                6                 65
  CLUS_2               19                116
  CLUS_3               11                130
  CLUS_4               16                 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
  18Q GAIN MUTATED        8     10     26      8
  18Q GAIN WILD-TYPE     97     61    139     98
D33V12, multiclass
        clus
vv       18Q GAIN MUTATED 18Q GAIN WILD-TYPE
  CLUS_1                8                 97
  CLUS_2               10                 61
  CLUS_3               26                139
  CLUS_4                8                 98
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  18Q GAIN MUTATED        1      1      0      1
  18Q GAIN WILD-TYPE      5      5      5      4
D33V13, multiclass
        clus
vv       18Q GAIN MUTATED 18Q GAIN WILD-TYPE
  CLUS_1                1                  5
  CLUS_2                1                  5
  CLUS_3                0                  5
  CLUS_4                1                  4
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  18Q GAIN MUTATED        1      0      0      1      1      0
  18Q GAIN WILD-TYPE      4      2      2      3      4      4
D33V14, multiclass
        clus
vv       18Q GAIN MUTATED 18Q GAIN WILD-TYPE
  CLUS_1                1                  4
  CLUS_2                0                  2
  CLUS_3                0                  2
  CLUS_4                1                  3
  CLUS_5                1                  4
  CLUS_6                0                  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"

Clustering(34) Variable = 19P GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  19P GAIN MUTATED       58     27     36     42
  19P GAIN WILD-TYPE    118     85     82    109
D34V1, multiclass
        clus
vv       19P GAIN MUTATED 19P GAIN WILD-TYPE
  CLUS_1               58                118
  CLUS_2               27                 85
  CLUS_3               36                 82
  CLUS_4               42                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
  19P GAIN MUTATED       97     41     25
  19P GAIN WILD-TYPE    213    117     64
D34V2, multiclass
        clus
vv       19P GAIN MUTATED 19P GAIN WILD-TYPE
  CLUS_1               97                213
  CLUS_2               41                117
  CLUS_3               25                 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
  19P GAIN MUTATED       54     34     74
  19P GAIN WILD-TYPE    127     97    169
D34V3, multiclass
        clus
vv       19P GAIN MUTATED 19P GAIN WILD-TYPE
  CLUS_1               54                127
  CLUS_2               34                 97
  CLUS_3               74                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_10 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  19P GAIN MUTATED       24      17     16     23     10     23      7     10
  19P GAIN WILD-TYPE     61      40     42     59     24     52     27     26
                    vv
clus                 CLUS_8 CLUS_9
  19P GAIN MUTATED       24      8
  19P GAIN WILD-TYPE     28     34
D34V4, multiclass
         clus
vv        19P GAIN MUTATED 19P GAIN WILD-TYPE
  CLUS_1                24                 61
  CLUS_10               17                 40
  CLUS_2                16                 42
  CLUS_3                23                 59
  CLUS_4                10                 24
  CLUS_5                23                 52
  CLUS_6                 7                 27
  CLUS_7                10                 26
  CLUS_8                24                 28
  CLUS_9                 8                 34
[1] 10  2
[1] TRUE
[1] "dimension of contingency table 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       97     21     52
  19P GAIN WILD-TYPE    145    109    155
D34V5, multiclass
        clus
vv       19P GAIN MUTATED 19P GAIN WILD-TYPE
  CLUS_1               97                145
  CLUS_2               21                109
  CLUS_3               52                155
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger 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       35     28     39     64
  19P GAIN WILD-TYPE     78     70    148    106
D34V6, multiclass
        clus
vv       19P GAIN MUTATED 19P GAIN WILD-TYPE
  CLUS_1               35                 78
  CLUS_2               28                 70
  CLUS_3               39                148
  CLUS_4               64                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
  19P GAIN MUTATED       41     61     19
  19P GAIN WILD-TYPE    105    128     57
D34V7, multiclass
        clus
vv       19P GAIN MUTATED 19P GAIN WILD-TYPE
  CLUS_1               41                105
  CLUS_2               61                128
  CLUS_3               19                 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 CLUS_4
  19P GAIN MUTATED       39     16     16     50
  19P GAIN WILD-TYPE    104     38     44    104
D34V8, multiclass
        clus
vv       19P GAIN MUTATED 19P GAIN WILD-TYPE
  CLUS_1               39                104
  CLUS_2               16                 38
  CLUS_3               16                 44
  CLUS_4               50                104
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  19P GAIN MUTATED       16     29     34
  19P GAIN WILD-TYPE     63     80     78
D34V9, multiclass
        clus
vv       19P GAIN MUTATED 19P GAIN WILD-TYPE
  CLUS_1               16                 63
  CLUS_2               29                 80
  CLUS_3               34                 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
  19P GAIN MUTATED       31     18     30
  19P GAIN WILD-TYPE    115     41     65
D34V10, multiclass
        clus
vv       19P GAIN MUTATED 19P GAIN WILD-TYPE
  CLUS_1               31                115
  CLUS_2               18                 41
  CLUS_3               30                 65
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger 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       20     42     35     29
  19P GAIN WILD-TYPE     51     93    106     71
D34V11, multiclass
        clus
vv       19P GAIN MUTATED 19P GAIN WILD-TYPE
  CLUS_1               20                 51
  CLUS_2               42                 93
  CLUS_3               35                106
  CLUS_4               29                 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
  19P GAIN MUTATED       33     14     49     30
  19P GAIN WILD-TYPE     72     57    116     76
D34V12, multiclass
        clus
vv       19P GAIN MUTATED 19P GAIN WILD-TYPE
  CLUS_1               33                 72
  CLUS_2               14                 57
  CLUS_3               49                116
  CLUS_4               30                 76
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  19P GAIN MUTATED        2      2      1      1
  19P GAIN WILD-TYPE      4      4      4      4
D34V13, multiclass
        clus
vv       19P GAIN MUTATED 19P GAIN WILD-TYPE
  CLUS_1                2                  4
  CLUS_2                2                  4
  CLUS_3                1                  4
  CLUS_4                1                  4
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  19P GAIN MUTATED        2      1      0      1      2      0
  19P GAIN WILD-TYPE      3      1      2      3      3      4
D34V14, multiclass
        clus
vv       19P GAIN MUTATED 19P GAIN WILD-TYPE
  CLUS_1                2                  3
  CLUS_2                1                  1
  CLUS_3                0                  2
  CLUS_4                1                  3
  CLUS_5                2                  3
  CLUS_6                0                  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"

Clustering(35) Variable = 19Q GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  19Q GAIN MUTATED       57     30     28     43
  19Q GAIN WILD-TYPE    119     82     90    108
D35V1, multiclass
        clus
vv       19Q GAIN MUTATED 19Q GAIN WILD-TYPE
  CLUS_1               57                119
  CLUS_2               30                 82
  CLUS_3               28                 90
  CLUS_4               43                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
  19Q GAIN MUTATED       87     43     28
  19Q GAIN WILD-TYPE    223    115     61
D35V2, multiclass
        clus
vv       19Q GAIN MUTATED 19Q GAIN WILD-TYPE
  CLUS_1               87                223
  CLUS_2               43                115
  CLUS_3               28                 61
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       50     36     70
  19Q GAIN WILD-TYPE    131     95    173
D35V3, multiclass
        clus
vv       19Q GAIN MUTATED 19Q GAIN WILD-TYPE
  CLUS_1               50                131
  CLUS_2               36                 95
  CLUS_3               70                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_10 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  19Q GAIN MUTATED       23      15     17     19      9     22      8     10
  19Q GAIN WILD-TYPE     62      42     41     63     25     53     26     26
                    vv
clus                 CLUS_8 CLUS_9
  19Q GAIN MUTATED       25      8
  19Q GAIN WILD-TYPE     27     34
D35V4, multiclass
         clus
vv        19Q GAIN MUTATED 19Q GAIN WILD-TYPE
  CLUS_1                23                 62
  CLUS_10               15                 42
  CLUS_2                17                 41
  CLUS_3                19                 63
  CLUS_4                 9                 25
  CLUS_5                22                 53
  CLUS_6                 8                 26
  CLUS_7                10                 26
  CLUS_8                25                 27
  CLUS_9                 8                 34
[1] 10  2
[1] TRUE
[1] "dimension of contingency table 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       97     20     46
  19Q GAIN WILD-TYPE    145    110    161
D35V5, multiclass
        clus
vv       19Q GAIN MUTATED 19Q GAIN WILD-TYPE
  CLUS_1               97                145
  CLUS_2               20                110
  CLUS_3               46                161
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger 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       39     31     34     56
  19Q GAIN WILD-TYPE     74     67    153    114
D35V6, multiclass
        clus
vv       19Q GAIN MUTATED 19Q GAIN WILD-TYPE
  CLUS_1               39                 74
  CLUS_2               31                 67
  CLUS_3               34                153
  CLUS_4               56                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
  19Q GAIN MUTATED       43     57     19
  19Q GAIN WILD-TYPE    103    132     57
D35V7, multiclass
        clus
vv       19Q GAIN MUTATED 19Q GAIN WILD-TYPE
  CLUS_1               43                103
  CLUS_2               57                132
  CLUS_3               19                 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 CLUS_4
  19Q GAIN MUTATED       35     17     19     48
  19Q GAIN WILD-TYPE    108     37     41    106
D35V8, multiclass
        clus
vv       19Q GAIN MUTATED 19Q GAIN WILD-TYPE
  CLUS_1               35                108
  CLUS_2               17                 37
  CLUS_3               19                 41
  CLUS_4               48                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
  19Q GAIN MUTATED       14     28     35
  19Q GAIN WILD-TYPE     65     81     77
D35V9, multiclass
        clus
vv       19Q GAIN MUTATED 19Q GAIN WILD-TYPE
  CLUS_1               14                 65
  CLUS_2               28                 81
  CLUS_3               35                 77
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       30     19     28
  19Q GAIN WILD-TYPE    116     40     67
D35V10, multiclass
        clus
vv       19Q GAIN MUTATED 19Q GAIN WILD-TYPE
  CLUS_1               30                116
  CLUS_2               19                 40
  CLUS_3               28                 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
  19Q GAIN MUTATED       20     42     36     26
  19Q GAIN WILD-TYPE     51     93    105     74
D35V11, multiclass
        clus
vv       19Q GAIN MUTATED 19Q GAIN WILD-TYPE
  CLUS_1               20                 51
  CLUS_2               42                 93
  CLUS_3               36                105
  CLUS_4               26                 74
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger 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       28     16     51     29
  19Q GAIN WILD-TYPE     77     55    114     77
D35V12, multiclass
        clus
vv       19Q GAIN MUTATED 19Q GAIN WILD-TYPE
  CLUS_1               28                 77
  CLUS_2               16                 55
  CLUS_3               51                114
  CLUS_4               29                 77
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  19Q GAIN MUTATED        2      1      0      1
  19Q GAIN WILD-TYPE      4      5      5      4
D35V13, multiclass
        clus
vv       19Q GAIN MUTATED 19Q GAIN WILD-TYPE
  CLUS_1                2                  4
  CLUS_2                1                  5
  CLUS_3                0                  5
  CLUS_4                1                  4
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  19Q GAIN MUTATED        2      0      0      1      1      0
  19Q GAIN WILD-TYPE      3      2      2      3      4      4
D35V14, multiclass
        clus
vv       19Q GAIN MUTATED 19Q GAIN WILD-TYPE
  CLUS_1                2                  3
  CLUS_2                0                  2
  CLUS_3                0                  2
  CLUS_4                1                  3
  CLUS_5                1                  4
  CLUS_6                0                  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"

Clustering(36) Variable = 20P GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  20P GAIN MUTATED      111     58     41     65
  20P GAIN WILD-TYPE     65     54     77     86
D36V1, multiclass
        clus
vv       20P GAIN MUTATED 20P GAIN WILD-TYPE
  CLUS_1              111                 65
  CLUS_2               58                 54
  CLUS_3               41                 77
  CLUS_4               65                 86
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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      145     70     60
  20P GAIN WILD-TYPE    165     88     29
D36V2, multiclass
        clus
vv       20P GAIN MUTATED 20P GAIN WILD-TYPE
  CLUS_1              145                165
  CLUS_2               70                 88
  CLUS_3               60                 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 GAIN MUTATED       82     59    133
  20P GAIN WILD-TYPE     99     72    110
D36V3, multiclass
        clus
vv       20P GAIN MUTATED 20P GAIN WILD-TYPE
  CLUS_1               82                 99
  CLUS_2               59                 72
  CLUS_3              133                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_10 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  20P GAIN MUTATED       31      27     32     36     22     41     25     15
  20P GAIN WILD-TYPE     54      30     26     46     12     34      9     21
                    vv
clus                 CLUS_8 CLUS_9
  20P GAIN MUTATED       33     12
  20P GAIN WILD-TYPE     19     30
D36V4, multiclass
         clus
vv        20P GAIN MUTATED 20P GAIN WILD-TYPE
  CLUS_1                31                 54
  CLUS_10               27                 30
  CLUS_2                32                 26
  CLUS_3                36                 46
  CLUS_4                22                 12
  CLUS_5                41                 34
  CLUS_6                25                  9
  CLUS_7                15                 21
  CLUS_8                33                 19
  CLUS_9                12                 30
[1] 10  2
[1] TRUE
[1] "dimension of contingency table 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      175     36     76
  20P GAIN WILD-TYPE     67     94    131
D36V5, multiclass
        clus
vv       20P GAIN MUTATED 20P GAIN WILD-TYPE
  CLUS_1              175                 67
  CLUS_2               36                 94
  CLUS_3               76                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 CLUS_4
  20P GAIN MUTATED       64     60     48    108
  20P GAIN WILD-TYPE     49     38    139     62
D36V6, multiclass
        clus
vv       20P GAIN MUTATED 20P GAIN WILD-TYPE
  CLUS_1               64                 49
  CLUS_2               60                 38
  CLUS_3               48                139
  CLUS_4              108                 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
  20P GAIN MUTATED       74    100     34
  20P GAIN WILD-TYPE     72     89     42
D36V7, multiclass
        clus
vv       20P GAIN MUTATED 20P GAIN WILD-TYPE
  CLUS_1               74                 72
  CLUS_2              100                 89
  CLUS_3               34                 42
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  20P GAIN MUTATED       79     24     34     71
  20P GAIN WILD-TYPE     64     30     26     83
D36V8, multiclass
        clus
vv       20P GAIN MUTATED 20P GAIN WILD-TYPE
  CLUS_1               79                 64
  CLUS_2               24                 30
  CLUS_3               34                 26
  CLUS_4               71                 83
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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       32     68     56
  20P GAIN WILD-TYPE     47     41     56
D36V9, multiclass
        clus
vv       20P GAIN MUTATED 20P GAIN WILD-TYPE
  CLUS_1               32                 47
  CLUS_2               68                 41
  CLUS_3               56                 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
  20P GAIN MUTATED       68     39     49
  20P GAIN WILD-TYPE     78     20     46
D36V10, multiclass
        clus
vv       20P GAIN MUTATED 20P GAIN WILD-TYPE
  CLUS_1               68                 78
  CLUS_2               39                 20
  CLUS_3               49                 46
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  20P GAIN MUTATED       38     65     73     52
  20P GAIN WILD-TYPE     33     70     68     48
D36V11, multiclass
        clus
vv       20P GAIN MUTATED 20P GAIN WILD-TYPE
  CLUS_1               38                 33
  CLUS_2               65                 70
  CLUS_3               73                 68
  CLUS_4               52                 48
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger 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       41     42     96     49
  20P GAIN WILD-TYPE     64     29     69     57
D36V12, multiclass
        clus
vv       20P GAIN MUTATED 20P GAIN WILD-TYPE
  CLUS_1               41                 64
  CLUS_2               42                 29
  CLUS_3               96                 69
  CLUS_4               49                 57
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  20P GAIN MUTATED        2      3      3      2
  20P GAIN WILD-TYPE      4      3      2      3
D36V13, multiclass
        clus
vv       20P GAIN MUTATED 20P GAIN WILD-TYPE
  CLUS_1                2                  4
  CLUS_2                3                  3
  CLUS_3                3                  2
  CLUS_4                2                  3
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  20P GAIN MUTATED        2      0      0      3      4      1
  20P GAIN WILD-TYPE      3      2      2      1      1      3
D36V14, multiclass
        clus
vv       20P GAIN MUTATED 20P GAIN WILD-TYPE
  CLUS_1                2                  3
  CLUS_2                0                  2
  CLUS_3                0                  2
  CLUS_4                3                  1
  CLUS_5                4                  1
  CLUS_6                1                  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"

Clustering(37) Variable = 20Q GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  20Q GAIN MUTATED      125     70     43     74
  20Q GAIN WILD-TYPE     51     42     75     77
D37V1, multiclass
        clus
vv       20Q GAIN MUTATED 20Q GAIN WILD-TYPE
  CLUS_1              125                 51
  CLUS_2               70                 42
  CLUS_3               43                 75
  CLUS_4               74                 77
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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      161     85     66
  20Q GAIN WILD-TYPE    149     73     23
D37V2, multiclass
        clus
vv       20Q GAIN MUTATED 20Q GAIN WILD-TYPE
  CLUS_1              161                149
  CLUS_2               85                 73
  CLUS_3               66                 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
  20Q GAIN MUTATED       93     72    146
  20Q GAIN WILD-TYPE     88     59     97
D37V3, multiclass
        clus
vv       20Q GAIN MUTATED 20Q GAIN WILD-TYPE
  CLUS_1               93                 88
  CLUS_2               72                 59
  CLUS_3              146                 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_10 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  20Q GAIN MUTATED       35      30     34     40     25     41     25     20
  20Q GAIN WILD-TYPE     50      27     24     42      9     34      9     16
                    vv
clus                 CLUS_8 CLUS_9
  20Q GAIN MUTATED       42     19
  20Q GAIN WILD-TYPE     10     23
D37V4, multiclass
         clus
vv        20Q GAIN MUTATED 20Q GAIN WILD-TYPE
  CLUS_1                35                 50
  CLUS_10               30                 27
  CLUS_2                34                 24
  CLUS_3                40                 42
  CLUS_4                25                  9
  CLUS_5                41                 34
  CLUS_6                25                  9
  CLUS_7                20                 16
  CLUS_8                42                 10
  CLUS_9                19                 23
[1] 10  2
[1] TRUE
[1] "dimension of contingency table 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      190     39     97
  20Q GAIN WILD-TYPE     52     91    110
D37V5, multiclass
        clus
vv       20Q GAIN MUTATED 20Q GAIN WILD-TYPE
  CLUS_1              190                 52
  CLUS_2               39                 91
  CLUS_3               97                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
  20Q GAIN MUTATED       74     67     55    122
  20Q GAIN WILD-TYPE     39     31    132     48
D37V6, multiclass
        clus
vv       20Q GAIN MUTATED 20Q GAIN WILD-TYPE
  CLUS_1               74                 39
  CLUS_2               67                 31
  CLUS_3               55                132
  CLUS_4              122                 48
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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       85    106     38
  20Q GAIN WILD-TYPE     61     83     38
D37V7, multiclass
        clus
vv       20Q GAIN MUTATED 20Q GAIN WILD-TYPE
  CLUS_1               85                 61
  CLUS_2              106                 83
  CLUS_3               38                 38
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  20Q GAIN MUTATED       88     26     39     76
  20Q GAIN WILD-TYPE     55     28     21     78
D37V8, multiclass
        clus
vv       20Q GAIN MUTATED 20Q GAIN WILD-TYPE
  CLUS_1               88                 55
  CLUS_2               26                 28
  CLUS_3               39                 21
  CLUS_4               76                 78
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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       39     72     65
  20Q GAIN WILD-TYPE     40     37     47
D37V9, multiclass
        clus
vv       20Q GAIN MUTATED 20Q GAIN WILD-TYPE
  CLUS_1               39                 40
  CLUS_2               72                 37
  CLUS_3               65                 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       75     44     57
  20Q GAIN WILD-TYPE     71     15     38
D37V10, multiclass
        clus
vv       20Q GAIN MUTATED 20Q GAIN WILD-TYPE
  CLUS_1               75                 71
  CLUS_2               44                 15
  CLUS_3               57                 38
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  20Q GAIN MUTATED       44     74     83     58
  20Q GAIN WILD-TYPE     27     61     58     42
D37V11, multiclass
        clus
vv       20Q GAIN MUTATED 20Q GAIN WILD-TYPE
  CLUS_1               44                 27
  CLUS_2               74                 61
  CLUS_3               83                 58
  CLUS_4               58                 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
  20Q GAIN MUTATED       49     47    107     56
  20Q GAIN WILD-TYPE     56     24     58     50
D37V12, multiclass
        clus
vv       20Q GAIN MUTATED 20Q GAIN WILD-TYPE
  CLUS_1               49                 56
  CLUS_2               47                 24
  CLUS_3              107                 58
  CLUS_4               56                 50
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  20Q GAIN MUTATED        4      2      3      2
  20Q GAIN WILD-TYPE      2      4      2      3
D37V13, multiclass
        clus
vv       20Q GAIN MUTATED 20Q GAIN WILD-TYPE
  CLUS_1                4                  2
  CLUS_2                2                  4
  CLUS_3                3                  2
  CLUS_4                2                  3
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  20Q GAIN MUTATED        4      0      0      2      4      1
  20Q GAIN WILD-TYPE      1      2      2      2      1      3
D37V14, multiclass
        clus
vv       20Q GAIN MUTATED 20Q GAIN WILD-TYPE
  CLUS_1                4                  1
  CLUS_2                0                  2
  CLUS_3                0                  2
  CLUS_4                2                  2
  CLUS_5                4                  1
  CLUS_6                1                  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"

Clustering(38) Variable = 21Q GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  21Q GAIN MUTATED       34     26     18     26
  21Q GAIN WILD-TYPE    142     86    100    125
D38V1, multiclass
        clus
vv       21Q GAIN MUTATED 21Q GAIN WILD-TYPE
  CLUS_1               34                142
  CLUS_2               26                 86
  CLUS_3               18                100
  CLUS_4               26                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
  21Q GAIN MUTATED       56     31     17
  21Q GAIN WILD-TYPE    254    127     72
D38V2, multiclass
        clus
vv       21Q GAIN MUTATED 21Q GAIN WILD-TYPE
  CLUS_1               56                254
  CLUS_2               31                127
  CLUS_3               17                 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
  21Q GAIN MUTATED       36     25     42
  21Q GAIN WILD-TYPE    145    106    201
D38V3, multiclass
        clus
vv       21Q GAIN MUTATED 21Q GAIN WILD-TYPE
  CLUS_1               36                145
  CLUS_2               25                106
  CLUS_3               42                201
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_10 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  21Q GAIN MUTATED       13      11     13     12     10     14     10      5
  21Q GAIN WILD-TYPE     72      46     45     70     24     61     24     31
                    vv
clus                 CLUS_8 CLUS_9
  21Q GAIN MUTATED        8      7
  21Q GAIN WILD-TYPE     44     35
D38V4, multiclass
         clus
vv        21Q GAIN MUTATED 21Q GAIN WILD-TYPE
  CLUS_1                13                 72
  CLUS_10               11                 46
  CLUS_2                13                 45
  CLUS_3                12                 70
  CLUS_4                10                 24
  CLUS_5                14                 61
  CLUS_6                10                 24
  CLUS_7                 5                 31
  CLUS_8                 8                 44
  CLUS_9                 7                 35
[1] 10  2
[1] TRUE
[1] "dimension of contingency table 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       61     13     33
  21Q GAIN WILD-TYPE    181    117    174
D38V5, multiclass
        clus
vv       21Q GAIN MUTATED 21Q GAIN WILD-TYPE
  CLUS_1               61                181
  CLUS_2               13                117
  CLUS_3               33                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 CLUS_4
  21Q GAIN MUTATED       30     16     21     40
  21Q GAIN WILD-TYPE     83     82    166    130
D38V6, multiclass
        clus
vv       21Q GAIN MUTATED 21Q GAIN WILD-TYPE
  CLUS_1               30                 83
  CLUS_2               16                 82
  CLUS_3               21                166
  CLUS_4               40                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
  21Q GAIN MUTATED       27     41      8
  21Q GAIN WILD-TYPE    119    148     68
D38V7, multiclass
        clus
vv       21Q GAIN MUTATED 21Q GAIN WILD-TYPE
  CLUS_1               27                119
  CLUS_2               41                148
  CLUS_3                8                 68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger 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       25      8     16     27
  21Q GAIN WILD-TYPE    118     46     44    127
D38V8, multiclass
        clus
vv       21Q GAIN MUTATED 21Q GAIN WILD-TYPE
  CLUS_1               25                118
  CLUS_2                8                 46
  CLUS_3               16                 44
  CLUS_4               27                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
  21Q GAIN MUTATED        9     19     24
  21Q GAIN WILD-TYPE     70     90     88
D38V9, multiclass
        clus
vv       21Q GAIN MUTATED 21Q GAIN WILD-TYPE
  CLUS_1                9                 70
  CLUS_2               19                 90
  CLUS_3               24                 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
  21Q GAIN MUTATED       19     13     20
  21Q GAIN WILD-TYPE    127     46     75
D38V10, multiclass
        clus
vv       21Q GAIN MUTATED 21Q GAIN WILD-TYPE
  CLUS_1               19                127
  CLUS_2               13                 46
  CLUS_3               20                 75
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger 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       24     23     24     15
  21Q GAIN WILD-TYPE     47    112    117     85
D38V11, multiclass
        clus
vv       21Q GAIN MUTATED 21Q GAIN WILD-TYPE
  CLUS_1               24                 47
  CLUS_2               23                112
  CLUS_3               24                117
  CLUS_4               15                 85
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger 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       16     20     36     14
  21Q GAIN WILD-TYPE     89     51    129     92
D38V12, multiclass
        clus
vv       21Q GAIN MUTATED 21Q GAIN WILD-TYPE
  CLUS_1               16                 89
  CLUS_2               20                 51
  CLUS_3               36                129
  CLUS_4               14                 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
  21Q GAIN MUTATED        0      0      1      1
  21Q GAIN WILD-TYPE      6      6      4      4
D38V13, multiclass
[1] "Remove cluster labels:" "21Q GAIN MUTATED"      
clus
  21Q GAIN MUTATED 21Q GAIN WILD-TYPE 
                 2                 20 
        TCGA-04-1652         TCGA-09-2050         TCGA-09-2054 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-13-0908         TCGA-23-2077         TCGA-24-2036 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-24-2288         TCGA-24-2289         TCGA-24-2290 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-24-2297         TCGA-25-2392         TCGA-25-2399 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-25-2400         TCGA-25-2404         TCGA-57-1994 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-59-2363         TCGA-61-1918         TCGA-61-2088 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-61-2098         TCGA-61-2109 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  21Q GAIN MUTATED        0      0      0      0      2      0
  21Q GAIN WILD-TYPE      5      2      2      4      3      4
D38V14, multiclass
[1] "Remove cluster labels:" "21Q GAIN MUTATED"      
clus
  21Q GAIN MUTATED 21Q GAIN WILD-TYPE 
                 2                 20 
        TCGA-04-1652         TCGA-09-2050         TCGA-09-2054 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-13-0908         TCGA-23-2077         TCGA-24-2036 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-24-2288         TCGA-24-2289         TCGA-24-2290 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-24-2297         TCGA-25-2392         TCGA-25-2399 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-25-2400         TCGA-25-2404         TCGA-57-1994 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-59-2363         TCGA-61-1918         TCGA-61-2088 
"21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" "21Q GAIN WILD-TYPE" 
        TCGA-61-2098         TCGA-61-2109 
"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
  22Q GAIN MUTATED        4      7      2     10
  22Q GAIN WILD-TYPE    172    105    116    141
D39V1, multiclass
        clus
vv       22Q GAIN MUTATED 22Q GAIN WILD-TYPE
  CLUS_1                4                172
  CLUS_2                7                105
  CLUS_3                2                116
  CLUS_4               10                141
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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       13      8      2
  22Q GAIN WILD-TYPE    297    150     87
D39V2, multiclass
        clus
vv       22Q GAIN MUTATED 22Q GAIN WILD-TYPE
  CLUS_1               13                297
  CLUS_2                8                150
  CLUS_3                2                 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
  22Q GAIN MUTATED        9      7      7
  22Q GAIN WILD-TYPE    172    124    236
D39V3, multiclass
        clus
vv       22Q GAIN MUTATED 22Q GAIN WILD-TYPE
  CLUS_1                9                172
  CLUS_2                7                124
  CLUS_3                7                236
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_10 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  22Q GAIN MUTATED        4       3      3      2      1      7      1      1
  22Q GAIN WILD-TYPE     81      54     55     80     33     68     33     35
                    vv
clus                 CLUS_8 CLUS_9
  22Q GAIN MUTATED        0      1
  22Q GAIN WILD-TYPE     52     41
D39V4, multiclass
         clus
vv        22Q GAIN MUTATED 22Q GAIN WILD-TYPE
  CLUS_1                 4                 81
  CLUS_10                3                 54
  CLUS_2                 3                 55
  CLUS_3                 2                 80
  CLUS_4                 1                 33
  CLUS_5                 7                 68
  CLUS_6                 1                 33
  CLUS_7                 1                 35
  CLUS_8                 0                 52
  CLUS_9                 1                 41
[1] 10  2
[1] TRUE
[1] "dimension of contingency table 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        8      5     10
  22Q GAIN WILD-TYPE    234    125    197
D39V5, multiclass
        clus
vv       22Q GAIN MUTATED 22Q GAIN WILD-TYPE
  CLUS_1                8                234
  CLUS_2                5                125
  CLUS_3               10                197
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger 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      1      9      7
  22Q GAIN WILD-TYPE    107     97    178    163
D39V6, multiclass
        clus
vv       22Q GAIN MUTATED 22Q GAIN WILD-TYPE
  CLUS_1                6                107
  CLUS_2                1                 97
  CLUS_3                9                178
  CLUS_4                7                163
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        6      6      5
  22Q GAIN WILD-TYPE    140    183     71
D39V7, multiclass
        clus
vv       22Q GAIN MUTATED 22Q GAIN WILD-TYPE
  CLUS_1                6                140
  CLUS_2                6                183
  CLUS_3                5                 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
  22Q GAIN MUTATED        7      4      3      3
  22Q GAIN WILD-TYPE    136     50     57    151
D39V8, multiclass
        clus
vv       22Q GAIN MUTATED 22Q GAIN WILD-TYPE
  CLUS_1                7                136
  CLUS_2                4                 50
  CLUS_3                3                 57
  CLUS_4                3                151
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  22Q GAIN MUTATED        1      3      9
  22Q GAIN WILD-TYPE     78    106    103
D39V9, multiclass
        clus
vv       22Q GAIN MUTATED 22Q GAIN WILD-TYPE
  CLUS_1                1                 78
  CLUS_2                3                106
  CLUS_3                9                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
  22Q GAIN MUTATED        6      0      7
  22Q GAIN WILD-TYPE    140     59     88
D39V10, multiclass
        clus
vv       22Q GAIN MUTATED 22Q GAIN WILD-TYPE
  CLUS_1                6                140
  CLUS_2                0                 59
  CLUS_3                7                 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 CLUS_4
  22Q GAIN MUTATED        4      6      3      5
  22Q GAIN WILD-TYPE     67    129    138     95
D39V11, multiclass
        clus
vv       22Q GAIN MUTATED 22Q GAIN WILD-TYPE
  CLUS_1                4                 67
  CLUS_2                6                129
  CLUS_3                3                138
  CLUS_4                5                 95
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger 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        5      0     10      3
  22Q GAIN WILD-TYPE    100     71    155    103
D39V12, multiclass
        clus
vv       22Q GAIN MUTATED 22Q GAIN WILD-TYPE
  CLUS_1                5                100
  CLUS_2                0                 71
  CLUS_3               10                155
  CLUS_4                3                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
  22Q GAIN MUTATED        1      1      1      0
  22Q GAIN WILD-TYPE      5      5      4      5
D39V13, multiclass
        clus
vv       22Q GAIN MUTATED 22Q GAIN WILD-TYPE
  CLUS_1                1                  5
  CLUS_2                1                  5
  CLUS_3                1                  4
  CLUS_4                0                  5
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  22Q GAIN MUTATED        0      0      0      1      2      0
  22Q GAIN WILD-TYPE      5      2      2      3      3      4
D39V14, multiclass
        clus
vv       22Q GAIN MUTATED 22Q GAIN WILD-TYPE
  CLUS_1                0                  5
  CLUS_2                0                  2
  CLUS_3                0                  2
  CLUS_4                1                  3
  CLUS_5                2                  3
  CLUS_6                0                  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"

Clustering(40) Variable = XP GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  XP GAIN MUTATED       24     17     15     20
  XP GAIN WILD-TYPE    152     95    103    131
D40V1, multiclass
        clus
vv       XP GAIN MUTATED XP GAIN WILD-TYPE
  CLUS_1              24               152
  CLUS_2              17                95
  CLUS_3              15               103
  CLUS_4              20               131
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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       39     25     12
  XP GAIN WILD-TYPE    271    133     77
D40V2, multiclass
        clus
vv       XP GAIN MUTATED XP GAIN WILD-TYPE
  CLUS_1              39               271
  CLUS_2              25               133
  CLUS_3              12                77
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       25     18     32
  XP GAIN WILD-TYPE    156    113    211
D40V3, multiclass
        clus
vv       XP GAIN MUTATED XP GAIN WILD-TYPE
  CLUS_1              25               156
  CLUS_2              18               113
  CLUS_3              32               211
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_10 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  XP GAIN MUTATED       10       6      8     11      2     14      3      7
  XP GAIN WILD-TYPE     75      51     50     71     32     61     31     29
                   vv
clus                CLUS_8 CLUS_9
  XP GAIN MUTATED       10      4
  XP GAIN WILD-TYPE     42     38
D40V4, multiclass
         clus
vv        XP GAIN MUTATED XP GAIN WILD-TYPE
  CLUS_1               10                75
  CLUS_10               6                51
  CLUS_2                8                50
  CLUS_3               11                71
  CLUS_4                2                32
  CLUS_5               14                61
  CLUS_6                3                31
  CLUS_7                7                29
  CLUS_8               10                42
  CLUS_9                4                38
[1] 10  2
[1] TRUE
[1] "dimension of contingency table 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       41     10     27
  XP GAIN WILD-TYPE    201    120    180
D40V5, multiclass
        clus
vv       XP GAIN MUTATED XP GAIN WILD-TYPE
  CLUS_1              41               201
  CLUS_2              10               120
  CLUS_3              27               180
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger 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       17     16     21     22
  XP GAIN WILD-TYPE     96     82    166    148
D40V6, multiclass
        clus
vv       XP GAIN MUTATED XP GAIN WILD-TYPE
  CLUS_1              17                96
  CLUS_2              16                82
  CLUS_3              21               166
  CLUS_4              22               148
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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       18     25     12
  XP GAIN WILD-TYPE    128    164     64
D40V7, multiclass
        clus
vv       XP GAIN MUTATED XP GAIN WILD-TYPE
  CLUS_1              18               128
  CLUS_2              25               164
  CLUS_3              12                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
  XP GAIN MUTATED       15     11      7     22
  XP GAIN WILD-TYPE    128     43     53    132
D40V8, multiclass
        clus
vv       XP GAIN MUTATED XP GAIN WILD-TYPE
  CLUS_1              15               128
  CLUS_2              11                43
  CLUS_3               7                53
  CLUS_4              22               132
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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       10     16     14
  XP GAIN WILD-TYPE     69     93     98
D40V9, multiclass
        clus
vv       XP GAIN MUTATED XP GAIN WILD-TYPE
  CLUS_1              10                69
  CLUS_2              16                93
  CLUS_3              14                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
  XP GAIN MUTATED       20      8     12
  XP GAIN WILD-TYPE    126     51     83
D40V10, multiclass
        clus
vv       XP GAIN MUTATED XP GAIN WILD-TYPE
  CLUS_1              20               126
  CLUS_2               8                51
  CLUS_3              12                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 CLUS_4
  XP GAIN MUTATED       13     20     13     13
  XP GAIN WILD-TYPE     58    115    128     87
D40V11, multiclass
        clus
vv       XP GAIN MUTATED XP GAIN WILD-TYPE
  CLUS_1              13                58
  CLUS_2              20               115
  CLUS_3              13               128
  CLUS_4              13                87
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger 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       11     10     30      8
  XP GAIN WILD-TYPE     94     61    135     98
D40V12, multiclass
        clus
vv       XP GAIN MUTATED XP GAIN WILD-TYPE
  CLUS_1              11                94
  CLUS_2              10                61
  CLUS_3              30               135
  CLUS_4               8                98
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  XP GAIN MUTATED        1      0      0      0
  XP GAIN WILD-TYPE      5      6      5      5
D40V13, multiclass
[1] "Remove cluster labels:" "XP GAIN MUTATED"       
clus
  XP GAIN MUTATED XP GAIN WILD-TYPE 
                1                21 
       TCGA-04-1652        TCGA-09-2050        TCGA-09-2054        TCGA-13-0908 
"XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" 
       TCGA-23-2077        TCGA-24-1928        TCGA-24-2036        TCGA-24-2288 
"XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" 
       TCGA-24-2289        TCGA-24-2290        TCGA-24-2297        TCGA-25-2392 
"XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" 
       TCGA-25-2399        TCGA-25-2400        TCGA-25-2404        TCGA-57-1994 
"XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" 
       TCGA-59-2363        TCGA-61-1918        TCGA-61-2088        TCGA-61-2098 
"XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" 
       TCGA-61-2111 
"XP GAIN WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  XP GAIN MUTATED        0      0      0      0      0      1
  XP GAIN WILD-TYPE      5      2      2      4      5      3
D40V14, multiclass
[1] "Remove cluster labels:" "XP GAIN MUTATED"       
clus
  XP GAIN MUTATED XP GAIN WILD-TYPE 
                1                21 
       TCGA-04-1652        TCGA-09-2050        TCGA-09-2054        TCGA-13-0908 
"XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" 
       TCGA-23-2077        TCGA-24-1928        TCGA-24-2036        TCGA-24-2288 
"XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" 
       TCGA-24-2289        TCGA-24-2290        TCGA-24-2297        TCGA-25-2392 
"XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" 
       TCGA-25-2399        TCGA-25-2400        TCGA-25-2404        TCGA-57-1994 
"XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" 
       TCGA-59-2363        TCGA-61-1918        TCGA-61-2088        TCGA-61-2098 
"XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" "XP GAIN WILD-TYPE" 
       TCGA-61-2111 
"XP GAIN WILD-TYPE" 

Clustering(41) Variable = XQ GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  XQ GAIN MUTATED       36     19     20     30
  XQ GAIN WILD-TYPE    140     93     98    121
D41V1, multiclass
        clus
vv       XQ GAIN MUTATED XQ GAIN WILD-TYPE
  CLUS_1              36               140
  CLUS_2              19                93
  CLUS_3              20                98
  CLUS_4              30               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
  XQ GAIN MUTATED       58     30     17
  XQ GAIN WILD-TYPE    252    128     72
D41V2, multiclass
        clus
vv       XQ GAIN MUTATED XQ GAIN WILD-TYPE
  CLUS_1              58               252
  CLUS_2              30               128
  CLUS_3              17                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
  XQ GAIN MUTATED       31     25     48
  XQ GAIN WILD-TYPE    150    106    195
D41V3, multiclass
        clus
vv       XQ GAIN MUTATED XQ GAIN WILD-TYPE
  CLUS_1              31               150
  CLUS_2              25               106
  CLUS_3              48               195
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_10 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  XQ GAIN MUTATED       12       8     11     14      4     22      3      8
  XQ GAIN WILD-TYPE     73      49     47     68     30     53     31     28
                   vv
clus                CLUS_8 CLUS_9
  XQ GAIN MUTATED       14      8
  XQ GAIN WILD-TYPE     38     34
D41V4, multiclass
         clus
vv        XQ GAIN MUTATED XQ GAIN WILD-TYPE
  CLUS_1               12                73
  CLUS_10               8                49
  CLUS_2               11                47
  CLUS_3               14                68
  CLUS_4                4                30
  CLUS_5               22                53
  CLUS_6                3                31
  CLUS_7                8                28
  CLUS_8               14                38
  CLUS_9                8                34
[1] 10  2
[1] TRUE
[1] "dimension of contingency table 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       62     11     35
  XQ GAIN WILD-TYPE    180    119    172
D41V5, multiclass
        clus
vv       XQ GAIN MUTATED XQ GAIN WILD-TYPE
  CLUS_1              62               180
  CLUS_2              11               119
  CLUS_3              35               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 CLUS_4
  XQ GAIN MUTATED       21     20     27     37
  XQ GAIN WILD-TYPE     92     78    160    133
D41V6, multiclass
        clus
vv       XQ GAIN MUTATED XQ GAIN WILD-TYPE
  CLUS_1              21                92
  CLUS_2              20                78
  CLUS_3              27               160
  CLUS_4              37               133
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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       26     44     11
  XQ GAIN WILD-TYPE    120    145     65
D41V7, multiclass
        clus
vv       XQ GAIN MUTATED XQ GAIN WILD-TYPE
  CLUS_1              26               120
  CLUS_2              44               145
  CLUS_3              11                65
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger 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       19     11     13     38
  XQ GAIN WILD-TYPE    124     43     47    116
D41V8, multiclass
        clus
vv       XQ GAIN MUTATED XQ GAIN WILD-TYPE
  CLUS_1              19               124
  CLUS_2              11                43
  CLUS_3              13                47
  CLUS_4              38               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
  XQ GAIN MUTATED       14     21     22
  XQ GAIN WILD-TYPE     65     88     90
D41V9, multiclass
        clus
vv       XQ GAIN MUTATED XQ GAIN WILD-TYPE
  CLUS_1              14                65
  CLUS_2              21                88
  CLUS_3              22                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
  XQ GAIN MUTATED       27     10     20
  XQ GAIN WILD-TYPE    119     49     75
D41V10, multiclass
        clus
vv       XQ GAIN MUTATED XQ GAIN WILD-TYPE
  CLUS_1              27               119
  CLUS_2              10                49
  CLUS_3              20                75
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger 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       16     28     26     18
  XQ GAIN WILD-TYPE     55    107    115     82
D41V11, multiclass
        clus
vv       XQ GAIN MUTATED XQ GAIN WILD-TYPE
  CLUS_1              16                55
  CLUS_2              28               107
  CLUS_3              26               115
  CLUS_4              18                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
  XQ GAIN MUTATED       18     16     37     17
  XQ GAIN WILD-TYPE     87     55    128     89
D41V12, multiclass
        clus
vv       XQ GAIN MUTATED XQ GAIN WILD-TYPE
  CLUS_1              18                87
  CLUS_2              16                55
  CLUS_3              37               128
  CLUS_4              17                89
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  XQ GAIN MUTATED        2      1      0      1
  XQ GAIN WILD-TYPE      4      5      5      4
D41V13, multiclass
        clus
vv       XQ GAIN MUTATED XQ GAIN WILD-TYPE
  CLUS_1               2                 4
  CLUS_2               1                 5
  CLUS_3               0                 5
  CLUS_4               1                 4
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  XQ GAIN MUTATED        1      0      0      1      0      2
  XQ GAIN WILD-TYPE      4      2      2      3      5      2
D41V14, multiclass
        clus
vv       XQ GAIN MUTATED XQ GAIN WILD-TYPE
  CLUS_1               1                 4
  CLUS_2               0                 2
  CLUS_3               0                 2
  CLUS_4               1                 3
  CLUS_5               0                 5
  CLUS_6               2                 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"

Clustering(42) Variable = 1P LOSS MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  1P LOSS MUTATED       25     10     12     12
  1P LOSS WILD-TYPE    151    102    106    139
D42V1, multiclass
        clus
vv       1P LOSS MUTATED 1P LOSS WILD-TYPE
  CLUS_1              25               151
  CLUS_2              10               102
  CLUS_3              12               106
  CLUS_4              12               139
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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       30      9     20
  1P LOSS WILD-TYPE    280    149     69
D42V2, multiclass
        clus
vv       1P LOSS MUTATED 1P LOSS WILD-TYPE
  CLUS_1              30               280
  CLUS_2               9               149
  CLUS_3              20                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
  1P LOSS MUTATED       15     13     31
  1P LOSS WILD-TYPE    166    118    212
D42V3, multiclass
        clus
vv       1P LOSS MUTATED 1P LOSS WILD-TYPE
  CLUS_1              15               166
  CLUS_2              13               118
  CLUS_3              31               212
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_10 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  1P LOSS MUTATED       10       6      5      6      1      6      8      6
  1P LOSS WILD-TYPE     75      51     53     76     33     69     26     30
                   vv
clus                CLUS_8 CLUS_9
  1P LOSS MUTATED        8      3
  1P LOSS WILD-TYPE     44     39
D42V4, multiclass
         clus
vv        1P LOSS MUTATED 1P LOSS WILD-TYPE
  CLUS_1               10                75
  CLUS_10               6                51
  CLUS_2                5                53
  CLUS_3                6                76
  CLUS_4                1                33
  CLUS_5                6                69
  CLUS_6                8                26
  CLUS_7                6                30
  CLUS_8                8                44
  CLUS_9                3                39
[1] 10  2
[1] TRUE
[1] "dimension of contingency table 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       25     17     19
  1P LOSS WILD-TYPE    217    113    188
D42V5, multiclass
        clus
vv       1P LOSS MUTATED 1P LOSS WILD-TYPE
  CLUS_1              25               217
  CLUS_2              17               113
  CLUS_3              19               188
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger 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       13     15     14     17
  1P LOSS WILD-TYPE    100     83    173    153
D42V6, multiclass
        clus
vv       1P LOSS MUTATED 1P LOSS WILD-TYPE
  CLUS_1              13               100
  CLUS_2              15                83
  CLUS_3              14               173
  CLUS_4              17               153
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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       23     18      8
  1P LOSS WILD-TYPE    123    171     68
D42V7, multiclass
        clus
vv       1P LOSS MUTATED 1P LOSS WILD-TYPE
  CLUS_1              23               123
  CLUS_2              18               171
  CLUS_3               8                68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  1P LOSS MUTATED       20      4      6     19
  1P LOSS WILD-TYPE    123     50     54    135
D42V8, multiclass
        clus
vv       1P LOSS MUTATED 1P LOSS WILD-TYPE
  CLUS_1              20               123
  CLUS_2               4                50
  CLUS_3               6                54
  CLUS_4              19               135
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        9     11      9
  1P LOSS WILD-TYPE     70     98    103
D42V9, multiclass
        clus
vv       1P LOSS MUTATED 1P LOSS WILD-TYPE
  CLUS_1               9                70
  CLUS_2              11                98
  CLUS_3               9               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
  1P LOSS MUTATED       15      8      6
  1P LOSS WILD-TYPE    131     51     89
D42V10, multiclass
        clus
vv       1P LOSS MUTATED 1P LOSS WILD-TYPE
  CLUS_1              15               131
  CLUS_2               8                51
  CLUS_3               6                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 CLUS_4
  1P LOSS MUTATED        9      7     15     11
  1P LOSS WILD-TYPE     62    128    126     89
D42V11, multiclass
        clus
vv       1P LOSS MUTATED 1P LOSS WILD-TYPE
  CLUS_1               9                62
  CLUS_2               7               128
  CLUS_3              15               126
  CLUS_4              11                89
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger 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        8     10     14     10
  1P LOSS WILD-TYPE     97     61    151     96
D42V12, multiclass
        clus
vv       1P LOSS MUTATED 1P LOSS WILD-TYPE
  CLUS_1               8                97
  CLUS_2              10                61
  CLUS_3              14               151
  CLUS_4              10                96
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  1P LOSS MUTATED        1      0      0      0
  1P LOSS WILD-TYPE      5      6      5      5
D42V13, multiclass
[1] "Remove cluster labels:" "1P LOSS MUTATED"       
clus
  1P LOSS MUTATED 1P LOSS WILD-TYPE 
                1                21 
       TCGA-04-1652        TCGA-09-2050        TCGA-09-2054        TCGA-13-0908 
"1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" 
       TCGA-23-2077        TCGA-24-1928        TCGA-24-2036        TCGA-24-2288 
"1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" 
       TCGA-24-2289        TCGA-24-2290        TCGA-24-2297        TCGA-25-2392 
"1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" 
       TCGA-25-2399        TCGA-25-2400        TCGA-25-2404        TCGA-57-1994 
"1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" 
       TCGA-59-2363        TCGA-61-2088        TCGA-61-2098        TCGA-61-2109 
"1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" 
       TCGA-61-2111 
"1P LOSS WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  1P LOSS MUTATED        1      0      0      0      0      0
  1P LOSS WILD-TYPE      4      2      2      4      5      4
D42V14, multiclass
[1] "Remove cluster labels:" "1P LOSS MUTATED"       
clus
  1P LOSS MUTATED 1P LOSS WILD-TYPE 
                1                21 
       TCGA-04-1652        TCGA-09-2050        TCGA-09-2054        TCGA-13-0908 
"1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" 
       TCGA-23-2077        TCGA-24-1928        TCGA-24-2036        TCGA-24-2288 
"1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" 
       TCGA-24-2289        TCGA-24-2290        TCGA-24-2297        TCGA-25-2392 
"1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" 
       TCGA-25-2399        TCGA-25-2400        TCGA-25-2404        TCGA-57-1994 
"1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" 
       TCGA-59-2363        TCGA-61-2088        TCGA-61-2098        TCGA-61-2109 
"1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" "1P LOSS WILD-TYPE" 
       TCGA-61-2111 
"1P LOSS WILD-TYPE" 

Clustering(43) Variable = 1Q LOSS MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  1Q LOSS MUTATED       17      8      5      7
  1Q LOSS WILD-TYPE    159    104    113    144
D43V1, multiclass
        clus
vv       1Q LOSS MUTATED 1Q LOSS WILD-TYPE
  CLUS_1              17               159
  CLUS_2               8               104
  CLUS_3               5               113
  CLUS_4               7               144
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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       19      7     11
  1Q LOSS WILD-TYPE    291    151     78
D43V2, multiclass
        clus
vv       1Q LOSS MUTATED 1Q LOSS WILD-TYPE
  CLUS_1              19               291
  CLUS_2               7               151
  CLUS_3              11                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
  1Q LOSS MUTATED        8      8     21
  1Q LOSS WILD-TYPE    173    123    222
D43V3, multiclass
        clus
vv       1Q LOSS MUTATED 1Q LOSS WILD-TYPE
  CLUS_1               8               173
  CLUS_2               8               123
  CLUS_3              21               222
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_10 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  1Q LOSS MUTATED        5       5      3      5      1      4      6      3
  1Q LOSS WILD-TYPE     80      52     55     77     33     71     28     33
                   vv
clus                CLUS_8 CLUS_9
  1Q LOSS MUTATED        3      2
  1Q LOSS WILD-TYPE     49     40
D43V4, multiclass
         clus
vv        1Q LOSS MUTATED 1Q LOSS WILD-TYPE
  CLUS_1                5                80
  CLUS_10               5                52
  CLUS_2                3                55
  CLUS_3                5                77
  CLUS_4                1                33
  CLUS_5                4                71
  CLUS_6                6                28
  CLUS_7                3                33
  CLUS_8                3                49
  CLUS_9                2                40
[1] 10  2
[1] TRUE
[1] "dimension of contingency table 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       17      8     15
  1Q LOSS WILD-TYPE    225    122    192
D43V5, multiclass
        clus
vv       1Q LOSS MUTATED 1Q LOSS WILD-TYPE
  CLUS_1              17               225
  CLUS_2               8               122
  CLUS_3              15               192
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger 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       10     10      9      9
  1Q LOSS WILD-TYPE    103     88    178    161
D43V6, multiclass
        clus
vv       1Q LOSS MUTATED 1Q LOSS WILD-TYPE
  CLUS_1              10               103
  CLUS_2              10                88
  CLUS_3               9               178
  CLUS_4               9               161
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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       11     13      6
  1Q LOSS WILD-TYPE    135    176     70
D43V7, multiclass
        clus
vv       1Q LOSS MUTATED 1Q LOSS WILD-TYPE
  CLUS_1              11               135
  CLUS_2              13               176
  CLUS_3               6                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 CLUS_4
  1Q LOSS MUTATED        9      4      5     12
  1Q LOSS WILD-TYPE    134     50     55    142
D43V8, multiclass
        clus
vv       1Q LOSS MUTATED 1Q LOSS WILD-TYPE
  CLUS_1               9               134
  CLUS_2               4                50
  CLUS_3               5                55
  CLUS_4              12               142
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        4      7      6
  1Q LOSS WILD-TYPE     75    102    106
D43V9, multiclass
        clus
vv       1Q LOSS MUTATED 1Q LOSS WILD-TYPE
  CLUS_1               4                75
  CLUS_2               7               102
  CLUS_3               6               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
  1Q LOSS MUTATED        9      4      4
  1Q LOSS WILD-TYPE    137     55     91
D43V10, multiclass
        clus
vv       1Q LOSS MUTATED 1Q LOSS WILD-TYPE
  CLUS_1               9               137
  CLUS_2               4                55
  CLUS_3               4                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
  1Q LOSS MUTATED        5      4      9      8
  1Q LOSS WILD-TYPE     66    131    132     92
D43V11, multiclass
        clus
vv       1Q LOSS MUTATED 1Q LOSS WILD-TYPE
  CLUS_1               5                66
  CLUS_2               4               131
  CLUS_3               9               132
  CLUS_4               8                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
  1Q LOSS MUTATED        7      5      9      5
  1Q LOSS WILD-TYPE     98     66    156    101
D43V12, multiclass
        clus
vv       1Q LOSS MUTATED 1Q LOSS WILD-TYPE
  CLUS_1               7                98
  CLUS_2               5                66
  CLUS_3               9               156
  CLUS_4               5               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
  1Q LOSS MUTATED        0      0      0      0
  1Q LOSS WILD-TYPE      6      6      5      5
D43V13, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  1Q LOSS MUTATED        0      0      0      0      0      0
  1Q LOSS WILD-TYPE      5      2      2      4      5      4
D43V14, multiclass

Clustering(44) Variable = 2P LOSS MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  2P LOSS MUTATED       12     10     12     18
  2P LOSS WILD-TYPE    164    102    106    133
D44V1, multiclass
        clus
vv       2P LOSS MUTATED 2P LOSS WILD-TYPE
  CLUS_1              12               164
  CLUS_2              10               102
  CLUS_3              12               106
  CLUS_4              18               133
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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       38     10      4
  2P LOSS WILD-TYPE    272    148     85
D44V2, multiclass
        clus
vv       2P LOSS MUTATED 2P LOSS WILD-TYPE
  CLUS_1              38               272
  CLUS_2              10               148
  CLUS_3               4                85
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       19     11     21
  2P LOSS WILD-TYPE    162    120    222
D44V3, multiclass
        clus
vv       2P LOSS MUTATED 2P LOSS WILD-TYPE
  CLUS_1              19               162
  CLUS_2              11               120
  CLUS_3              21               222
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_10 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  2P LOSS MUTATED        8       4      2      6      3      8      5      7
  2P LOSS WILD-TYPE     77      53     56     76     31     67     29     29
                   vv
clus                CLUS_8 CLUS_9
  2P LOSS MUTATED        4      4
  2P LOSS WILD-TYPE     48     38
D44V4, multiclass
         clus
vv        2P LOSS MUTATED 2P LOSS WILD-TYPE
  CLUS_1                8                77
  CLUS_10               4                53
  CLUS_2                2                56
  CLUS_3                6                76
  CLUS_4                3                31
  CLUS_5                8                67
  CLUS_6                5                29
  CLUS_7                7                29
  CLUS_8                4                48
  CLUS_9                4                38
[1] 10  2
[1] TRUE
[1] "dimension of contingency table 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       24     10     18
  2P LOSS WILD-TYPE    218    120    189
D44V5, multiclass
        clus
vv       2P LOSS MUTATED 2P LOSS WILD-TYPE
  CLUS_1              24               218
  CLUS_2              10               120
  CLUS_3              18               189
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger 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       14      9     15     14
  2P LOSS WILD-TYPE     99     89    172    156
D44V6, multiclass
        clus
vv       2P LOSS MUTATED 2P LOSS WILD-TYPE
  CLUS_1              14                99
  CLUS_2               9                89
  CLUS_3              15               172
  CLUS_4              14               156
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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       11     17      8
  2P LOSS WILD-TYPE    135    172     68
D44V7, multiclass
        clus
vv       2P LOSS MUTATED 2P LOSS WILD-TYPE
  CLUS_1              11               135
  CLUS_2              17               172
  CLUS_3               8                68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger 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       13      4      4     15
  2P LOSS WILD-TYPE    130     50     56    139
D44V8, multiclass
        clus
vv       2P LOSS MUTATED 2P LOSS WILD-TYPE
  CLUS_1              13               130
  CLUS_2               4                50
  CLUS_3               4                56
  CLUS_4              15               139
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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       10      8     10
  2P LOSS WILD-TYPE     69    101    102
D44V9, multiclass
        clus
vv       2P LOSS MUTATED 2P LOSS WILD-TYPE
  CLUS_1              10                69
  CLUS_2               8               101
  CLUS_3              10               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
  2P LOSS MUTATED       15      5      8
  2P LOSS WILD-TYPE    131     54     87
D44V10, multiclass
        clus
vv       2P LOSS MUTATED 2P LOSS WILD-TYPE
  CLUS_1              15               131
  CLUS_2               5                54
  CLUS_3               8                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
  2P LOSS MUTATED        5     15     15     11
  2P LOSS WILD-TYPE     66    120    126     89
D44V11, multiclass
        clus
vv       2P LOSS MUTATED 2P LOSS WILD-TYPE
  CLUS_1               5                66
  CLUS_2              15               120
  CLUS_3              15               126
  CLUS_4              11                89
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger 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       14     10     13      9
  2P LOSS WILD-TYPE     91     61    152     97
D44V12, multiclass
        clus
vv       2P LOSS MUTATED 2P LOSS WILD-TYPE
  CLUS_1              14                91
  CLUS_2              10                61
  CLUS_3              13               152
  CLUS_4               9                97
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  2P LOSS MUTATED        1      0      0      1
  2P LOSS WILD-TYPE      5      6      5      4
D44V13, multiclass
[1] "Remove cluster labels:" "2P LOSS MUTATED"       
clus
  2P LOSS MUTATED 2P LOSS WILD-TYPE 
                2                20 
       TCGA-04-1652        TCGA-09-2050        TCGA-09-2054        TCGA-13-0908 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-23-2077        TCGA-24-1928        TCGA-24-2036        TCGA-24-2288 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-24-2289        TCGA-24-2290        TCGA-24-2297        TCGA-25-2399 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-25-2400        TCGA-25-2404        TCGA-57-1994        TCGA-59-2363 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-61-1918        TCGA-61-2088        TCGA-61-2098        TCGA-61-2111 
"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
  2P LOSS MUTATED        0      0      0      0      0      2
  2P LOSS WILD-TYPE      5      2      2      4      5      2
D44V14, multiclass
[1] "Remove cluster labels:" "2P LOSS MUTATED"       
clus
  2P LOSS MUTATED 2P LOSS WILD-TYPE 
                2                20 
       TCGA-04-1652        TCGA-09-2050        TCGA-09-2054        TCGA-13-0908 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-23-2077        TCGA-24-1928        TCGA-24-2036        TCGA-24-2288 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-24-2289        TCGA-24-2290        TCGA-24-2297        TCGA-25-2399 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-25-2400        TCGA-25-2404        TCGA-57-1994        TCGA-59-2363 
"2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" "2P LOSS WILD-TYPE" 
       TCGA-61-1918        TCGA-61-2088        TCGA-61-2098        TCGA-61-2111 
"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
  2Q LOSS MUTATED       18     11     10     21
  2Q LOSS WILD-TYPE    158    101    108    130
D45V1, multiclass
        clus
vv       2Q LOSS MUTATED 2Q LOSS WILD-TYPE
  CLUS_1              18               158
  CLUS_2              11               101
  CLUS_3              10               108
  CLUS_4              21               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
  2Q LOSS MUTATED       37     16      7
  2Q LOSS WILD-TYPE    273    142     82
D45V2, multiclass
        clus
vv       2Q LOSS MUTATED 2Q LOSS WILD-TYPE
  CLUS_1              37               273
  CLUS_2              16               142
  CLUS_3               7                82
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       21     12     27
  2Q LOSS WILD-TYPE    160    119    216
D45V3, multiclass
        clus
vv       2Q LOSS MUTATED 2Q LOSS WILD-TYPE
  CLUS_1              21               160
  CLUS_2              12               119
  CLUS_3              27               216
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_10 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  2Q LOSS MUTATED        9       3      2      9      4      8      5      9
  2Q LOSS WILD-TYPE     76      54     56     73     30     67     29     27
                   vv
clus                CLUS_8 CLUS_9
  2Q LOSS MUTATED        6      5
  2Q LOSS WILD-TYPE     46     37
D45V4, multiclass
         clus
vv        2Q LOSS MUTATED 2Q LOSS WILD-TYPE
  CLUS_1                9                76
  CLUS_10               3                54
  CLUS_2                2                56
  CLUS_3                9                73
  CLUS_4                4                30
  CLUS_5                8                67
  CLUS_6                5                29
  CLUS_7                9                27
  CLUS_8                6                46
  CLUS_9                5                37
[1] 10  2
[1] TRUE
[1] "dimension of contingency table 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       29     12     21
  2Q LOSS WILD-TYPE    213    118    186
D45V5, multiclass
        clus
vv       2Q LOSS MUTATED 2Q LOSS WILD-TYPE
  CLUS_1              29               213
  CLUS_2              12               118
  CLUS_3              21               186
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger 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       15     10     16     20
  2Q LOSS WILD-TYPE     98     88    171    150
D45V6, multiclass
        clus
vv       2Q LOSS MUTATED 2Q LOSS WILD-TYPE
  CLUS_1              15                98
  CLUS_2              10                88
  CLUS_3              16               171
  CLUS_4              20               150
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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       17     23      7
  2Q LOSS WILD-TYPE    129    166     69
D45V7, multiclass
        clus
vv       2Q LOSS MUTATED 2Q LOSS WILD-TYPE
  CLUS_1              17               129
  CLUS_2              23               166
  CLUS_3               7                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
  2Q LOSS MUTATED       21      3      5     18
  2Q LOSS WILD-TYPE    122     51     55    136
D45V8, multiclass
        clus
vv       2Q LOSS MUTATED 2Q LOSS WILD-TYPE
  CLUS_1              21               122
  CLUS_2               3                51
  CLUS_3               5                55
  CLUS_4              18               136
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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       11      9     12
  2Q LOSS WILD-TYPE     68    100    100
D45V9, multiclass
        clus
vv       2Q LOSS MUTATED 2Q LOSS WILD-TYPE
  CLUS_1              11                68
  CLUS_2               9               100
  CLUS_3              12               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
  2Q LOSS MUTATED       16      6     10
  2Q LOSS WILD-TYPE    130     53     85
D45V10, multiclass
        clus
vv       2Q LOSS MUTATED 2Q LOSS WILD-TYPE
  CLUS_1              16               130
  CLUS_2               6                53
  CLUS_3              10                85
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger 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        8     17     16     12
  2Q LOSS WILD-TYPE     63    118    125     88
D45V11, multiclass
        clus
vv       2Q LOSS MUTATED 2Q LOSS WILD-TYPE
  CLUS_1               8                63
  CLUS_2              17               118
  CLUS_3              16               125
  CLUS_4              12                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
  2Q LOSS MUTATED       17     10     19      7
  2Q LOSS WILD-TYPE     88     61    146     99
D45V12, multiclass
        clus
vv       2Q LOSS MUTATED 2Q LOSS WILD-TYPE
  CLUS_1              17                88
  CLUS_2              10                61
  CLUS_3              19               146
  CLUS_4               7                99
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  2Q LOSS MUTATED        1      1      0      1
  2Q LOSS WILD-TYPE      5      5      5      4
D45V13, multiclass
        clus
vv       2Q LOSS MUTATED 2Q LOSS WILD-TYPE
  CLUS_1               1                 5
  CLUS_2               1                 5
  CLUS_3               0                 5
  CLUS_4               1                 4
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  2Q LOSS MUTATED        0      1      0      0      0      2
  2Q LOSS WILD-TYPE      5      1      2      4      5      2
D45V14, multiclass
        clus
vv       2Q LOSS MUTATED 2Q LOSS WILD-TYPE
  CLUS_1               0                 5
  CLUS_2               1                 1
  CLUS_3               0                 2
  CLUS_4               0                 4
  CLUS_5               0                 5
  CLUS_6               2                 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"

Clustering(46) Variable = 3P LOSS MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  3P LOSS MUTATED       46     22      3     25
  3P LOSS WILD-TYPE    130     90    115    126
D46V1, multiclass
        clus
vv       3P LOSS MUTATED 3P LOSS WILD-TYPE
  CLUS_1              46               130
  CLUS_2              22                90
  CLUS_3               3               115
  CLUS_4              25               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
  3P LOSS MUTATED       39     30     27
  3P LOSS WILD-TYPE    271    128     62
D46V2, multiclass
        clus
vv       3P LOSS MUTATED 3P LOSS WILD-TYPE
  CLUS_1              39               271
  CLUS_2              30               128
  CLUS_3              27                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
  3P LOSS MUTATED       30     20     46
  3P LOSS WILD-TYPE    151    111    197
D46V3, multiclass
        clus
vv       3P LOSS MUTATED 3P LOSS WILD-TYPE
  CLUS_1              30               151
  CLUS_2              20               111
  CLUS_3              46               197
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_10 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  3P LOSS MUTATED       16       4      3     13      5     13     13      8
  3P LOSS WILD-TYPE     69      53     55     69     29     62     21     28
                   vv
clus                CLUS_8 CLUS_9
  3P LOSS MUTATED       16      5
  3P LOSS WILD-TYPE     36     37
D46V4, multiclass
         clus
vv        3P LOSS MUTATED 3P LOSS WILD-TYPE
  CLUS_1               16                69
  CLUS_10               4                53
  CLUS_2                3                55
  CLUS_3               13                69
  CLUS_4                5                29
  CLUS_5               13                62
  CLUS_6               13                21
  CLUS_7                8                28
  CLUS_8               16                36
  CLUS_9                5                37
[1] 10  2
[1] TRUE
[1] "dimension of contingency table 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       62     16     19
  3P LOSS WILD-TYPE    180    114    188
D46V5, multiclass
        clus
vv       3P LOSS MUTATED 3P LOSS WILD-TYPE
  CLUS_1              62               180
  CLUS_2              16               114
  CLUS_3              19               188
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger 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       26     21     11     38
  3P LOSS WILD-TYPE     87     77    176    132
D46V6, multiclass
        clus
vv       3P LOSS MUTATED 3P LOSS WILD-TYPE
  CLUS_1              26                87
  CLUS_2              21                77
  CLUS_3              11               176
  CLUS_4              38               132
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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       23     34      6
  3P LOSS WILD-TYPE    123    155     70
D46V7, multiclass
        clus
vv       3P LOSS MUTATED 3P LOSS WILD-TYPE
  CLUS_1              23               123
  CLUS_2              34               155
  CLUS_3               6                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 CLUS_4
  3P LOSS MUTATED       19      8     17     19
  3P LOSS WILD-TYPE    124     46     43    135
D46V8, multiclass
        clus
vv       3P LOSS MUTATED 3P LOSS WILD-TYPE
  CLUS_1              19               124
  CLUS_2               8                46
  CLUS_3              17                43
  CLUS_4              19               135
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        8     22     24
  3P LOSS WILD-TYPE     71     87     88
D46V9, multiclass
        clus
vv       3P LOSS MUTATED 3P LOSS WILD-TYPE
  CLUS_1               8                71
  CLUS_2              22                87
  CLUS_3              24                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
  3P LOSS MUTATED       15     18     21
  3P LOSS WILD-TYPE    131     41     74
D46V10, multiclass
        clus
vv       3P LOSS MUTATED 3P LOSS WILD-TYPE
  CLUS_1              15               131
  CLUS_2              18                41
  CLUS_3              21                74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger 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       12     21     20     26
  3P LOSS WILD-TYPE     59    114    121     74
D46V11, multiclass
        clus
vv       3P LOSS MUTATED 3P LOSS WILD-TYPE
  CLUS_1              12                59
  CLUS_2              21               114
  CLUS_3              20               121
  CLUS_4              26                74
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger 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       12     16     36     15
  3P LOSS WILD-TYPE     93     55    129     91
D46V12, multiclass
        clus
vv       3P LOSS MUTATED 3P LOSS WILD-TYPE
  CLUS_1              12                93
  CLUS_2              16                55
  CLUS_3              36               129
  CLUS_4              15                91
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  3P LOSS MUTATED        0      2      0      2
  3P LOSS WILD-TYPE      6      4      5      3
D46V13, multiclass
        clus
vv       3P LOSS MUTATED 3P LOSS WILD-TYPE
  CLUS_1               0                 6
  CLUS_2               2                 4
  CLUS_3               0                 5
  CLUS_4               2                 3
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  3P LOSS MUTATED        0      1      0      1      1      1
  3P LOSS WILD-TYPE      5      1      2      3      4      3
D46V14, multiclass
        clus
vv       3P LOSS MUTATED 3P LOSS WILD-TYPE
  CLUS_1               0                 5
  CLUS_2               1                 1
  CLUS_3               0                 2
  CLUS_4               1                 3
  CLUS_5               1                 4
  CLUS_6               1                 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"

Clustering(47) Variable = 3Q LOSS MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  3Q LOSS MUTATED       20     12      3      7
  3Q LOSS WILD-TYPE    156    100    115    144
D47V1, multiclass
        clus
vv       3Q LOSS MUTATED 3Q LOSS WILD-TYPE
  CLUS_1              20               156
  CLUS_2              12               100
  CLUS_3               3               115
  CLUS_4               7               144
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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       17     14     11
  3Q LOSS WILD-TYPE    293    144     78
D47V2, multiclass
        clus
vv       3Q LOSS MUTATED 3Q LOSS WILD-TYPE
  CLUS_1              17               293
  CLUS_2              14               144
  CLUS_3              11                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
  3Q LOSS MUTATED       13      6     23
  3Q LOSS WILD-TYPE    168    125    220
D47V3, multiclass
        clus
vv       3Q LOSS MUTATED 3Q LOSS WILD-TYPE
  CLUS_1              13               168
  CLUS_2               6               125
  CLUS_3              23               220
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_10 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  3Q LOSS MUTATED        7       1      0      8      1      6      7      3
  3Q LOSS WILD-TYPE     78      56     58     74     33     69     27     33
                   vv
clus                CLUS_8 CLUS_9
  3Q LOSS MUTATED        7      2
  3Q LOSS WILD-TYPE     45     40
D47V4, multiclass
         clus
vv        3Q LOSS MUTATED 3Q LOSS WILD-TYPE
  CLUS_1                7                78
  CLUS_10               1                56
  CLUS_2                0                58
  CLUS_3                8                74
  CLUS_4                1                33
  CLUS_5                6                69
  CLUS_6                7                27
  CLUS_7                3                33
  CLUS_8                7                45
  CLUS_9                2                40
[1] 10  2
[1] TRUE
[1] "dimension of contingency table 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       26      8      8
  3Q LOSS WILD-TYPE    216    122    199
D47V5, multiclass
        clus
vv       3Q LOSS MUTATED 3Q LOSS WILD-TYPE
  CLUS_1              26               216
  CLUS_2               8               122
  CLUS_3               8               199
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger 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       14      9      3     16
  3Q LOSS WILD-TYPE     99     89    184    154
D47V6, multiclass
        clus
vv       3Q LOSS MUTATED 3Q LOSS WILD-TYPE
  CLUS_1              14                99
  CLUS_2               9                89
  CLUS_3               3               184
  CLUS_4              16               154
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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       12     13      2
  3Q LOSS WILD-TYPE    134    176     74
D47V7, multiclass
        clus
vv       3Q LOSS MUTATED 3Q LOSS WILD-TYPE
  CLUS_1              12               134
  CLUS_2              13               176
  CLUS_3               2                74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger 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        9      7      5      6
  3Q LOSS WILD-TYPE    134     47     55    148
D47V8, multiclass
        clus
vv       3Q LOSS MUTATED 3Q LOSS WILD-TYPE
  CLUS_1               9               134
  CLUS_2               7                47
  CLUS_3               5                55
  CLUS_4               6               148
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        2      9     13
  3Q LOSS WILD-TYPE     77    100     99
D47V9, multiclass
        clus
vv       3Q LOSS MUTATED 3Q LOSS WILD-TYPE
  CLUS_1               2                77
  CLUS_2               9               100
  CLUS_3              13                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        6      8     10
  3Q LOSS WILD-TYPE    140     51     85
D47V10, multiclass
        clus
vv       3Q LOSS MUTATED 3Q LOSS WILD-TYPE
  CLUS_1               6               140
  CLUS_2               8                51
  CLUS_3              10                85
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  3Q LOSS MUTATED        7      9      5     11
  3Q LOSS WILD-TYPE     64    126    136     89
D47V11, multiclass
        clus
vv       3Q LOSS MUTATED 3Q LOSS WILD-TYPE
  CLUS_1               7                64
  CLUS_2               9               126
  CLUS_3               5               136
  CLUS_4              11                89
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  3Q LOSS MUTATED        4      7     20      1
  3Q LOSS WILD-TYPE    101     64    145    105
D47V12, multiclass
        clus
vv       3Q LOSS MUTATED 3Q LOSS WILD-TYPE
  CLUS_1               4               101
  CLUS_2               7                64
  CLUS_3              20               145
  CLUS_4               1               105
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  3Q LOSS MUTATED        0      1      0      2
  3Q LOSS WILD-TYPE      6      5      5      3
D47V13, multiclass
        clus
vv       3Q LOSS MUTATED 3Q LOSS WILD-TYPE
  CLUS_1               0                 6
  CLUS_2               1                 5
  CLUS_3               0                 5
  CLUS_4               2                 3
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  3Q LOSS MUTATED        0      1      0      0      1      1
  3Q LOSS WILD-TYPE      5      1      2      4      4      3
D47V14, multiclass
        clus
vv       3Q LOSS MUTATED 3Q LOSS WILD-TYPE
  CLUS_1               0                 5
  CLUS_2               1                 1
  CLUS_3               0                 2
  CLUS_4               0                 4
  CLUS_5               1                 4
  CLUS_6               1                 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"

Clustering(48) Variable = 4P LOSS MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  4P LOSS MUTATED      104     60     63     75
  4P LOSS WILD-TYPE     72     52     55     76
D48V1, multiclass
        clus
vv       4P LOSS MUTATED 4P LOSS WILD-TYPE
  CLUS_1             104                72
  CLUS_2              60                52
  CLUS_3              63                55
  CLUS_4              75                76
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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      175     73     54
  4P LOSS WILD-TYPE    135     85     35
D48V2, multiclass
        clus
vv       4P LOSS MUTATED 4P LOSS WILD-TYPE
  CLUS_1             175               135
  CLUS_2              73                85
  CLUS_3              54                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
  4P LOSS MUTATED      107     65    129
  4P LOSS WILD-TYPE     74     66    114
D48V3, multiclass
        clus
vv       4P LOSS MUTATED 4P LOSS WILD-TYPE
  CLUS_1             107                74
  CLUS_2              65                66
  CLUS_3             129               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_10 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  4P LOSS MUTATED       47      32     34     45     19     34     21     22
  4P LOSS WILD-TYPE     38      25     24     37     15     41     13     14
                   vv
clus                CLUS_8 CLUS_9
  4P LOSS MUTATED       30     17
  4P LOSS WILD-TYPE     22     25
D48V4, multiclass
         clus
vv        4P LOSS MUTATED 4P LOSS WILD-TYPE
  CLUS_1               47                38
  CLUS_10              32                25
  CLUS_2               34                24
  CLUS_3               45                37
  CLUS_4               19                15
  CLUS_5               34                41
  CLUS_6               21                13
  CLUS_7               22                14
  CLUS_8               30                22
  CLUS_9               17                25
[1] 10  2
[1] TRUE
[1] "dimension of contingency table 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      156     65     94
  4P LOSS WILD-TYPE     86     65    113
D48V5, multiclass
        clus
vv       4P LOSS MUTATED 4P LOSS WILD-TYPE
  CLUS_1             156                86
  CLUS_2              65                65
  CLUS_3              94               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
  4P LOSS MUTATED       66     57     92     96
  4P LOSS WILD-TYPE     47     41     95     74
D48V6, multiclass
        clus
vv       4P LOSS MUTATED 4P LOSS WILD-TYPE
  CLUS_1              66                47
  CLUS_2              57                41
  CLUS_3              92                95
  CLUS_4              96                74
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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       76    103     32
  4P LOSS WILD-TYPE     70     86     44
D48V7, multiclass
        clus
vv       4P LOSS MUTATED 4P LOSS WILD-TYPE
  CLUS_1              76                70
  CLUS_2             103                86
  CLUS_3              32                44
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  4P LOSS MUTATED       74     25     33     79
  4P LOSS WILD-TYPE     69     29     27     75
D48V8, multiclass
        clus
vv       4P LOSS MUTATED 4P LOSS WILD-TYPE
  CLUS_1              74                69
  CLUS_2              25                29
  CLUS_3              33                27
  CLUS_4              79                75
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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       37     58     59
  4P LOSS WILD-TYPE     42     51     53
D48V9, multiclass
        clus
vv       4P LOSS MUTATED 4P LOSS WILD-TYPE
  CLUS_1              37                42
  CLUS_2              58                51
  CLUS_3              59                53
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  4P LOSS MUTATED       75     32     47
  4P LOSS WILD-TYPE     71     27     48
D48V10, multiclass
        clus
vv       4P LOSS MUTATED 4P LOSS WILD-TYPE
  CLUS_1              75                71
  CLUS_2              32                27
  CLUS_3              47                48
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  4P LOSS MUTATED       33     67     85     53
  4P LOSS WILD-TYPE     38     68     56     47
D48V11, multiclass
        clus
vv       4P LOSS MUTATED 4P LOSS WILD-TYPE
  CLUS_1              33                38
  CLUS_2              67                68
  CLUS_3              85                56
  CLUS_4              53                47
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger 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       55     34     82     67
  4P LOSS WILD-TYPE     50     37     83     39
D48V12, multiclass
        clus
vv       4P LOSS MUTATED 4P LOSS WILD-TYPE
  CLUS_1              55                50
  CLUS_2              34                37
  CLUS_3              82                83
  CLUS_4              67                39
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  4P LOSS MUTATED        5      3      1      3
  4P LOSS WILD-TYPE      1      3      4      2
D48V13, multiclass
        clus
vv       4P LOSS MUTATED 4P LOSS WILD-TYPE
  CLUS_1               5                 1
  CLUS_2               3                 3
  CLUS_3               1                 4
  CLUS_4               3                 2
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  4P LOSS MUTATED        4      2      0      1      3      2
  4P LOSS WILD-TYPE      1      0      2      3      2      2
D48V14, multiclass
        clus
vv       4P LOSS MUTATED 4P LOSS WILD-TYPE
  CLUS_1               4                 1
  CLUS_2               2                 0
  CLUS_3               0                 2
  CLUS_4               1                 3
  CLUS_5               3                 2
  CLUS_6               2                 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"

Clustering(49) Variable = 4Q LOSS MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  4Q LOSS MUTATED      119     70     72     85
  4Q LOSS WILD-TYPE     57     42     46     66
D49V1, multiclass
        clus
vv       4Q LOSS MUTATED 4Q LOSS WILD-TYPE
  CLUS_1             119                57
  CLUS_2              70                42
  CLUS_3              72                46
  CLUS_4              85                66
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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      197     88     61
  4Q LOSS WILD-TYPE    113     70     28
D49V2, multiclass
        clus
vv       4Q LOSS MUTATED 4Q LOSS WILD-TYPE
  CLUS_1             197               113
  CLUS_2              88                70
  CLUS_3              61                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
  4Q LOSS MUTATED      120     76    149
  4Q LOSS WILD-TYPE     61     55     94
D49V3, multiclass
        clus
vv       4Q LOSS MUTATED 4Q LOSS WILD-TYPE
  CLUS_1             120                61
  CLUS_2              76                55
  CLUS_3             149                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_10 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  4Q LOSS MUTATED       54      37     38     51     18     44     23     22
  4Q LOSS WILD-TYPE     31      20     20     31     16     31     11     14
                   vv
clus                CLUS_8 CLUS_9
  4Q LOSS MUTATED       37     21
  4Q LOSS WILD-TYPE     15     21
D49V4, multiclass
         clus
vv        4Q LOSS MUTATED 4Q LOSS WILD-TYPE
  CLUS_1               54                31
  CLUS_10              37                20
  CLUS_2               38                20
  CLUS_3               51                31
  CLUS_4               18                16
  CLUS_5               44                31
  CLUS_6               23                11
  CLUS_7               22                14
  CLUS_8               37                15
  CLUS_9               21                21
[1] 10  2
[1] TRUE
[1] "dimension of contingency table 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      177     79    107
  4Q LOSS WILD-TYPE     65     51    100
D49V5, multiclass
        clus
vv       4Q LOSS MUTATED 4Q LOSS WILD-TYPE
  CLUS_1             177                65
  CLUS_2              79                51
  CLUS_3             107               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
  4Q LOSS MUTATED       71     65    108    111
  4Q LOSS WILD-TYPE     42     33     79     59
D49V6, multiclass
        clus
vv       4Q LOSS MUTATED 4Q LOSS WILD-TYPE
  CLUS_1              71                42
  CLUS_2              65                33
  CLUS_3             108                79
  CLUS_4             111                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
  4Q LOSS MUTATED       87    126     43
  4Q LOSS WILD-TYPE     59     63     33
D49V7, multiclass
        clus
vv       4Q LOSS MUTATED 4Q LOSS WILD-TYPE
  CLUS_1              87                59
  CLUS_2             126                63
  CLUS_3              43                33
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  4Q LOSS MUTATED       85     30     36    105
  4Q LOSS WILD-TYPE     58     24     24     49
D49V8, multiclass
        clus
vv       4Q LOSS MUTATED 4Q LOSS WILD-TYPE
  CLUS_1              85                58
  CLUS_2              30                24
  CLUS_3              36                24
  CLUS_4             105                49
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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       49     71     69
  4Q LOSS WILD-TYPE     30     38     43
D49V9, multiclass
        clus
vv       4Q LOSS MUTATED 4Q LOSS WILD-TYPE
  CLUS_1              49                30
  CLUS_2              71                38
  CLUS_3              69                43
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  4Q LOSS MUTATED       90     42     57
  4Q LOSS WILD-TYPE     56     17     38
D49V10, multiclass
        clus
vv       4Q LOSS MUTATED 4Q LOSS WILD-TYPE
  CLUS_1              90                56
  CLUS_2              42                17
  CLUS_3              57                38
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  4Q LOSS MUTATED       40     83     96     58
  4Q LOSS WILD-TYPE     31     52     45     42
D49V11, multiclass
        clus
vv       4Q LOSS MUTATED 4Q LOSS WILD-TYPE
  CLUS_1              40                31
  CLUS_2              83                52
  CLUS_3              96                45
  CLUS_4              58                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
  4Q LOSS MUTATED       61     42     98     76
  4Q LOSS WILD-TYPE     44     29     67     30
D49V12, multiclass
        clus
vv       4Q LOSS MUTATED 4Q LOSS WILD-TYPE
  CLUS_1              61                44
  CLUS_2              42                29
  CLUS_3              98                67
  CLUS_4              76                30
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  4Q LOSS MUTATED        6      4      2      4
  4Q LOSS WILD-TYPE      0      2      3      1
D49V13, multiclass
        clus
vv       4Q LOSS MUTATED 4Q LOSS WILD-TYPE
  CLUS_1               6                 0
  CLUS_2               4                 2
  CLUS_3               2                 3
  CLUS_4               4                 1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  4Q LOSS MUTATED        5      2      0      2      4      3
  4Q LOSS WILD-TYPE      0      0      2      2      1      1
D49V14, multiclass
        clus
vv       4Q LOSS MUTATED 4Q LOSS WILD-TYPE
  CLUS_1               5                 0
  CLUS_2               2                 0
  CLUS_3               0                 2
  CLUS_4               2                 2
  CLUS_5               4                 1
  CLUS_6               3                 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"

Clustering(50) Variable = 5P LOSS MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  5P LOSS MUTATED       53     24     24     29
  5P LOSS WILD-TYPE    123     88     94    122
D50V1, multiclass
        clus
vv       5P LOSS MUTATED 5P LOSS WILD-TYPE
  CLUS_1              53               123
  CLUS_2              24                88
  CLUS_3              24                94
  CLUS_4              29               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
  5P LOSS MUTATED       68     32     30
  5P LOSS WILD-TYPE    242    126     59
D50V2, multiclass
        clus
vv       5P LOSS MUTATED 5P LOSS WILD-TYPE
  CLUS_1              68               242
  CLUS_2              32               126
  CLUS_3              30                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
  5P LOSS MUTATED       42     31     57
  5P LOSS WILD-TYPE    139    100    186
D50V3, multiclass
        clus
vv       5P LOSS MUTATED 5P LOSS WILD-TYPE
  CLUS_1              42               139
  CLUS_2              31               100
  CLUS_3              57               186
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_10 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  5P LOSS MUTATED       18      12     12     16      4     16     11     10
  5P LOSS WILD-TYPE     67      45     46     66     30     59     23     26
                   vv
clus                CLUS_8 CLUS_9
  5P LOSS MUTATED       22      9
  5P LOSS WILD-TYPE     30     33
D50V4, multiclass
         clus
vv        5P LOSS MUTATED 5P LOSS WILD-TYPE
  CLUS_1               18                67
  CLUS_10              12                45
  CLUS_2               12                46
  CLUS_3               16                66
  CLUS_4                4                30
  CLUS_5               16                59
  CLUS_6               11                23
  CLUS_7               10                26
  CLUS_8               22                30
  CLUS_9                9                33
[1] 10  2
[1] TRUE
[1] "dimension of contingency table 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       75     22     37
  5P LOSS WILD-TYPE    167    108    170
D50V5, multiclass
        clus
vv       5P LOSS MUTATED 5P LOSS WILD-TYPE
  CLUS_1              75               167
  CLUS_2              22               108
  CLUS_3              37               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 CLUS_4
  5P LOSS MUTATED       22     22     33     54
  5P LOSS WILD-TYPE     91     76    154    116
D50V6, multiclass
        clus
vv       5P LOSS MUTATED 5P LOSS WILD-TYPE
  CLUS_1              22                91
  CLUS_2              22                76
  CLUS_3              33               154
  CLUS_4              54               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
  5P LOSS MUTATED       26     50     13
  5P LOSS WILD-TYPE    120    139     63
D50V7, multiclass
        clus
vv       5P LOSS MUTATED 5P LOSS WILD-TYPE
  CLUS_1              26               120
  CLUS_2              50               139
  CLUS_3              13                63
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger 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       26     11     11     41
  5P LOSS WILD-TYPE    117     43     49    113
D50V8, multiclass
        clus
vv       5P LOSS MUTATED 5P LOSS WILD-TYPE
  CLUS_1              26               117
  CLUS_2              11                43
  CLUS_3              11                49
  CLUS_4              41               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
  5P LOSS MUTATED       13     41     23
  5P LOSS WILD-TYPE     66     68     89
D50V9, multiclass
        clus
vv       5P LOSS MUTATED 5P LOSS WILD-TYPE
  CLUS_1              13                66
  CLUS_2              41                68
  CLUS_3              23                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
  5P LOSS MUTATED       35     25     17
  5P LOSS WILD-TYPE    111     34     78
D50V10, multiclass
        clus
vv       5P LOSS MUTATED 5P LOSS WILD-TYPE
  CLUS_1              35               111
  CLUS_2              25                34
  CLUS_3              17                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 CLUS_4
  5P LOSS MUTATED       18     33     37     24
  5P LOSS WILD-TYPE     53    102    104     76
D50V11, multiclass
        clus
vv       5P LOSS MUTATED 5P LOSS WILD-TYPE
  CLUS_1              18                53
  CLUS_2              33               102
  CLUS_3              37               104
  CLUS_4              24                76
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger 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     27     40     21
  5P LOSS WILD-TYPE     81     44    125     85
D50V12, multiclass
        clus
vv       5P LOSS MUTATED 5P LOSS WILD-TYPE
  CLUS_1              24                81
  CLUS_2              27                44
  CLUS_3              40               125
  CLUS_4              21                85
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger 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        0      1      0      1
  5P LOSS WILD-TYPE      6      5      5      4
D50V13, multiclass
[1] "Remove cluster labels:" "5P LOSS MUTATED"       
clus
  5P LOSS MUTATED 5P LOSS WILD-TYPE 
                2                20 
       TCGA-04-1652        TCGA-09-2050        TCGA-09-2054        TCGA-13-0908 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-23-2077        TCGA-24-1928        TCGA-24-2036        TCGA-24-2288 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-24-2289        TCGA-24-2290        TCGA-24-2297        TCGA-25-2392 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-25-2399        TCGA-25-2404        TCGA-57-1994        TCGA-61-1918 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-61-2088        TCGA-61-2098        TCGA-61-2109        TCGA-61-2111 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  5P LOSS MUTATED        0      0      0      1      0      1
  5P LOSS WILD-TYPE      5      2      2      3      5      3
D50V14, multiclass
[1] "Remove cluster labels:" "5P LOSS MUTATED"       
clus
  5P LOSS MUTATED 5P LOSS WILD-TYPE 
                2                20 
       TCGA-04-1652        TCGA-09-2050        TCGA-09-2054        TCGA-13-0908 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-23-2077        TCGA-24-1928        TCGA-24-2036        TCGA-24-2288 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-24-2289        TCGA-24-2290        TCGA-24-2297        TCGA-25-2392 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-25-2399        TCGA-25-2404        TCGA-57-1994        TCGA-61-1918 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-61-2088        TCGA-61-2098        TCGA-61-2109        TCGA-61-2111 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 

Clustering(51) Variable = 5Q LOSS MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  5Q LOSS MUTATED       93     37     38     51
  5Q LOSS WILD-TYPE     83     75     80    100
D51V1, multiclass
        clus
vv       5Q LOSS MUTATED 5Q LOSS WILD-TYPE
  CLUS_1              93                83
  CLUS_2              37                75
  CLUS_3              38                80
  CLUS_4              51               100
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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      115     54     50
  5Q LOSS WILD-TYPE    195    104     39
D51V2, multiclass
        clus
vv       5Q LOSS MUTATED 5Q LOSS WILD-TYPE
  CLUS_1             115               195
  CLUS_2              54               104
  CLUS_3              50                39
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  5Q LOSS MUTATED       70     45    104
  5Q LOSS WILD-TYPE    111     86    139
D51V3, multiclass
        clus
vv       5Q LOSS MUTATED 5Q LOSS WILD-TYPE
  CLUS_1              70               111
  CLUS_2              45                86
  CLUS_3             104               139
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_10 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  5Q LOSS MUTATED       30      20     23     28     14     24     22     15
  5Q LOSS WILD-TYPE     55      37     35     54     20     51     12     21
                   vv
clus                CLUS_8 CLUS_9
  5Q LOSS MUTATED       30     13
  5Q LOSS WILD-TYPE     22     29
D51V4, multiclass
         clus
vv        5Q LOSS MUTATED 5Q LOSS WILD-TYPE
  CLUS_1               30                55
  CLUS_10              20                37
  CLUS_2               23                35
  CLUS_3               28                54
  CLUS_4               14                20
  CLUS_5               24                51
  CLUS_6               22                12
  CLUS_7               15                21
  CLUS_8               30                22
  CLUS_9               13                29
[1] 10  2
[1] TRUE
[1] "dimension of contingency table 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      123     36     69
  5Q LOSS WILD-TYPE    119     94    138
D51V5, multiclass
        clus
vv       5Q LOSS MUTATED 5Q LOSS WILD-TYPE
  CLUS_1             123               119
  CLUS_2              36                94
  CLUS_3              69               138
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger 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       42     34     53     95
  5Q LOSS WILD-TYPE     71     64    134     75
D51V6, multiclass
        clus
vv       5Q LOSS MUTATED 5Q LOSS WILD-TYPE
  CLUS_1              42                71
  CLUS_2              34                64
  CLUS_3              53               134
  CLUS_4              95                75
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  5Q LOSS MUTATED       55     79     22
  5Q LOSS WILD-TYPE     91    110     54
D51V7, multiclass
        clus
vv       5Q LOSS MUTATED 5Q LOSS WILD-TYPE
  CLUS_1              55                91
  CLUS_2              79               110
  CLUS_3              22                54
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  5Q LOSS MUTATED       49     21     21     65
  5Q LOSS WILD-TYPE     94     33     39     89
D51V8, multiclass
        clus
vv       5Q LOSS MUTATED 5Q LOSS WILD-TYPE
  CLUS_1              49                94
  CLUS_2              21                33
  CLUS_3              21                39
  CLUS_4              65                89
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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       24     59     38
  5Q LOSS WILD-TYPE     55     50     74
D51V9, multiclass
        clus
vv       5Q LOSS MUTATED 5Q LOSS WILD-TYPE
  CLUS_1              24                55
  CLUS_2              59                50
  CLUS_3              38                74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       56     35     30
  5Q LOSS WILD-TYPE     90     24     65
D51V10, multiclass
        clus
vv       5Q LOSS MUTATED 5Q LOSS WILD-TYPE
  CLUS_1              56                90
  CLUS_2              35                24
  CLUS_3              30                65
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger 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       32     56     53     43
  5Q LOSS WILD-TYPE     39     79     88     57
D51V11, multiclass
        clus
vv       5Q LOSS MUTATED 5Q LOSS WILD-TYPE
  CLUS_1              32                39
  CLUS_2              56                79
  CLUS_3              53                88
  CLUS_4              43                57
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger 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       38     36     79     31
  5Q LOSS WILD-TYPE     67     35     86     75
D51V12, multiclass
        clus
vv       5Q LOSS MUTATED 5Q LOSS WILD-TYPE
  CLUS_1              38                67
  CLUS_2              36                35
  CLUS_3              79                86
  CLUS_4              31                75
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger 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        1      3      2      3
  5Q LOSS WILD-TYPE      5      3      3      2
D51V13, multiclass
        clus
vv       5Q LOSS MUTATED 5Q LOSS WILD-TYPE
  CLUS_1               1                 5
  CLUS_2               3                 3
  CLUS_3               2                 3
  CLUS_4               3                 2
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  5Q LOSS MUTATED        2      1      0      2      2      2
  5Q LOSS WILD-TYPE      3      1      2      2      3      2
D51V14, multiclass
        clus
vv       5Q LOSS MUTATED 5Q LOSS WILD-TYPE
  CLUS_1               2                 3
  CLUS_2               1                 1
  CLUS_3               0                 2
  CLUS_4               2                 2
  CLUS_5               2                 3
  CLUS_6               2                 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"

Clustering(52) Variable = 6P LOSS MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  6P LOSS MUTATED       41     34     41     39
  6P LOSS WILD-TYPE    135     78     77    112
D52V1, multiclass
        clus
vv       6P LOSS MUTATED 6P LOSS WILD-TYPE
  CLUS_1              41               135
  CLUS_2              34                78
  CLUS_3              41                77
  CLUS_4              39               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
  6P LOSS MUTATED       93     46     16
  6P LOSS WILD-TYPE    217    112     73
D52V2, multiclass
        clus
vv       6P LOSS MUTATED 6P LOSS WILD-TYPE
  CLUS_1              93               217
  CLUS_2              46               112
  CLUS_3              16                73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       59     32     65
  6P LOSS WILD-TYPE    122     99    178
D52V3, multiclass
        clus
vv       6P LOSS MUTATED 6P LOSS WILD-TYPE
  CLUS_1              59               122
  CLUS_2              32                99
  CLUS_3              65               178
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_10 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  6P LOSS MUTATED       28      16     18     21      9     22     12     13
  6P LOSS WILD-TYPE     57      41     40     61     25     53     22     23
                   vv
clus                CLUS_8 CLUS_9
  6P LOSS MUTATED        7     10
  6P LOSS WILD-TYPE     45     32
D52V4, multiclass
         clus
vv        6P LOSS MUTATED 6P LOSS WILD-TYPE
  CLUS_1               28                57
  CLUS_10              16                41
  CLUS_2               18                40
  CLUS_3               21                61
  CLUS_4                9                25
  CLUS_5               22                53
  CLUS_6               12                22
  CLUS_7               13                23
  CLUS_8                7                45
  CLUS_9               10                32
[1] 10  2
[1] TRUE
[1] "dimension of contingency table 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       67     42     52
  6P LOSS WILD-TYPE    175     88    155
D52V5, multiclass
        clus
vv       6P LOSS MUTATED 6P LOSS WILD-TYPE
  CLUS_1              67               175
  CLUS_2              42                88
  CLUS_3              52               155
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger 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       29     34     55     41
  6P LOSS WILD-TYPE     84     64    132    129
D52V6, multiclass
        clus
vv       6P LOSS MUTATED 6P LOSS WILD-TYPE
  CLUS_1              29                84
  CLUS_2              34                64
  CLUS_3              55               132
  CLUS_4              41               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
  6P LOSS MUTATED       35     58     20
  6P LOSS WILD-TYPE    111    131     56
D52V7, multiclass
        clus
vv       6P LOSS MUTATED 6P LOSS WILD-TYPE
  CLUS_1              35               111
  CLUS_2              58               131
  CLUS_3              20                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 CLUS_4
  6P LOSS MUTATED       40     11     18     44
  6P LOSS WILD-TYPE    103     43     42    110
D52V8, multiclass
        clus
vv       6P LOSS MUTATED 6P LOSS WILD-TYPE
  CLUS_1              40               103
  CLUS_2              11                43
  CLUS_3              18                42
  CLUS_4              44               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
  6P LOSS MUTATED       22     25     34
  6P LOSS WILD-TYPE     57     84     78
D52V9, multiclass
        clus
vv       6P LOSS MUTATED 6P LOSS WILD-TYPE
  CLUS_1              22                57
  CLUS_2              25                84
  CLUS_3              34                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
  6P LOSS MUTATED       44      9     28
  6P LOSS WILD-TYPE    102     50     67
D52V10, multiclass
        clus
vv       6P LOSS MUTATED 6P LOSS WILD-TYPE
  CLUS_1              44               102
  CLUS_2               9                50
  CLUS_3              28                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
  6P LOSS MUTATED       15     40     38     34
  6P LOSS WILD-TYPE     56     95    103     66
D52V11, multiclass
        clus
vv       6P LOSS MUTATED 6P LOSS WILD-TYPE
  CLUS_1              15                56
  CLUS_2              40                95
  CLUS_3              38               103
  CLUS_4              34                66
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger 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       33     11     51     32
  6P LOSS WILD-TYPE     72     60    114     74
D52V12, multiclass
        clus
vv       6P LOSS MUTATED 6P LOSS WILD-TYPE
  CLUS_1              33                72
  CLUS_2              11                60
  CLUS_3              51               114
  CLUS_4              32                74
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger 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        1      0      2      0
  6P LOSS WILD-TYPE      5      6      3      5
D52V13, multiclass
        clus
vv       6P LOSS MUTATED 6P LOSS WILD-TYPE
  CLUS_1               1                 5
  CLUS_2               0                 6
  CLUS_3               2                 3
  CLUS_4               0                 5
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  6P LOSS MUTATED        1      0      1      0      1      0
  6P LOSS WILD-TYPE      4      2      1      4      4      4
D52V14, multiclass
        clus
vv       6P LOSS MUTATED 6P LOSS WILD-TYPE
  CLUS_1               1                 4
  CLUS_2               0                 2
  CLUS_3               1                 1
  CLUS_4               0                 4
  CLUS_5               1                 4
  CLUS_6               0                 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"

Clustering(53) Variable = 6Q LOSS MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  6Q LOSS MUTATED       67     50     56     59
  6Q LOSS WILD-TYPE    109     62     62     92
D53V1, multiclass
        clus
vv       6Q LOSS MUTATED 6Q LOSS WILD-TYPE
  CLUS_1              67               109
  CLUS_2              50                62
  CLUS_3              56                62
  CLUS_4              59                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
  6Q LOSS MUTATED      132     71     29
  6Q LOSS WILD-TYPE    178     87     60
D53V2, multiclass
        clus
vv       6Q LOSS MUTATED 6Q LOSS WILD-TYPE
  CLUS_1             132               178
  CLUS_2              71                87
  CLUS_3              29                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
  6Q LOSS MUTATED       78     60     95
  6Q LOSS WILD-TYPE    103     71    148
D53V3, multiclass
        clus
vv       6Q LOSS MUTATED 6Q LOSS WILD-TYPE
  CLUS_1              78               103
  CLUS_2              60                71
  CLUS_3              95               148
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_10 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  6Q LOSS MUTATED       39      29     27     28     10     39     16     17
  6Q LOSS WILD-TYPE     46      28     31     54     24     36     18     19
                   vv
clus                CLUS_8 CLUS_9
  6Q LOSS MUTATED       13     15
  6Q LOSS WILD-TYPE     39     27
D53V4, multiclass
         clus
vv        6Q LOSS MUTATED 6Q LOSS WILD-TYPE
  CLUS_1               39                46
  CLUS_10              29                28
  CLUS_2               27                31
  CLUS_3               28                54
  CLUS_4               10                24
  CLUS_5               39                36
  CLUS_6               16                18
  CLUS_7               17                19
  CLUS_8               13                39
  CLUS_9               15                27
[1] 10  2
[1] TRUE
[1] "dimension of contingency table 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       93     58     89
  6Q LOSS WILD-TYPE    149     72    118
D53V5, multiclass
        clus
vv       6Q LOSS MUTATED 6Q LOSS WILD-TYPE
  CLUS_1              93               149
  CLUS_2              58                72
  CLUS_3              89               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
  6Q LOSS MUTATED       38     45     89     65
  6Q LOSS WILD-TYPE     75     53     98    105
D53V6, multiclass
        clus
vv       6Q LOSS MUTATED 6Q LOSS WILD-TYPE
  CLUS_1              38                75
  CLUS_2              45                53
  CLUS_3              89                98
  CLUS_4              65               105
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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       55     82     29
  6Q LOSS WILD-TYPE     91    107     47
D53V7, multiclass
        clus
vv       6Q LOSS MUTATED 6Q LOSS WILD-TYPE
  CLUS_1              55                91
  CLUS_2              82               107
  CLUS_3              29                47
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  6Q LOSS MUTATED       60     22     26     58
  6Q LOSS WILD-TYPE     83     32     34     96
D53V8, multiclass
        clus
vv       6Q LOSS MUTATED 6Q LOSS WILD-TYPE
  CLUS_1              60                83
  CLUS_2              22                32
  CLUS_3              26                34
  CLUS_4              58                96
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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       32     36     53
  6Q LOSS WILD-TYPE     47     73     59
D53V9, multiclass
        clus
vv       6Q LOSS MUTATED 6Q LOSS WILD-TYPE
  CLUS_1              32                47
  CLUS_2              36                73
  CLUS_3              53                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
  6Q LOSS MUTATED       60     15     46
  6Q LOSS WILD-TYPE     86     44     49
D53V10, multiclass
        clus
vv       6Q LOSS MUTATED 6Q LOSS WILD-TYPE
  CLUS_1              60                86
  CLUS_2              15                44
  CLUS_3              46                49
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  6Q LOSS MUTATED       28     55     62     40
  6Q LOSS WILD-TYPE     43     80     79     60
D53V11, multiclass
        clus
vv       6Q LOSS MUTATED 6Q LOSS WILD-TYPE
  CLUS_1              28                43
  CLUS_2              55                80
  CLUS_3              62                79
  CLUS_4              40                60
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger 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       46     25     67     47
  6Q LOSS WILD-TYPE     59     46     98     59
D53V12, multiclass
        clus
vv       6Q LOSS MUTATED 6Q LOSS WILD-TYPE
  CLUS_1              46                59
  CLUS_2              25                46
  CLUS_3              67                98
  CLUS_4              47                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
  6Q LOSS MUTATED        3      0      1      0
  6Q LOSS WILD-TYPE      3      6      4      5
D53V13, multiclass
        clus
vv       6Q LOSS MUTATED 6Q LOSS WILD-TYPE
  CLUS_1               3                 3
  CLUS_2               0                 6
  CLUS_3               1                 4
  CLUS_4               0                 5
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  6Q LOSS MUTATED        2      0      1      0      1      0
  6Q LOSS WILD-TYPE      3      2      1      4      4      4
D53V14, multiclass
        clus
vv       6Q LOSS MUTATED 6Q LOSS WILD-TYPE
  CLUS_1               2                 3
  CLUS_2               0                 2
  CLUS_3               1                 1
  CLUS_4               0                 4
  CLUS_5               1                 4
  CLUS_6               0                 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"

Clustering(54) Variable = 7P LOSS MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  7P LOSS MUTATED       41     23     14     40
  7P LOSS WILD-TYPE    135     89    104    111
D54V1, multiclass
        clus
vv       7P LOSS MUTATED 7P LOSS WILD-TYPE
  CLUS_1              41               135
  CLUS_2              23                89
  CLUS_3              14               104
  CLUS_4              40               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
  7P LOSS MUTATED       62     38     18
  7P LOSS WILD-TYPE    248    120     71
D54V2, multiclass
        clus
vv       7P LOSS MUTATED 7P LOSS WILD-TYPE
  CLUS_1              62               248
  CLUS_2              38               120
  CLUS_3              18                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
  7P LOSS MUTATED       41     31     45
  7P LOSS WILD-TYPE    140    100    198
D54V3, multiclass
        clus
vv       7P LOSS MUTATED 7P LOSS WILD-TYPE
  CLUS_1              41               140
  CLUS_2              31               100
  CLUS_3              45               198
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_10 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  7P LOSS MUTATED       17      12     14     17      7     14      4      8
  7P LOSS WILD-TYPE     68      45     44     65     27     61     30     28
                   vv
clus                CLUS_8 CLUS_9
  7P LOSS MUTATED       10     14
  7P LOSS WILD-TYPE     42     28
D54V4, multiclass
         clus
vv        7P LOSS MUTATED 7P LOSS WILD-TYPE
  CLUS_1               17                68
  CLUS_10              12                45
  CLUS_2               14                44
  CLUS_3               17                65
  CLUS_4                7                27
  CLUS_5               14                61
  CLUS_6                4                30
  CLUS_7                8                28
  CLUS_8               10                42
  CLUS_9               14                28
[1] 10  2
[1] TRUE
[1] "dimension of contingency table 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 LOSS MUTATED       52     22     48
  7P LOSS WILD-TYPE    190    108    159
D54V5, multiclass
        clus
vv       7P LOSS MUTATED 7P LOSS WILD-TYPE
  CLUS_1              52               190
  CLUS_2              22               108
  CLUS_3              48               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 CLUS_4
  7P LOSS MUTATED       26     24     39     31
  7P LOSS WILD-TYPE     87     74    148    139
D54V6, multiclass
        clus
vv       7P LOSS MUTATED 7P LOSS WILD-TYPE
  CLUS_1              26                87
  CLUS_2              24                74
  CLUS_3              39               148
  CLUS_4              31               139
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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 LOSS MUTATED       27     45     16
  7P LOSS WILD-TYPE    119    144     60
D54V7, multiclass
        clus
vv       7P LOSS MUTATED 7P LOSS WILD-TYPE
  CLUS_1              27               119
  CLUS_2              45               144
  CLUS_3              16                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
  7P LOSS MUTATED       30     13     14     31
  7P LOSS WILD-TYPE    113     41     46    123
D54V8, multiclass
        clus
vv       7P LOSS MUTATED 7P LOSS WILD-TYPE
  CLUS_1              30               113
  CLUS_2              13                41
  CLUS_3              14                46
  CLUS_4              31               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
  7P LOSS MUTATED       14     28     36
  7P LOSS WILD-TYPE     65     81     76
D54V9, multiclass
        clus
vv       7P LOSS MUTATED 7P LOSS WILD-TYPE
  CLUS_1              14                65
  CLUS_2              28                81
  CLUS_3              36                76
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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 LOSS MUTATED       32     16     30
  7P LOSS WILD-TYPE    114     43     65
D54V10, multiclass
        clus
vv       7P LOSS MUTATED 7P LOSS WILD-TYPE
  CLUS_1              32               114
  CLUS_2              16                43
  CLUS_3              30                65
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger 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 LOSS MUTATED       16     30     30     24
  7P LOSS WILD-TYPE     55    105    111     76
D54V11, multiclass
        clus
vv       7P LOSS MUTATED 7P LOSS WILD-TYPE
  CLUS_1              16                55
  CLUS_2              30               105
  CLUS_3              30               111
  CLUS_4              24                76
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger 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 LOSS MUTATED       26     14     37     23
  7P LOSS WILD-TYPE     79     57    128     83
D54V12, multiclass
        clus
vv       7P LOSS MUTATED 7P LOSS WILD-TYPE
  CLUS_1              26                79
  CLUS_2              14                57
  CLUS_3              37               128
  CLUS_4              23                83
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger 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 LOSS MUTATED        1      1      1      1
  7P LOSS WILD-TYPE      5      5      4      4
D54V13, multiclass
        clus
vv       7P LOSS MUTATED 7P LOSS WILD-TYPE
  CLUS_1               1                 5
  CLUS_2               1                 5
  CLUS_3               1                 4
  CLUS_4               1                 4
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  7P LOSS MUTATED        1      0      1      1      0      1
  7P LOSS WILD-TYPE      4      2      1      3      5      3
D54V14, multiclass
        clus
vv       7P LOSS MUTATED 7P LOSS WILD-TYPE
  CLUS_1               1                 4
  CLUS_2               0                 2
  CLUS_3               1                 1
  CLUS_4               1                 3
  CLUS_5               0                 5
  CLUS_6               1                 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"

Clustering(55) Variable = 7Q LOSS MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  7Q LOSS MUTATED       29     18      7     25
  7Q LOSS WILD-TYPE    147     94    111    126
D55V1, multiclass
        clus
vv       7Q LOSS MUTATED 7Q LOSS WILD-TYPE
  CLUS_1              29               147
  CLUS_2              18                94
  CLUS_3               7               111
  CLUS_4              25               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
  7Q LOSS MUTATED       36     29     14
  7Q LOSS WILD-TYPE    274    129     75
D55V2, multiclass
        clus
vv       7Q LOSS MUTATED 7Q LOSS WILD-TYPE
  CLUS_1              36               274
  CLUS_2              29               129
  CLUS_3              14                75
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       24     21     34
  7Q LOSS WILD-TYPE    157    110    209
D55V3, multiclass
        clus
vv       7Q LOSS MUTATED 7Q LOSS WILD-TYPE
  CLUS_1              24               157
  CLUS_2              21               110
  CLUS_3              34               209
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_10 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  7Q LOSS MUTATED        9       8     11      9      5     12      1      4
  7Q LOSS WILD-TYPE     76      49     47     73     29     63     33     32
                   vv
clus                CLUS_8 CLUS_9
  7Q LOSS MUTATED       10     10
  7Q LOSS WILD-TYPE     42     32
D55V4, multiclass
         clus
vv        7Q LOSS MUTATED 7Q LOSS WILD-TYPE
  CLUS_1                9                76
  CLUS_10               8                49
  CLUS_2               11                47
  CLUS_3                9                73
  CLUS_4                5                29
  CLUS_5               12                63
  CLUS_6                1                33
  CLUS_7                4                32
  CLUS_8               10                42
  CLUS_9               10                32
[1] 10  2
[1] TRUE
[1] "dimension of contingency table 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       37     15     27
  7Q LOSS WILD-TYPE    205    115    180
D55V5, multiclass
        clus
vv       7Q LOSS MUTATED 7Q LOSS WILD-TYPE
  CLUS_1              37               205
  CLUS_2              15               115
  CLUS_3              27               180
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  7Q LOSS MUTATED       18     16     23     22
  7Q LOSS WILD-TYPE     95     82    164    148
D55V6, multiclass
        clus
vv       7Q LOSS MUTATED 7Q LOSS WILD-TYPE
  CLUS_1              18                95
  CLUS_2              16                82
  CLUS_3              23               164
  CLUS_4              22               148
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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       18     28     11
  7Q LOSS WILD-TYPE    128    161     65
D55V7, multiclass
        clus
vv       7Q LOSS MUTATED 7Q LOSS WILD-TYPE
  CLUS_1              18               128
  CLUS_2              28               161
  CLUS_3              11                65
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  7Q LOSS MUTATED       18      9     12     18
  7Q LOSS WILD-TYPE    125     45     48    136
D55V8, multiclass
        clus
vv       7Q LOSS MUTATED 7Q LOSS WILD-TYPE
  CLUS_1              18               125
  CLUS_2               9                45
  CLUS_3              12                48
  CLUS_4              18               136
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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       11     22     25
  7Q LOSS WILD-TYPE     68     87     87
D55V9, multiclass
        clus
vv       7Q LOSS MUTATED 7Q LOSS WILD-TYPE
  CLUS_1              11                68
  CLUS_2              22                87
  CLUS_3              25                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
  7Q LOSS MUTATED       20     14     24
  7Q LOSS WILD-TYPE    126     45     71
D55V10, multiclass
        clus
vv       7Q LOSS MUTATED 7Q LOSS WILD-TYPE
  CLUS_1              20               126
  CLUS_2              14                45
  CLUS_3              24                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
  7Q LOSS MUTATED       13     19     24     13
  7Q LOSS WILD-TYPE     58    116    117     87
D55V11, multiclass
        clus
vv       7Q LOSS MUTATED 7Q LOSS WILD-TYPE
  CLUS_1              13                58
  CLUS_2              19               116
  CLUS_3              24               117
  CLUS_4              13                87
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  7Q LOSS MUTATED       14     11     28     16
  7Q LOSS WILD-TYPE     91     60    137     90
D55V12, multiclass
        clus
vv       7Q LOSS MUTATED 7Q LOSS WILD-TYPE
  CLUS_1              14                91
  CLUS_2              11                60
  CLUS_3              28               137
  CLUS_4              16                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
  7Q LOSS MUTATED        1      1      0      1
  7Q LOSS WILD-TYPE      5      5      5      4
D55V13, multiclass
        clus
vv       7Q LOSS MUTATED 7Q LOSS WILD-TYPE
  CLUS_1               1                 5
  CLUS_2               1                 5
  CLUS_3               0                 5
  CLUS_4               1                 4
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  7Q LOSS MUTATED        1      0      0      1      0      1
  7Q LOSS WILD-TYPE      4      2      2      3      5      3
D55V14, multiclass
        clus
vv       7Q LOSS MUTATED 7Q LOSS WILD-TYPE
  CLUS_1               1                 4
  CLUS_2               0                 2
  CLUS_3               0                 2
  CLUS_4               1                 3
  CLUS_5               0                 5
  CLUS_6               1                 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"

Clustering(56) Variable = 8P LOSS MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  8P LOSS MUTATED       77     55     52     75
  8P LOSS WILD-TYPE     99     57     66     76
D56V1, multiclass
        clus
vv       8P LOSS MUTATED 8P LOSS WILD-TYPE
  CLUS_1              77                99
  CLUS_2              55                57
  CLUS_3              52                66
  CLUS_4              75                76
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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      140     77     42
  8P LOSS WILD-TYPE    170     81     47
D56V2, multiclass
        clus
vv       8P LOSS MUTATED 8P LOSS WILD-TYPE
  CLUS_1             140               170
  CLUS_2              77                81
  CLUS_3              42                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
  8P LOSS MUTATED       83     70    106
  8P LOSS WILD-TYPE     98     61    137
D56V3, multiclass
        clus
vv       8P LOSS MUTATED 8P LOSS WILD-TYPE
  CLUS_1              83                98
  CLUS_2              70                61
  CLUS_3             106               137
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_10 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  8P LOSS MUTATED       39      25     28     32     19     39     14     18
  8P LOSS WILD-TYPE     46      32     30     50     15     36     20     18
                   vv
clus                CLUS_8 CLUS_9
  8P LOSS MUTATED       24     21
  8P LOSS WILD-TYPE     28     21
D56V4, multiclass
         clus
vv        8P LOSS MUTATED 8P LOSS WILD-TYPE
  CLUS_1               39                46
  CLUS_10              25                32
  CLUS_2               28                30
  CLUS_3               32                50
  CLUS_4               19                15
  CLUS_5               39                36
  CLUS_6               14                20
  CLUS_7               18                18
  CLUS_8               24                28
  CLUS_9               21                21
[1] 10  2
[1] TRUE
[1] "dimension of contingency table 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      123     51     98
  8P LOSS WILD-TYPE    119     79    109
D56V5, multiclass
        clus
vv       8P LOSS MUTATED 8P LOSS WILD-TYPE
  CLUS_1             123               119
  CLUS_2              51                79
  CLUS_3              98               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
  8P LOSS MUTATED       54     46     70     96
  8P LOSS WILD-TYPE     59     52    117     74
D56V6, multiclass
        clus
vv       8P LOSS MUTATED 8P LOSS WILD-TYPE
  CLUS_1              54                59
  CLUS_2              46                52
  CLUS_3              70               117
  CLUS_4              96                74
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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       73     96     28
  8P LOSS WILD-TYPE     73     93     48
D56V7, multiclass
        clus
vv       8P LOSS MUTATED 8P LOSS WILD-TYPE
  CLUS_1              73                73
  CLUS_2              96                93
  CLUS_3              28                48
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  8P LOSS MUTATED       73     21     32     71
  8P LOSS WILD-TYPE     70     33     28     83
D56V8, multiclass
        clus
vv       8P LOSS MUTATED 8P LOSS WILD-TYPE
  CLUS_1              73                70
  CLUS_2              21                33
  CLUS_3              32                28
  CLUS_4              71                83
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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       38     55     56
  8P LOSS WILD-TYPE     41     54     56
D56V9, multiclass
        clus
vv       8P LOSS MUTATED 8P LOSS WILD-TYPE
  CLUS_1              38                41
  CLUS_2              55                54
  CLUS_3              56                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
  8P LOSS MUTATED       74     31     44
  8P LOSS WILD-TYPE     72     28     51
D56V10, multiclass
        clus
vv       8P LOSS MUTATED 8P LOSS WILD-TYPE
  CLUS_1              74                72
  CLUS_2              31                28
  CLUS_3              44                51
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  8P LOSS MUTATED       30     64     67     43
  8P LOSS WILD-TYPE     41     71     74     57
D56V11, multiclass
        clus
vv       8P LOSS MUTATED 8P LOSS WILD-TYPE
  CLUS_1              30                41
  CLUS_2              64                71
  CLUS_3              67                74
  CLUS_4              43                57
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger 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       35     37     80     52
  8P LOSS WILD-TYPE     70     34     85     54
D56V12, multiclass
        clus
vv       8P LOSS MUTATED 8P LOSS WILD-TYPE
  CLUS_1              35                70
  CLUS_2              37                34
  CLUS_3              80                85
  CLUS_4              52                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
  8P LOSS MUTATED        5      4      3      2
  8P LOSS WILD-TYPE      1      2      2      3
D56V13, multiclass
        clus
vv       8P LOSS MUTATED 8P LOSS WILD-TYPE
  CLUS_1               5                 1
  CLUS_2               4                 2
  CLUS_3               3                 2
  CLUS_4               2                 3
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  8P LOSS MUTATED        4      2      1      2      3      2
  8P LOSS WILD-TYPE      1      0      1      2      2      2
D56V14, multiclass
        clus
vv       8P LOSS MUTATED 8P LOSS WILD-TYPE
  CLUS_1               4                 1
  CLUS_2               2                 0
  CLUS_3               1                 1
  CLUS_4               2                 2
  CLUS_5               3                 2
  CLUS_6               2                 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"

Clustering(57) Variable = 8Q LOSS MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  8Q LOSS MUTATED       39     12     17     18
  8Q LOSS WILD-TYPE    137    100    101    133
D57V1, multiclass
        clus
vv       8Q LOSS MUTATED 8Q LOSS WILD-TYPE
  CLUS_1              39               137
  CLUS_2              12               100
  CLUS_3              17               101
  CLUS_4              18               133
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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       42     19     25
  8Q LOSS WILD-TYPE    268    139     64
D57V2, multiclass
        clus
vv       8Q LOSS MUTATED 8Q LOSS WILD-TYPE
  CLUS_1              42               268
  CLUS_2              19               139
  CLUS_3              25                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
  8Q LOSS MUTATED       25     18     43
  8Q LOSS WILD-TYPE    156    113    200
D57V3, multiclass
        clus
vv       8Q LOSS MUTATED 8Q LOSS WILD-TYPE
  CLUS_1              25               156
  CLUS_2              18               113
  CLUS_3              43               200
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_10 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  8Q LOSS MUTATED       10       5     13     10      5      9      7      6
  8Q LOSS WILD-TYPE     75      52     45     72     29     66     27     30
                   vv
clus                CLUS_8 CLUS_9
  8Q LOSS MUTATED       14      7
  8Q LOSS WILD-TYPE     38     35
D57V4, multiclass
         clus
vv        8Q LOSS MUTATED 8Q LOSS WILD-TYPE
  CLUS_1               10                75
  CLUS_10               5                52
  CLUS_2               13                45
  CLUS_3               10                72
  CLUS_4                5                29
  CLUS_5                9                66
  CLUS_6                7                27
  CLUS_7                6                30
  CLUS_8               14                38
  CLUS_9                7                35
[1] 10  2
[1] TRUE
[1] "dimension of contingency table 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       53     13     25
  8Q LOSS WILD-TYPE    189    117    182
D57V5, multiclass
        clus
vv       8Q LOSS MUTATED 8Q LOSS WILD-TYPE
  CLUS_1              53               189
  CLUS_2              13               117
  CLUS_3              25               182
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger 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       12     23     19     35
  8Q LOSS WILD-TYPE    101     75    168    135
D57V6, multiclass
        clus
vv       8Q LOSS MUTATED 8Q LOSS WILD-TYPE
  CLUS_1              12               101
  CLUS_2              23                75
  CLUS_3              19               168
  CLUS_4              35               135
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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       22     34      7
  8Q LOSS WILD-TYPE    124    155     69
D57V7, multiclass
        clus
vv       8Q LOSS MUTATED 8Q LOSS WILD-TYPE
  CLUS_1              22               124
  CLUS_2              34               155
  CLUS_3               7                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
  8Q LOSS MUTATED       19      5     10     29
  8Q LOSS WILD-TYPE    124     49     50    125
D57V8, multiclass
        clus
vv       8Q LOSS MUTATED 8Q LOSS WILD-TYPE
  CLUS_1              19               124
  CLUS_2               5                49
  CLUS_3              10                50
  CLUS_4              29               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
  8Q LOSS MUTATED        7     27     15
  8Q LOSS WILD-TYPE     72     82     97
D57V9, multiclass
        clus
vv       8Q LOSS MUTATED 8Q LOSS WILD-TYPE
  CLUS_1               7                72
  CLUS_2              27                82
  CLUS_3              15                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
  8Q LOSS MUTATED       18     19     12
  8Q LOSS WILD-TYPE    128     40     83
D57V10, multiclass
        clus
vv       8Q LOSS MUTATED 8Q LOSS WILD-TYPE
  CLUS_1              18               128
  CLUS_2              19                40
  CLUS_3              12                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 CLUS_4
  8Q LOSS MUTATED        8     20     25     15
  8Q LOSS WILD-TYPE     63    115    116     85
D57V11, multiclass
        clus
vv       8Q LOSS MUTATED 8Q LOSS WILD-TYPE
  CLUS_1               8                63
  CLUS_2              20               115
  CLUS_3              25               116
  CLUS_4              15                85
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger 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        8     18     27     15
  8Q LOSS WILD-TYPE     97     53    138     91
D57V12, multiclass
        clus
vv       8Q LOSS MUTATED 8Q LOSS WILD-TYPE
  CLUS_1               8                97
  CLUS_2              18                53
  CLUS_3              27               138
  CLUS_4              15                91
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  8Q LOSS MUTATED        2      2      1      2
  8Q LOSS WILD-TYPE      4      4      4      3
D57V13, multiclass
        clus
vv       8Q LOSS MUTATED 8Q LOSS WILD-TYPE
  CLUS_1               2                 4
  CLUS_2               2                 4
  CLUS_3               1                 4
  CLUS_4               2                 3
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  8Q LOSS MUTATED        2      2      0      0      2      1
  8Q LOSS WILD-TYPE      3      0      2      4      3      3
D57V14, multiclass
        clus
vv       8Q LOSS MUTATED 8Q LOSS WILD-TYPE
  CLUS_1               2                 3
  CLUS_2               2                 0
  CLUS_3               0                 2
  CLUS_4               0                 4
  CLUS_5               2                 3
  CLUS_6               1                 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"

Clustering(58) Variable = 9P LOSS MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  9P LOSS MUTATED       91     60     49     50
  9P LOSS WILD-TYPE     85     52     69    101
D58V1, multiclass
        clus
vv       9P LOSS MUTATED 9P LOSS WILD-TYPE
  CLUS_1              91                85
  CLUS_2              60                52
  CLUS_3              49                69
  CLUS_4              50               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
  9P LOSS MUTATED      126     70     54
  9P LOSS WILD-TYPE    184     88     35
D58V2, multiclass
        clus
vv       9P LOSS MUTATED 9P LOSS WILD-TYPE
  CLUS_1             126               184
  CLUS_2              70                88
  CLUS_3              54                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 LOSS MUTATED       80     67    102
  9P LOSS WILD-TYPE    101     64    141
D58V3, multiclass
        clus
vv       9P LOSS MUTATED 9P LOSS WILD-TYPE
  CLUS_1              80               101
  CLUS_2              67                64
  CLUS_3             102               141
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_10 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  9P LOSS MUTATED       35      26     33     29     17     28     15     15
  9P LOSS WILD-TYPE     50      31     25     53     17     47     19     21
                   vv
clus                CLUS_8 CLUS_9
  9P LOSS MUTATED       31     20
  9P LOSS WILD-TYPE     21     22
D58V4, multiclass
         clus
vv        9P LOSS MUTATED 9P LOSS WILD-TYPE
  CLUS_1               35                50
  CLUS_10              26                31
  CLUS_2               33                25
  CLUS_3               29                53
  CLUS_4               17                17
  CLUS_5               28                47
  CLUS_6               15                19
  CLUS_7               15                21
  CLUS_8               31                21
  CLUS_9               20                22
[1] 10  2
[1] TRUE
[1] "dimension of contingency table 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      122     62     80
  9P LOSS WILD-TYPE    120     68    127
D58V5, multiclass
        clus
vv       9P LOSS MUTATED 9P LOSS WILD-TYPE
  CLUS_1             122               120
  CLUS_2              62                68
  CLUS_3              80               127
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger 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       59     54     63     81
  9P LOSS WILD-TYPE     54     44    124     89
D58V6, multiclass
        clus
vv       9P LOSS MUTATED 9P LOSS WILD-TYPE
  CLUS_1              59                54
  CLUS_2              54                44
  CLUS_3              63               124
  CLUS_4              81                89
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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       65     79     32
  9P LOSS WILD-TYPE     81    110     44
D58V7, multiclass
        clus
vv       9P LOSS MUTATED 9P LOSS WILD-TYPE
  CLUS_1              65                81
  CLUS_2              79               110
  CLUS_3              32                44
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  9P LOSS MUTATED       68     23     19     66
  9P LOSS WILD-TYPE     75     31     41     88
D58V8, multiclass
        clus
vv       9P LOSS MUTATED 9P LOSS WILD-TYPE
  CLUS_1              68                75
  CLUS_2              23                31
  CLUS_3              19                41
  CLUS_4              66                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
  9P LOSS MUTATED       28     52     53
  9P LOSS WILD-TYPE     51     57     59
D58V9, multiclass
        clus
vv       9P LOSS MUTATED 9P LOSS WILD-TYPE
  CLUS_1              28                51
  CLUS_2              52                57
  CLUS_3              53                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
  9P LOSS MUTATED       56     32     45
  9P LOSS WILD-TYPE     90     27     50
D58V10, multiclass
        clus
vv       9P LOSS MUTATED 9P LOSS WILD-TYPE
  CLUS_1              56                90
  CLUS_2              32                27
  CLUS_3              45                50
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  9P LOSS MUTATED       38     53     71     40
  9P LOSS WILD-TYPE     33     82     70     60
D58V11, multiclass
        clus
vv       9P LOSS MUTATED 9P LOSS WILD-TYPE
  CLUS_1              38                33
  CLUS_2              53                82
  CLUS_3              71                70
  CLUS_4              40                60
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger 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       40     34     73     55
  9P LOSS WILD-TYPE     65     37     92     51
D58V12, multiclass
        clus
vv       9P LOSS MUTATED 9P LOSS WILD-TYPE
  CLUS_1              40                65
  CLUS_2              34                37
  CLUS_3              73                92
  CLUS_4              55                51
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger 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        4      4      2      2
  9P LOSS WILD-TYPE      2      2      3      3
D58V13, multiclass
        clus
vv       9P LOSS MUTATED 9P LOSS WILD-TYPE
  CLUS_1               4                 2
  CLUS_2               4                 2
  CLUS_3               2                 3
  CLUS_4               2                 3
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  9P LOSS MUTATED        3      1      2      3      0      3
  9P LOSS WILD-TYPE      2      1      0      1      5      1
D58V14, multiclass
        clus
vv       9P LOSS MUTATED 9P LOSS WILD-TYPE
  CLUS_1               3                 2
  CLUS_2               1                 1
  CLUS_3               2                 0
  CLUS_4               3                 1
  CLUS_5               0                 5
  CLUS_6               3                 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"

Clustering(59) Variable = 9Q LOSS MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  9Q LOSS MUTATED       99     57     55     61
  9Q LOSS WILD-TYPE     77     55     63     90
D59V1, multiclass
        clus
vv       9Q LOSS MUTATED 9Q LOSS WILD-TYPE
  CLUS_1              99                77
  CLUS_2              57                55
  CLUS_3              55                63
  CLUS_4              61                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
  9Q LOSS MUTATED      144     71     57
  9Q LOSS WILD-TYPE    166     87     32
D59V2, multiclass
        clus
vv       9Q LOSS MUTATED 9Q LOSS WILD-TYPE
  CLUS_1             144               166
  CLUS_2              71                87
  CLUS_3              57                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
  9Q LOSS MUTATED       81     73    118
  9Q LOSS WILD-TYPE    100     58    125
D59V3, multiclass
        clus
vv       9Q LOSS MUTATED 9Q LOSS WILD-TYPE
  CLUS_1              81               100
  CLUS_2              73                58
  CLUS_3             118               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_10 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  9Q LOSS MUTATED       31      30     35     33     21     33     21     18
  9Q LOSS WILD-TYPE     54      27     23     49     13     42     13     18
                   vv
clus                CLUS_8 CLUS_9
  9Q LOSS MUTATED       31     19
  9Q LOSS WILD-TYPE     21     23
D59V4, multiclass
         clus
vv        9Q LOSS MUTATED 9Q LOSS WILD-TYPE
  CLUS_1               31                54
  CLUS_10              30                27
  CLUS_2               35                23
  CLUS_3               33                49
  CLUS_4               21                13
  CLUS_5               33                42
  CLUS_6               21                13
  CLUS_7               18                18
  CLUS_8               31                21
  CLUS_9               19                23
[1] 10  2
[1] TRUE
[1] "dimension of contingency table 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      153     62     72
  9Q LOSS WILD-TYPE     89     68    135
D59V5, multiclass
        clus
vv       9Q LOSS MUTATED 9Q LOSS WILD-TYPE
  CLUS_1             153                89
  CLUS_2              62                68
  CLUS_3              72               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 CLUS_4
  9Q LOSS MUTATED       63     55     59    103
  9Q LOSS WILD-TYPE     50     43    128     67
D59V6, multiclass
        clus
vv       9Q LOSS MUTATED 9Q LOSS WILD-TYPE
  CLUS_1              63                50
  CLUS_2              55                43
  CLUS_3              59               128
  CLUS_4             103                67
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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       70     91     32
  9Q LOSS WILD-TYPE     76     98     44
D59V7, multiclass
        clus
vv       9Q LOSS MUTATED 9Q LOSS WILD-TYPE
  CLUS_1              70                76
  CLUS_2              91                98
  CLUS_3              32                44
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  9Q LOSS MUTATED       65     30     26     72
  9Q LOSS WILD-TYPE     78     24     34     82
D59V8, multiclass
        clus
vv       9Q LOSS MUTATED 9Q LOSS WILD-TYPE
  CLUS_1              65                78
  CLUS_2              30                24
  CLUS_3              26                34
  CLUS_4              72                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
  9Q LOSS MUTATED       27     64     51
  9Q LOSS WILD-TYPE     52     45     61
D59V9, multiclass
        clus
vv       9Q LOSS MUTATED 9Q LOSS WILD-TYPE
  CLUS_1              27                52
  CLUS_2              64                45
  CLUS_3              51                61
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       59     40     43
  9Q LOSS WILD-TYPE     87     19     52
D59V10, multiclass
        clus
vv       9Q LOSS MUTATED 9Q LOSS WILD-TYPE
  CLUS_1              59                87
  CLUS_2              40                19
  CLUS_3              43                52
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  9Q LOSS MUTATED       36     64     74     44
  9Q LOSS WILD-TYPE     35     71     67     56
D59V11, multiclass
        clus
vv       9Q LOSS MUTATED 9Q LOSS WILD-TYPE
  CLUS_1              36                35
  CLUS_2              64                71
  CLUS_3              74                67
  CLUS_4              44                56
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger 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       38     39     86     55
  9Q LOSS WILD-TYPE     67     32     79     51
D59V12, multiclass
        clus
vv       9Q LOSS MUTATED 9Q LOSS WILD-TYPE
  CLUS_1              38                67
  CLUS_2              39                32
  CLUS_3              86                79
  CLUS_4              55                51
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger 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        1      4      3      4
  9Q LOSS WILD-TYPE      5      2      2      1
D59V13, multiclass
        clus
vv       9Q LOSS MUTATED 9Q LOSS WILD-TYPE
  CLUS_1               1                 5
  CLUS_2               4                 2
  CLUS_3               3                 2
  CLUS_4               4                 1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  9Q LOSS MUTATED        1      1      2      3      3      2
  9Q LOSS WILD-TYPE      4      1      0      1      2      2
D59V14, multiclass
        clus
vv       9Q LOSS MUTATED 9Q LOSS WILD-TYPE
  CLUS_1               1                 4
  CLUS_2               1                 1
  CLUS_3               2                 0
  CLUS_4               3                 1
  CLUS_5               3                 2
  CLUS_6               2                 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"

Clustering(60) Variable = 10P LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  10P LOSS MUTATED       32     11     21     31
  10P LOSS WILD-TYPE    144    101     97    120
D60V1, multiclass
        clus
vv       10P LOSS MUTATED 10P LOSS WILD-TYPE
  CLUS_1               32                144
  CLUS_2               11                101
  CLUS_3               21                 97
  CLUS_4               31                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
  10P LOSS MUTATED       54     27     14
  10P LOSS WILD-TYPE    256    131     75
D60V2, multiclass
        clus
vv       10P LOSS MUTATED 10P LOSS WILD-TYPE
  CLUS_1               54                256
  CLUS_2               27                131
  CLUS_3               14                 75
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       34     16     45
  10P LOSS WILD-TYPE    147    115    198
D60V3, multiclass
        clus
vv       10P LOSS MUTATED 10P LOSS WILD-TYPE
  CLUS_1               34                147
  CLUS_2               16                115
  CLUS_3               45                198
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_10 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  10P LOSS MUTATED       13      11      9     14      2     14      7     11
  10P LOSS WILD-TYPE     72      46     49     68     32     61     27     25
                    vv
clus                 CLUS_8 CLUS_9
  10P LOSS MUTATED        8      6
  10P LOSS WILD-TYPE     44     36
D60V4, multiclass
         clus
vv        10P LOSS MUTATED 10P LOSS WILD-TYPE
  CLUS_1                13                 72
  CLUS_10               11                 46
  CLUS_2                 9                 49
  CLUS_3                14                 68
  CLUS_4                 2                 32
  CLUS_5                14                 61
  CLUS_6                 7                 27
  CLUS_7                11                 25
  CLUS_8                 8                 44
  CLUS_9                 6                 36
[1] 10  2
[1] TRUE
[1] "dimension of contingency table 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       46     18     35
  10P LOSS WILD-TYPE    196    112    172
D60V5, multiclass
        clus
vv       10P LOSS MUTATED 10P LOSS WILD-TYPE
  CLUS_1               46                196
  CLUS_2               18                112
  CLUS_3               35                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 CLUS_4
  10P LOSS MUTATED       17     21     31     29
  10P LOSS WILD-TYPE     96     77    156    141
D60V6, multiclass
        clus
vv       10P LOSS MUTATED 10P LOSS WILD-TYPE
  CLUS_1               17                 96
  CLUS_2               21                 77
  CLUS_3               31                156
  CLUS_4               29                141
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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       25     34     13
  10P LOSS WILD-TYPE    121    155     63
D60V7, multiclass
        clus
vv       10P LOSS MUTATED 10P LOSS WILD-TYPE
  CLUS_1               25                121
  CLUS_2               34                155
  CLUS_3               13                 63
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger 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       26     12      9     25
  10P LOSS WILD-TYPE    117     42     51    129
D60V8, multiclass
        clus
vv       10P LOSS MUTATED 10P LOSS WILD-TYPE
  CLUS_1               26                117
  CLUS_2               12                 42
  CLUS_3                9                 51
  CLUS_4               25                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
  10P LOSS MUTATED       16     18     16
  10P LOSS WILD-TYPE     63     91     96
D60V9, multiclass
        clus
vv       10P LOSS MUTATED 10P LOSS WILD-TYPE
  CLUS_1               16                 63
  CLUS_2               18                 91
  CLUS_3               16                 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
  10P LOSS MUTATED       25     11     14
  10P LOSS WILD-TYPE    121     48     81
D60V10, multiclass
        clus
vv       10P LOSS MUTATED 10P LOSS WILD-TYPE
  CLUS_1               25                121
  CLUS_2               11                 48
  CLUS_3               14                 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 CLUS_4
  10P LOSS MUTATED        7     21     29     18
  10P LOSS WILD-TYPE     64    114    112     82
D60V11, multiclass
        clus
vv       10P LOSS MUTATED 10P LOSS WILD-TYPE
  CLUS_1                7                 64
  CLUS_2               21                114
  CLUS_3               29                112
  CLUS_4               18                 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
  10P LOSS MUTATED       16     12     26     21
  10P LOSS WILD-TYPE     89     59    139     85
D60V12, multiclass
        clus
vv       10P LOSS MUTATED 10P LOSS WILD-TYPE
  CLUS_1               16                 89
  CLUS_2               12                 59
  CLUS_3               26                139
  CLUS_4               21                 85
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  10P LOSS MUTATED        1      0      1      1
  10P LOSS WILD-TYPE      5      6      4      4
D60V13, multiclass
        clus
vv       10P LOSS MUTATED 10P LOSS WILD-TYPE
  CLUS_1                1                  5
  CLUS_2                0                  6
  CLUS_3                1                  4
  CLUS_4                1                  4
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  10P LOSS MUTATED        1      0      1      0      1      0
  10P LOSS WILD-TYPE      4      2      1      4      4      4
D60V14, multiclass
        clus
vv       10P LOSS MUTATED 10P LOSS WILD-TYPE
  CLUS_1                1                  4
  CLUS_2                0                  2
  CLUS_3                1                  1
  CLUS_4                0                  4
  CLUS_5                1                  4
  CLUS_6                0                  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"

Clustering(61) Variable = 10Q LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  10Q LOSS MUTATED       42     18     23     39
  10Q LOSS WILD-TYPE    134     94     95    112
D61V1, multiclass
        clus
vv       10Q LOSS MUTATED 10Q LOSS WILD-TYPE
  CLUS_1               42                134
  CLUS_2               18                 94
  CLUS_3               23                 95
  CLUS_4               39                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
  10Q LOSS MUTATED       71     32     19
  10Q LOSS WILD-TYPE    239    126     70
D61V2, multiclass
        clus
vv       10Q LOSS MUTATED 10Q LOSS WILD-TYPE
  CLUS_1               71                239
  CLUS_2               32                126
  CLUS_3               19                 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
  10Q LOSS MUTATED       44     16     62
  10Q LOSS WILD-TYPE    137    115    181
D61V3, multiclass
        clus
vv       10Q LOSS MUTATED 10Q LOSS WILD-TYPE
  CLUS_1               44                137
  CLUS_2               16                115
  CLUS_3               62                181
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_10 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  10Q LOSS MUTATED       15      13     11     20      9     14     11     12
  10Q LOSS WILD-TYPE     70      44     47     62     25     61     23     24
                    vv
clus                 CLUS_8 CLUS_9
  10Q LOSS MUTATED       11      6
  10Q LOSS WILD-TYPE     41     36
D61V4, multiclass
         clus
vv        10Q LOSS MUTATED 10Q LOSS WILD-TYPE
  CLUS_1                15                 70
  CLUS_10               13                 44
  CLUS_2                11                 47
  CLUS_3                20                 62
  CLUS_4                 9                 25
  CLUS_5                14                 61
  CLUS_6                11                 23
  CLUS_7                12                 24
  CLUS_8                11                 41
  CLUS_9                 6                 36
[1] 10  2
[1] TRUE
[1] "dimension of contingency table 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       77     15     35
  10Q LOSS WILD-TYPE    165    115    172
D61V5, multiclass
        clus
vv       10Q LOSS MUTATED 10Q LOSS WILD-TYPE
  CLUS_1               77                165
  CLUS_2               15                115
  CLUS_3               35                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 CLUS_4
  10Q LOSS MUTATED       22     19     34     51
  10Q LOSS WILD-TYPE     91     79    153    119
D61V6, multiclass
        clus
vv       10Q LOSS MUTATED 10Q LOSS WILD-TYPE
  CLUS_1               22                 91
  CLUS_2               19                 79
  CLUS_3               34                153
  CLUS_4               51                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
  10Q LOSS MUTATED       30     46     16
  10Q LOSS WILD-TYPE    116    143     60
D61V7, multiclass
        clus
vv       10Q LOSS MUTATED 10Q LOSS WILD-TYPE
  CLUS_1               30                116
  CLUS_2               46                143
  CLUS_3               16                 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
  10Q LOSS MUTATED       34     15     12     31
  10Q LOSS WILD-TYPE    109     39     48    123
D61V8, multiclass
        clus
vv       10Q LOSS MUTATED 10Q LOSS WILD-TYPE
  CLUS_1               34                109
  CLUS_2               15                 39
  CLUS_3               12                 48
  CLUS_4               31                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
  10Q LOSS MUTATED       17     29     26
  10Q LOSS WILD-TYPE     62     80     86
D61V9, multiclass
        clus
vv       10Q LOSS MUTATED 10Q LOSS WILD-TYPE
  CLUS_1               17                 62
  CLUS_2               29                 80
  CLUS_3               26                 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
  10Q LOSS MUTATED       35     16     21
  10Q LOSS WILD-TYPE    111     43     74
D61V10, multiclass
        clus
vv       10Q LOSS MUTATED 10Q LOSS WILD-TYPE
  CLUS_1               35                111
  CLUS_2               16                 43
  CLUS_3               21                 74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger 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       12     28     32     28
  10Q LOSS WILD-TYPE     59    107    109     72
D61V11, multiclass
        clus
vv       10Q LOSS MUTATED 10Q LOSS WILD-TYPE
  CLUS_1               12                 59
  CLUS_2               28                107
  CLUS_3               32                109
  CLUS_4               28                 72
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger 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       21     12     44     23
  10Q LOSS WILD-TYPE     84     59    121     83
D61V12, multiclass
        clus
vv       10Q LOSS MUTATED 10Q LOSS WILD-TYPE
  CLUS_1               21                 84
  CLUS_2               12                 59
  CLUS_3               44                121
  CLUS_4               23                 83
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  10Q LOSS MUTATED        2      0      2      3
  10Q LOSS WILD-TYPE      4      6      3      2
D61V13, multiclass
        clus
vv       10Q LOSS MUTATED 10Q LOSS WILD-TYPE
  CLUS_1                2                  4
  CLUS_2                0                  6
  CLUS_3                2                  3
  CLUS_4                3                  2
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  10Q LOSS MUTATED        2      0      1      0      2      2
  10Q LOSS WILD-TYPE      3      2      1      4      3      2
D61V14, multiclass
        clus
vv       10Q LOSS MUTATED 10Q LOSS WILD-TYPE
  CLUS_1                2                  3
  CLUS_2                0                  2
  CLUS_3                1                  1
  CLUS_4                0                  4
  CLUS_5                2                  3
  CLUS_6                2                  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"

Clustering(62) Variable = 11P LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  11P LOSS MUTATED       75     35     31     49
  11P LOSS WILD-TYPE    101     77     87    102
D62V1, multiclass
        clus
vv       11P LOSS MUTATED 11P LOSS WILD-TYPE
  CLUS_1               75                101
  CLUS_2               35                 77
  CLUS_3               31                 87
  CLUS_4               49                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
  11P LOSS MUTATED       92     56     42
  11P LOSS WILD-TYPE    218    102     47
D62V2, multiclass
        clus
vv       11P LOSS MUTATED 11P LOSS WILD-TYPE
  CLUS_1               92                218
  CLUS_2               56                102
  CLUS_3               42                 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
  11P LOSS MUTATED       59     44     86
  11P LOSS WILD-TYPE    122     87    157
D62V3, multiclass
        clus
vv       11P LOSS MUTATED 11P LOSS WILD-TYPE
  CLUS_1               59                122
  CLUS_2               44                 87
  CLUS_3               86                157
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_10 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  11P LOSS MUTATED       24      20     21     22      9     20     17     17
  11P LOSS WILD-TYPE     61      37     37     60     25     55     17     19
                    vv
clus                 CLUS_8 CLUS_9
  11P LOSS MUTATED       23     16
  11P LOSS WILD-TYPE     29     26
D62V4, multiclass
         clus
vv        11P LOSS MUTATED 11P LOSS WILD-TYPE
  CLUS_1                24                 61
  CLUS_10               20                 37
  CLUS_2                21                 37
  CLUS_3                22                 60
  CLUS_4                 9                 25
  CLUS_5                20                 55
  CLUS_6                17                 17
  CLUS_7                17                 19
  CLUS_8                23                 29
  CLUS_9                16                 26
[1] 10  2
[1] TRUE
[1] "dimension of contingency table 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      102     38     60
  11P LOSS WILD-TYPE    140     92    147
D62V5, multiclass
        clus
vv       11P LOSS MUTATED 11P LOSS WILD-TYPE
  CLUS_1              102                140
  CLUS_2               38                 92
  CLUS_3               60                147
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger 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       40     40     45     69
  11P LOSS WILD-TYPE     73     58    142    101
D62V6, multiclass
        clus
vv       11P LOSS MUTATED 11P LOSS WILD-TYPE
  CLUS_1               40                 73
  CLUS_2               40                 58
  CLUS_3               45                142
  CLUS_4               69                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
  11P LOSS MUTATED       57     65     22
  11P LOSS WILD-TYPE     89    124     54
D62V7, multiclass
        clus
vv       11P LOSS MUTATED 11P LOSS WILD-TYPE
  CLUS_1               57                 89
  CLUS_2               65                124
  CLUS_3               22                 54
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  11P LOSS MUTATED       51     21     22     50
  11P LOSS WILD-TYPE     92     33     38    104
D62V8, multiclass
        clus
vv       11P LOSS MUTATED 11P LOSS WILD-TYPE
  CLUS_1               51                 92
  CLUS_2               21                 33
  CLUS_3               22                 38
  CLUS_4               50                104
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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       21     45     38
  11P LOSS WILD-TYPE     58     64     74
D62V9, multiclass
        clus
vv       11P LOSS MUTATED 11P LOSS WILD-TYPE
  CLUS_1               21                 58
  CLUS_2               45                 64
  CLUS_3               38                 74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       42     25     37
  11P LOSS WILD-TYPE    104     34     58
D62V10, multiclass
        clus
vv       11P LOSS MUTATED 11P LOSS WILD-TYPE
  CLUS_1               42                104
  CLUS_2               25                 34
  CLUS_3               37                 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 CLUS_4
  11P LOSS MUTATED       18     52     42     44
  11P LOSS WILD-TYPE     53     83     99     56
D62V11, multiclass
        clus
vv       11P LOSS MUTATED 11P LOSS WILD-TYPE
  CLUS_1               18                 53
  CLUS_2               52                 83
  CLUS_3               42                 99
  CLUS_4               44                 56
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger 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       38     23     66     29
  11P LOSS WILD-TYPE     67     48     99     77
D62V12, multiclass
        clus
vv       11P LOSS MUTATED 11P LOSS WILD-TYPE
  CLUS_1               38                 67
  CLUS_2               23                 48
  CLUS_3               66                 99
  CLUS_4               29                 77
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  11P LOSS MUTATED        0      2      0      3
  11P LOSS WILD-TYPE      6      4      5      2
D62V13, multiclass
        clus
vv       11P LOSS MUTATED 11P LOSS WILD-TYPE
  CLUS_1                0                  6
  CLUS_2                2                  4
  CLUS_3                0                  5
  CLUS_4                3                  2
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  11P LOSS MUTATED        0      1      0      1      1      2
  11P LOSS WILD-TYPE      5      1      2      3      4      2
D62V14, multiclass
        clus
vv       11P LOSS MUTATED 11P LOSS WILD-TYPE
  CLUS_1                0                  5
  CLUS_2                1                  1
  CLUS_3                0                  2
  CLUS_4                1                  3
  CLUS_5                1                  4
  CLUS_6                2                  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"

Clustering(63) Variable = 11Q LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  11Q LOSS MUTATED       55     25     26     35
  11Q LOSS WILD-TYPE    121     87     92    116
D63V1, multiclass
        clus
vv       11Q LOSS MUTATED 11Q LOSS WILD-TYPE
  CLUS_1               55                121
  CLUS_2               25                 87
  CLUS_3               26                 92
  CLUS_4               35                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
  11Q LOSS MUTATED       79     40     22
  11Q LOSS WILD-TYPE    231    118     67
D63V2, multiclass
        clus
vv       11Q LOSS MUTATED 11Q LOSS WILD-TYPE
  CLUS_1               79                231
  CLUS_2               40                118
  CLUS_3               22                 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
  11Q LOSS MUTATED       46     26     67
  11Q LOSS WILD-TYPE    135    105    176
D63V3, multiclass
        clus
vv       11Q LOSS MUTATED 11Q LOSS WILD-TYPE
  CLUS_1               46                135
  CLUS_2               26                105
  CLUS_3               67                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_10 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  11Q LOSS MUTATED       17      19     14     17      7     18     14     11
  11Q LOSS WILD-TYPE     68      38     44     65     27     57     20     25
                    vv
clus                 CLUS_8 CLUS_9
  11Q LOSS MUTATED       13      9
  11Q LOSS WILD-TYPE     39     33
D63V4, multiclass
         clus
vv        11Q LOSS MUTATED 11Q LOSS WILD-TYPE
  CLUS_1                17                 68
  CLUS_10               19                 38
  CLUS_2                14                 44
  CLUS_3                17                 65
  CLUS_4                 7                 27
  CLUS_5                18                 57
  CLUS_6                14                 20
  CLUS_7                11                 25
  CLUS_8                13                 39
  CLUS_9                 9                 33
[1] 10  2
[1] TRUE
[1] "dimension of contingency table 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       81     25     41
  11Q LOSS WILD-TYPE    161    105    166
D63V5, multiclass
        clus
vv       11Q LOSS MUTATED 11Q LOSS WILD-TYPE
  CLUS_1               81                161
  CLUS_2               25                105
  CLUS_3               41                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 CLUS_4
  11Q LOSS MUTATED       34     30     30     49
  11Q LOSS WILD-TYPE     79     68    157    121
D63V6, multiclass
        clus
vv       11Q LOSS MUTATED 11Q LOSS WILD-TYPE
  CLUS_1               34                 79
  CLUS_2               30                 68
  CLUS_3               30                157
  CLUS_4               49                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
  11Q LOSS MUTATED       33     55     16
  11Q LOSS WILD-TYPE    113    134     60
D63V7, multiclass
        clus
vv       11Q LOSS MUTATED 11Q LOSS WILD-TYPE
  CLUS_1               33                113
  CLUS_2               55                134
  CLUS_3               16                 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
  11Q LOSS MUTATED       38     18     14     34
  11Q LOSS WILD-TYPE    105     36     46    120
D63V8, multiclass
        clus
vv       11Q LOSS MUTATED 11Q LOSS WILD-TYPE
  CLUS_1               38                105
  CLUS_2               18                 36
  CLUS_3               14                 46
  CLUS_4               34                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
  11Q LOSS MUTATED       16     34     23
  11Q LOSS WILD-TYPE     63     75     89
D63V9, multiclass
        clus
vv       11Q LOSS MUTATED 11Q LOSS WILD-TYPE
  CLUS_1               16                 63
  CLUS_2               34                 75
  CLUS_3               23                 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
  11Q LOSS MUTATED       31     19     23
  11Q LOSS WILD-TYPE    115     40     72
D63V10, multiclass
        clus
vv       11Q LOSS MUTATED 11Q LOSS WILD-TYPE
  CLUS_1               31                115
  CLUS_2               19                 40
  CLUS_3               23                 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 CLUS_4
  11Q LOSS MUTATED       12     39     30     36
  11Q LOSS WILD-TYPE     59     96    111     64
D63V11, multiclass
        clus
vv       11Q LOSS MUTATED 11Q LOSS WILD-TYPE
  CLUS_1               12                 59
  CLUS_2               39                 96
  CLUS_3               30                111
  CLUS_4               36                 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
  11Q LOSS MUTATED       26     20     51     20
  11Q LOSS WILD-TYPE     79     51    114     86
D63V12, multiclass
        clus
vv       11Q LOSS MUTATED 11Q LOSS WILD-TYPE
  CLUS_1               26                 79
  CLUS_2               20                 51
  CLUS_3               51                114
  CLUS_4               20                 86
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  11Q LOSS MUTATED        0      2      0      2
  11Q LOSS WILD-TYPE      6      4      5      3
D63V13, multiclass
        clus
vv       11Q LOSS MUTATED 11Q LOSS WILD-TYPE
  CLUS_1                0                  6
  CLUS_2                2                  4
  CLUS_3                0                  5
  CLUS_4                2                  3
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  11Q LOSS MUTATED        0      1      0      1      1      1
  11Q LOSS WILD-TYPE      5      1      2      3      4      3
D63V14, multiclass
        clus
vv       11Q LOSS MUTATED 11Q LOSS WILD-TYPE
  CLUS_1                0                  5
  CLUS_2                1                  1
  CLUS_3                0                  2
  CLUS_4                1                  3
  CLUS_5                1                  4
  CLUS_6                1                  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"

Clustering(64) Variable = 12P LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  12P LOSS MUTATED       13     23     20     21
  12P LOSS WILD-TYPE    163     89     98    130
D64V1, multiclass
        clus
vv       12P LOSS MUTATED 12P LOSS WILD-TYPE
  CLUS_1               13                163
  CLUS_2               23                 89
  CLUS_3               20                 98
  CLUS_4               21                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
  12P LOSS MUTATED       42     30      5
  12P LOSS WILD-TYPE    268    128     84
D64V2, multiclass
        clus
vv       12P LOSS MUTATED 12P LOSS WILD-TYPE
  CLUS_1               42                268
  CLUS_2               30                128
  CLUS_3                5                 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
  12P LOSS MUTATED       30     19     28
  12P LOSS WILD-TYPE    151    112    215
D64V3, multiclass
        clus
vv       12P LOSS MUTATED 12P LOSS WILD-TYPE
  CLUS_1               30                151
  CLUS_2               19                112
  CLUS_3               28                215
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_10 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  12P LOSS MUTATED       12      11      7     11      4     12      1     11
  12P LOSS WILD-TYPE     73      46     51     71     30     63     33     25
                    vv
clus                 CLUS_8 CLUS_9
  12P LOSS MUTATED        1      7
  12P LOSS WILD-TYPE     51     35
D64V4, multiclass
         clus
vv        12P LOSS MUTATED 12P LOSS WILD-TYPE
  CLUS_1                12                 73
  CLUS_10               11                 46
  CLUS_2                 7                 51
  CLUS_3                11                 71
  CLUS_4                 4                 30
  CLUS_5                12                 63
  CLUS_6                 1                 33
  CLUS_7                11                 25
  CLUS_8                 1                 51
  CLUS_9                 7                 35
[1] 10  2
[1] TRUE
[1] "dimension of contingency table 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       15     18     46
  12P LOSS WILD-TYPE    227    112    161
D64V5, multiclass
        clus
vv       12P LOSS MUTATED 12P LOSS WILD-TYPE
  CLUS_1               15                227
  CLUS_2               18                112
  CLUS_3               46                161
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger 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       17     10     32     19
  12P LOSS WILD-TYPE     96     88    155    151
D64V6, multiclass
        clus
vv       12P LOSS MUTATED 12P LOSS WILD-TYPE
  CLUS_1               17                 96
  CLUS_2               10                 88
  CLUS_3               32                155
  CLUS_4               19                151
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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       22     22      9
  12P LOSS WILD-TYPE    124    167     67
D64V7, multiclass
        clus
vv       12P LOSS MUTATED 12P LOSS WILD-TYPE
  CLUS_1               22                124
  CLUS_2               22                167
  CLUS_3                9                 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
  12P LOSS MUTATED       21      9      7     16
  12P LOSS WILD-TYPE    122     45     53    138
D64V8, multiclass
        clus
vv       12P LOSS MUTATED 12P LOSS WILD-TYPE
  CLUS_1               21                122
  CLUS_2                9                 45
  CLUS_3                7                 53
  CLUS_4               16                138
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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     12     19
  12P LOSS WILD-TYPE     69     97     93
D64V9, multiclass
        clus
vv       12P LOSS MUTATED 12P LOSS WILD-TYPE
  CLUS_1               10                 69
  CLUS_2               12                 97
  CLUS_3               19                 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
  12P LOSS MUTATED       18      5     18
  12P LOSS WILD-TYPE    128     54     77
D64V10, multiclass
        clus
vv       12P LOSS MUTATED 12P LOSS WILD-TYPE
  CLUS_1               18                128
  CLUS_2                5                 54
  CLUS_3               18                 77
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger 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        5     30     10     19
  12P LOSS WILD-TYPE     66    105    131     81
D64V11, multiclass
        clus
vv       12P LOSS MUTATED 12P LOSS WILD-TYPE
  CLUS_1                5                 66
  CLUS_2               30                105
  CLUS_3               10                131
  CLUS_4               19                 81
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger 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       24      5     26      9
  12P LOSS WILD-TYPE     81     66    139     97
D64V12, multiclass
        clus
vv       12P LOSS MUTATED 12P LOSS WILD-TYPE
  CLUS_1               24                 81
  CLUS_2                5                 66
  CLUS_3               26                139
  CLUS_4                9                 97
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  12P LOSS MUTATED        1      1      2      0
  12P LOSS WILD-TYPE      5      5      3      5
D64V13, multiclass
        clus
vv       12P LOSS MUTATED 12P LOSS WILD-TYPE
  CLUS_1                1                  5
  CLUS_2                1                  5
  CLUS_3                2                  3
  CLUS_4                0                  5
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  12P LOSS MUTATED        2      0      1      1      0      0
  12P LOSS WILD-TYPE      3      2      1      3      5      4
D64V14, multiclass
        clus
vv       12P LOSS MUTATED 12P LOSS WILD-TYPE
  CLUS_1                2                  3
  CLUS_2                0                  2
  CLUS_3                1                  1
  CLUS_4                1                  3
  CLUS_5                0                  5
  CLUS_6                0                  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"

Clustering(65) Variable = 12Q LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  12Q LOSS MUTATED       24     24     25     29
  12Q LOSS WILD-TYPE    152     88     93    122
D65V1, multiclass
        clus
vv       12Q LOSS MUTATED 12Q LOSS WILD-TYPE
  CLUS_1               24                152
  CLUS_2               24                 88
  CLUS_3               25                 93
  CLUS_4               29                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
  12Q LOSS MUTATED       59     34      9
  12Q LOSS WILD-TYPE    251    124     80
D65V2, multiclass
        clus
vv       12Q LOSS MUTATED 12Q LOSS WILD-TYPE
  CLUS_1               59                251
  CLUS_2               34                124
  CLUS_3                9                 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
  12Q LOSS MUTATED       34     28     41
  12Q LOSS WILD-TYPE    147    103    202
D65V3, multiclass
        clus
vv       12Q LOSS MUTATED 12Q LOSS WILD-TYPE
  CLUS_1               34                147
  CLUS_2               28                103
  CLUS_3               41                202
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_10 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  12Q LOSS MUTATED       15      12      8     15      7     17      4     11
  12Q LOSS WILD-TYPE     70      45     50     67     27     58     30     25
                    vv
clus                 CLUS_8 CLUS_9
  12Q LOSS MUTATED        5      9
  12Q LOSS WILD-TYPE     47     33
D65V4, multiclass
         clus
vv        12Q LOSS MUTATED 12Q LOSS WILD-TYPE
  CLUS_1                15                 70
  CLUS_10               12                 45
  CLUS_2                 8                 50
  CLUS_3                15                 67
  CLUS_4                 7                 27
  CLUS_5                17                 58
  CLUS_6                 4                 30
  CLUS_7                11                 25
  CLUS_8                 5                 47
  CLUS_9                 9                 33
[1] 10  2
[1] TRUE
[1] "dimension of contingency table 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       37     18     52
  12Q LOSS WILD-TYPE    205    112    155
D65V5, multiclass
        clus
vv       12Q LOSS MUTATED 12Q LOSS WILD-TYPE
  CLUS_1               37                205
  CLUS_2               18                112
  CLUS_3               52                155
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger 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       19     14     45     27
  12Q LOSS WILD-TYPE     94     84    142    143
D65V6, multiclass
        clus
vv       12Q LOSS MUTATED 12Q LOSS WILD-TYPE
  CLUS_1               19                 94
  CLUS_2               14                 84
  CLUS_3               45                142
  CLUS_4               27                143
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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       31     24     18
  12Q LOSS WILD-TYPE    115    165     58
D65V7, multiclass
        clus
vv       12Q LOSS MUTATED 12Q LOSS WILD-TYPE
  CLUS_1               31                115
  CLUS_2               24                165
  CLUS_3               18                 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 CLUS_4
  12Q LOSS MUTATED       26     13      8     26
  12Q LOSS WILD-TYPE    117     41     52    128
D65V8, multiclass
        clus
vv       12Q LOSS MUTATED 12Q LOSS WILD-TYPE
  CLUS_1               26                117
  CLUS_2               13                 41
  CLUS_3                8                 52
  CLUS_4               26                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
  12Q LOSS MUTATED        9     16     24
  12Q LOSS WILD-TYPE     70     93     88
D65V9, multiclass
        clus
vv       12Q LOSS MUTATED 12Q LOSS WILD-TYPE
  CLUS_1                9                 70
  CLUS_2               16                 93
  CLUS_3               24                 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
  12Q LOSS MUTATED       22      5     22
  12Q LOSS WILD-TYPE    124     54     73
D65V10, multiclass
        clus
vv       12Q LOSS MUTATED 12Q LOSS WILD-TYPE
  CLUS_1               22                124
  CLUS_2                5                 54
  CLUS_3               22                 73
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger 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       12     34     15     20
  12Q LOSS WILD-TYPE     59    101    126     80
D65V11, multiclass
        clus
vv       12Q LOSS MUTATED 12Q LOSS WILD-TYPE
  CLUS_1               12                 59
  CLUS_2               34                101
  CLUS_3               15                126
  CLUS_4               20                 80
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger 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       26      9     33     13
  12Q LOSS WILD-TYPE     79     62    132     93
D65V12, multiclass
        clus
vv       12Q LOSS MUTATED 12Q LOSS WILD-TYPE
  CLUS_1               26                 79
  CLUS_2                9                 62
  CLUS_3               33                132
  CLUS_4               13                 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
  12Q LOSS MUTATED        1      3      1      0
  12Q LOSS WILD-TYPE      5      3      4      5
D65V13, multiclass
        clus
vv       12Q LOSS MUTATED 12Q LOSS WILD-TYPE
  CLUS_1                1                  5
  CLUS_2                3                  3
  CLUS_3                1                  4
  CLUS_4                0                  5
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  12Q LOSS MUTATED        1      0      1      3      0      0
  12Q LOSS WILD-TYPE      4      2      1      1      5      4
D65V14, multiclass
        clus
vv       12Q LOSS MUTATED 12Q LOSS WILD-TYPE
  CLUS_1                1                  4
  CLUS_2                0                  2
  CLUS_3                1                  1
  CLUS_4                3                  1
  CLUS_5                0                  5
  CLUS_6                0                  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"

Clustering(66) Variable = 13Q LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  13Q LOSS MUTATED       92     52     59     92
  13Q LOSS WILD-TYPE     84     60     59     59
D66V1, multiclass
        clus
vv       13Q LOSS MUTATED 13Q LOSS WILD-TYPE
  CLUS_1               92                 84
  CLUS_2               52                 60
  CLUS_3               59                 59
  CLUS_4               92                 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
  13Q LOSS MUTATED      182     77     36
  13Q LOSS WILD-TYPE    128     81     53
D66V2, multiclass
        clus
vv       13Q LOSS MUTATED 13Q LOSS WILD-TYPE
  CLUS_1              182                128
  CLUS_2               77                 81
  CLUS_3               36                 53
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  13Q LOSS MUTATED      102     68    126
  13Q LOSS WILD-TYPE     79     63    117
D66V3, multiclass
        clus
vv       13Q LOSS MUTATED 13Q LOSS WILD-TYPE
  CLUS_1              102                 79
  CLUS_2               68                 63
  CLUS_3              126                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_10 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  13Q LOSS MUTATED       46      29     38     49     18     30     13     26
  13Q LOSS WILD-TYPE     39      28     20     33     16     45     21     10
                    vv
clus                 CLUS_8 CLUS_9
  13Q LOSS MUTATED       24     23
  13Q LOSS WILD-TYPE     28     19
D66V4, multiclass
         clus
vv        13Q LOSS MUTATED 13Q LOSS WILD-TYPE
  CLUS_1                46                 39
  CLUS_10               29                 28
  CLUS_2                38                 20
  CLUS_3                49                 33
  CLUS_4                18                 16
  CLUS_5                30                 45
  CLUS_6                13                 21
  CLUS_7                26                 10
  CLUS_8                24                 28
  CLUS_9                23                 19
[1] 10  2
[1] TRUE
[1] "dimension of contingency table 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      129     54    125
  13Q LOSS WILD-TYPE    113     76     82
D66V5, multiclass
        clus
vv       13Q LOSS MUTATED 13Q LOSS WILD-TYPE
  CLUS_1              129                113
  CLUS_2               54                 76
  CLUS_3              125                 82
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger 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       70     36    101     96
  13Q LOSS WILD-TYPE     43     62     86     74
D66V6, multiclass
        clus
vv       13Q LOSS MUTATED 13Q LOSS WILD-TYPE
  CLUS_1               70                 43
  CLUS_2               36                 62
  CLUS_3              101                 86
  CLUS_4               96                 74
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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       64    111     40
  13Q LOSS WILD-TYPE     82     78     36
D66V7, multiclass
        clus
vv       13Q LOSS MUTATED 13Q LOSS WILD-TYPE
  CLUS_1               64                 82
  CLUS_2              111                 78
  CLUS_3               40                 36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  13Q LOSS MUTATED       63     29     40     83
  13Q LOSS WILD-TYPE     80     25     20     71
D66V8, multiclass
        clus
vv       13Q LOSS MUTATED 13Q LOSS WILD-TYPE
  CLUS_1               63                 80
  CLUS_2               29                 25
  CLUS_3               40                 20
  CLUS_4               83                 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
  13Q LOSS MUTATED       48     59     50
  13Q LOSS WILD-TYPE     31     50     62
D66V9, multiclass
        clus
vv       13Q LOSS MUTATED 13Q LOSS WILD-TYPE
  CLUS_1               48                 31
  CLUS_2               59                 50
  CLUS_3               50                 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
  13Q LOSS MUTATED       83     31     43
  13Q LOSS WILD-TYPE     63     28     52
D66V10, multiclass
        clus
vv       13Q LOSS MUTATED 13Q LOSS WILD-TYPE
  CLUS_1               83                 63
  CLUS_2               31                 28
  CLUS_3               43                 52
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  13Q LOSS MUTATED       29     74     70     60
  13Q LOSS WILD-TYPE     42     61     71     40
D66V11, multiclass
        clus
vv       13Q LOSS MUTATED 13Q LOSS WILD-TYPE
  CLUS_1               29                 42
  CLUS_2               74                 61
  CLUS_3               70                 71
  CLUS_4               60                 40
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger 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       60     35     81     57
  13Q LOSS WILD-TYPE     45     36     84     49
D66V12, multiclass
        clus
vv       13Q LOSS MUTATED 13Q LOSS WILD-TYPE
  CLUS_1               60                 45
  CLUS_2               35                 36
  CLUS_3               81                 84
  CLUS_4               57                 49
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  13Q LOSS MUTATED        3      3      3      4
  13Q LOSS WILD-TYPE      3      3      2      1
D66V13, multiclass
        clus
vv       13Q LOSS MUTATED 13Q LOSS WILD-TYPE
  CLUS_1                3                  3
  CLUS_2                3                  3
  CLUS_3                3                  2
  CLUS_4                4                  1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  13Q LOSS MUTATED        3      2      1      1      3      3
  13Q LOSS WILD-TYPE      2      0      1      3      2      1
D66V14, multiclass
        clus
vv       13Q LOSS MUTATED 13Q LOSS WILD-TYPE
  CLUS_1                3                  2
  CLUS_2                2                  0
  CLUS_3                1                  1
  CLUS_4                1                  3
  CLUS_5                3                  2
  CLUS_6                3                  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"

Clustering(67) Variable = 14Q LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  14Q LOSS MUTATED       77     39     40     50
  14Q LOSS WILD-TYPE     99     73     78    101
D67V1, multiclass
        clus
vv       14Q LOSS MUTATED 14Q LOSS WILD-TYPE
  CLUS_1               77                 99
  CLUS_2               39                 73
  CLUS_3               40                 78
  CLUS_4               50                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
  14Q LOSS MUTATED      112     54     40
  14Q LOSS WILD-TYPE    198    104     49
D67V2, multiclass
        clus
vv       14Q LOSS MUTATED 14Q LOSS WILD-TYPE
  CLUS_1              112                198
  CLUS_2               54                104
  CLUS_3               40                 49
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  14Q LOSS MUTATED       70     48     88
  14Q LOSS WILD-TYPE    111     83    155
D67V3, multiclass
        clus
vv       14Q LOSS MUTATED 14Q LOSS WILD-TYPE
  CLUS_1               70                111
  CLUS_2               48                 83
  CLUS_3               88                155
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_10 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  14Q LOSS MUTATED       25      24     29     28      9     29     15     12
  14Q LOSS WILD-TYPE     60      33     29     54     25     46     19     24
                    vv
clus                 CLUS_8 CLUS_9
  14Q LOSS MUTATED       21     14
  14Q LOSS WILD-TYPE     31     28
D67V4, multiclass
         clus
vv        14Q LOSS MUTATED 14Q LOSS WILD-TYPE
  CLUS_1                25                 60
  CLUS_10               24                 33
  CLUS_2                29                 29
  CLUS_3                28                 54
  CLUS_4                 9                 25
  CLUS_5                29                 46
  CLUS_6                15                 19
  CLUS_7                12                 24
  CLUS_8                21                 31
  CLUS_9                14                 28
[1] 10  2
[1] TRUE
[1] "dimension of contingency table 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      124     36     57
  14Q LOSS WILD-TYPE    118     94    150
D67V5, multiclass
        clus
vv       14Q LOSS MUTATED 14Q LOSS WILD-TYPE
  CLUS_1              124                118
  CLUS_2               36                 94
  CLUS_3               57                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 CLUS_4
  14Q LOSS MUTATED       43     41     50     77
  14Q LOSS WILD-TYPE     70     57    137     93
D67V6, multiclass
        clus
vv       14Q LOSS MUTATED 14Q LOSS WILD-TYPE
  CLUS_1               43                 70
  CLUS_2               41                 57
  CLUS_3               50                137
  CLUS_4               77                 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
  14Q LOSS MUTATED       49     71     27
  14Q LOSS WILD-TYPE     97    118     49
D67V7, multiclass
        clus
vv       14Q LOSS MUTATED 14Q LOSS WILD-TYPE
  CLUS_1               49                 97
  CLUS_2               71                118
  CLUS_3               27                 49
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  14Q LOSS MUTATED       46     21     23     57
  14Q LOSS WILD-TYPE     97     33     37     97
D67V8, multiclass
        clus
vv       14Q LOSS MUTATED 14Q LOSS WILD-TYPE
  CLUS_1               46                 97
  CLUS_2               21                 33
  CLUS_3               23                 37
  CLUS_4               57                 97
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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       19     51     37
  14Q LOSS WILD-TYPE     60     58     75
D67V9, multiclass
        clus
vv       14Q LOSS MUTATED 14Q LOSS WILD-TYPE
  CLUS_1               19                 60
  CLUS_2               51                 58
  CLUS_3               37                 75
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       36     36     35
  14Q LOSS WILD-TYPE    110     23     60
D67V10, multiclass
        clus
vv       14Q LOSS MUTATED 14Q LOSS WILD-TYPE
  CLUS_1               36                110
  CLUS_2               36                 23
  CLUS_3               35                 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
  14Q LOSS MUTATED       22     53     55     36
  14Q LOSS WILD-TYPE     49     82     86     64
D67V11, multiclass
        clus
vv       14Q LOSS MUTATED 14Q LOSS WILD-TYPE
  CLUS_1               22                 49
  CLUS_2               53                 82
  CLUS_3               55                 86
  CLUS_4               36                 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
  14Q LOSS MUTATED       32     24     67     43
  14Q LOSS WILD-TYPE     73     47     98     63
D67V12, multiclass
        clus
vv       14Q LOSS MUTATED 14Q LOSS WILD-TYPE
  CLUS_1               32                 73
  CLUS_2               24                 47
  CLUS_3               67                 98
  CLUS_4               43                 63
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  14Q LOSS MUTATED        2      1      1      3
  14Q LOSS WILD-TYPE      4      5      4      2
D67V13, multiclass
        clus
vv       14Q LOSS MUTATED 14Q LOSS WILD-TYPE
  CLUS_1                2                  4
  CLUS_2                1                  5
  CLUS_3                1                  4
  CLUS_4                3                  2
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  14Q LOSS MUTATED        2      0      0      1      1      3
  14Q LOSS WILD-TYPE      3      2      2      3      4      1
D67V14, multiclass
        clus
vv       14Q LOSS MUTATED 14Q LOSS WILD-TYPE
  CLUS_1                2                  3
  CLUS_2                0                  2
  CLUS_3                0                  2
  CLUS_4                1                  3
  CLUS_5                1                  4
  CLUS_6                3                  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"

Clustering(68) Variable = 15Q LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  15Q LOSS MUTATED      106     48     44     73
  15Q LOSS WILD-TYPE     70     64     74     78
D68V1, multiclass
        clus
vv       15Q LOSS MUTATED 15Q LOSS WILD-TYPE
  CLUS_1              106                 70
  CLUS_2               48                 64
  CLUS_3               44                 74
  CLUS_4               73                 78
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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      151     66     54
  15Q LOSS WILD-TYPE    159     92     35
D68V2, multiclass
        clus
vv       15Q LOSS MUTATED 15Q LOSS WILD-TYPE
  CLUS_1              151                159
  CLUS_2               66                 92
  CLUS_3               54                 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
  15Q LOSS MUTATED       76     53    142
  15Q LOSS WILD-TYPE    105     78    101
D68V3, multiclass
        clus
vv       15Q LOSS MUTATED 15Q LOSS WILD-TYPE
  CLUS_1               76                105
  CLUS_2               53                 78
  CLUS_3              142                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_10 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  15Q LOSS MUTATED       26      27     35     41     18     42     23     18
  15Q LOSS WILD-TYPE     59      30     23     41     16     33     11     18
                    vv
clus                 CLUS_8 CLUS_9
  15Q LOSS MUTATED       30     11
  15Q LOSS WILD-TYPE     22     31
D68V4, multiclass
         clus
vv        15Q LOSS MUTATED 15Q LOSS WILD-TYPE
  CLUS_1                26                 59
  CLUS_10               27                 30
  CLUS_2                35                 23
  CLUS_3                41                 41
  CLUS_4                18                 16
  CLUS_5                42                 33
  CLUS_6                23                 11
  CLUS_7                18                 18
  CLUS_8                30                 22
  CLUS_9                11                 31
[1] 10  2
[1] TRUE
[1] "dimension of contingency table 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      169     37     75
  15Q LOSS WILD-TYPE     73     93    132
D68V5, multiclass
        clus
vv       15Q LOSS MUTATED 15Q LOSS WILD-TYPE
  CLUS_1              169                 73
  CLUS_2               37                 93
  CLUS_3               75                132
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger 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       54     50     61    113
  15Q LOSS WILD-TYPE     59     48    126     57
D68V6, multiclass
        clus
vv       15Q LOSS MUTATED 15Q LOSS WILD-TYPE
  CLUS_1               54                 59
  CLUS_2               50                 48
  CLUS_3               61                126
  CLUS_4              113                 57
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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       63     98     42
  15Q LOSS WILD-TYPE     83     91     34
D68V7, multiclass
        clus
vv       15Q LOSS MUTATED 15Q LOSS WILD-TYPE
  CLUS_1               63                 83
  CLUS_2               98                 91
  CLUS_3               42                 34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  15Q LOSS MUTATED       69     29     30     75
  15Q LOSS WILD-TYPE     74     25     30     79
D68V8, multiclass
        clus
vv       15Q LOSS MUTATED 15Q LOSS WILD-TYPE
  CLUS_1               69                 74
  CLUS_2               29                 25
  CLUS_3               30                 30
  CLUS_4               75                 79
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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     62     51
  15Q LOSS WILD-TYPE     51     47     61
D68V9, multiclass
        clus
vv       15Q LOSS MUTATED 15Q LOSS WILD-TYPE
  CLUS_1               28                 51
  CLUS_2               62                 47
  CLUS_3               51                 61
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       67     33     41
  15Q LOSS WILD-TYPE     79     26     54
D68V10, multiclass
        clus
vv       15Q LOSS MUTATED 15Q LOSS WILD-TYPE
  CLUS_1               67                 79
  CLUS_2               33                 26
  CLUS_3               41                 54
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  15Q LOSS MUTATED       29     80     62     56
  15Q LOSS WILD-TYPE     42     55     79     44
D68V11, multiclass
        clus
vv       15Q LOSS MUTATED 15Q LOSS WILD-TYPE
  CLUS_1               29                 42
  CLUS_2               80                 55
  CLUS_3               62                 79
  CLUS_4               56                 44
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger 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       43     37    103     44
  15Q LOSS WILD-TYPE     62     34     62     62
D68V12, multiclass
        clus
vv       15Q LOSS MUTATED 15Q LOSS WILD-TYPE
  CLUS_1               43                 62
  CLUS_2               37                 34
  CLUS_3              103                 62
  CLUS_4               44                 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
  15Q LOSS MUTATED        3      5      2      2
  15Q LOSS WILD-TYPE      3      1      3      3
D68V13, multiclass
        clus
vv       15Q LOSS MUTATED 15Q LOSS WILD-TYPE
  CLUS_1                3                  3
  CLUS_2                5                  1
  CLUS_3                2                  3
  CLUS_4                2                  3
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  15Q LOSS MUTATED        4      2      0      3      3      0
  15Q LOSS WILD-TYPE      1      0      2      1      2      4
D68V14, multiclass
        clus
vv       15Q LOSS MUTATED 15Q LOSS WILD-TYPE
  CLUS_1                4                  1
  CLUS_2                2                  0
  CLUS_3                0                  2
  CLUS_4                3                  1
  CLUS_5                3                  2
  CLUS_6                0                  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"

Clustering(69) Variable = 16P LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  16P LOSS MUTATED      108     72     58     83
  16P LOSS WILD-TYPE     68     40     60     68
D69V1, multiclass
        clus
vv       16P LOSS MUTATED 16P LOSS WILD-TYPE
  CLUS_1              108                 68
  CLUS_2               72                 40
  CLUS_3               58                 60
  CLUS_4               83                 68
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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      177     95     49
  16P LOSS WILD-TYPE    133     63     40
D69V2, multiclass
        clus
vv       16P LOSS MUTATED 16P LOSS WILD-TYPE
  CLUS_1              177                133
  CLUS_2               95                 63
  CLUS_3               49                 40
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  16P LOSS MUTATED      112     65    144
  16P LOSS WILD-TYPE     69     66     99
D69V3, multiclass
        clus
vv       16P LOSS MUTATED 16P LOSS WILD-TYPE
  CLUS_1              112                 69
  CLUS_2               65                 66
  CLUS_3              144                 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_10 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  16P LOSS MUTATED       49      29     28     51     23     42     20     26
  16P LOSS WILD-TYPE     36      28     30     31     11     33     14     10
                    vv
clus                 CLUS_8 CLUS_9
  16P LOSS MUTATED       31     22
  16P LOSS WILD-TYPE     21     20
D69V4, multiclass
         clus
vv        16P LOSS MUTATED 16P LOSS WILD-TYPE
  CLUS_1                49                 36
  CLUS_10               29                 28
  CLUS_2                28                 30
  CLUS_3                51                 31
  CLUS_4                23                 11
  CLUS_5                42                 33
  CLUS_6                20                 14
  CLUS_7                26                 10
  CLUS_8                31                 21
  CLUS_9                22                 20
[1] 10  2
[1] TRUE
[1] "dimension of contingency table 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      155     65    115
  16P LOSS WILD-TYPE     87     65     92
D69V5, multiclass
        clus
vv       16P LOSS MUTATED 16P LOSS WILD-TYPE
  CLUS_1              155                 87
  CLUS_2               65                 65
  CLUS_3              115                 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
  16P LOSS MUTATED       71     58     92    108
  16P LOSS WILD-TYPE     42     40     95     62
D69V6, multiclass
        clus
vv       16P LOSS MUTATED 16P LOSS WILD-TYPE
  CLUS_1               71                 42
  CLUS_2               58                 40
  CLUS_3               92                 95
  CLUS_4              108                 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
  16P LOSS MUTATED       87    111     34
  16P LOSS WILD-TYPE     59     78     42
D69V7, multiclass
        clus
vv       16P LOSS MUTATED 16P LOSS WILD-TYPE
  CLUS_1               87                 59
  CLUS_2              111                 78
  CLUS_3               34                 42
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  16P LOSS MUTATED       79     32     34     87
  16P LOSS WILD-TYPE     64     22     26     67
D69V8, multiclass
        clus
vv       16P LOSS MUTATED 16P LOSS WILD-TYPE
  CLUS_1               79                 64
  CLUS_2               32                 22
  CLUS_3               34                 26
  CLUS_4               87                 67
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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       41     66     74
  16P LOSS WILD-TYPE     38     43     38
D69V9, multiclass
        clus
vv       16P LOSS MUTATED 16P LOSS WILD-TYPE
  CLUS_1               41                 38
  CLUS_2               66                 43
  CLUS_3               74                 38
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  16P LOSS MUTATED       85     37     59
  16P LOSS WILD-TYPE     61     22     36
D69V10, multiclass
        clus
vv       16P LOSS MUTATED 16P LOSS WILD-TYPE
  CLUS_1               85                 61
  CLUS_2               37                 22
  CLUS_3               59                 36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  16P LOSS MUTATED       36     90     77     62
  16P LOSS WILD-TYPE     35     45     64     38
D69V11, multiclass
        clus
vv       16P LOSS MUTATED 16P LOSS WILD-TYPE
  CLUS_1               36                 35
  CLUS_2               90                 45
  CLUS_3               77                 64
  CLUS_4               62                 38
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger 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       65     33    109     58
  16P LOSS WILD-TYPE     40     38     56     48
D69V12, multiclass
        clus
vv       16P LOSS MUTATED 16P LOSS WILD-TYPE
  CLUS_1               65                 40
  CLUS_2               33                 38
  CLUS_3              109                 56
  CLUS_4               58                 48
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  16P LOSS MUTATED        4      4      3      4
  16P LOSS WILD-TYPE      2      2      2      1
D69V13, multiclass
        clus
vv       16P LOSS MUTATED 16P LOSS WILD-TYPE
  CLUS_1                4                  2
  CLUS_2                4                  2
  CLUS_3                3                  2
  CLUS_4                4                  1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  16P LOSS MUTATED        3      1      1      3      3      4
  16P LOSS WILD-TYPE      2      1      1      1      2      0
D69V14, multiclass
        clus
vv       16P LOSS MUTATED 16P LOSS WILD-TYPE
  CLUS_1                3                  2
  CLUS_2                1                  1
  CLUS_3                1                  1
  CLUS_4                3                  1
  CLUS_5                3                  2
  CLUS_6                4                  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"

Clustering(70) Variable = 16Q LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  16Q LOSS MUTATED      134     82     75    104
  16Q LOSS WILD-TYPE     42     30     43     47
D70V1, multiclass
        clus
vv       16Q LOSS MUTATED 16Q LOSS WILD-TYPE
  CLUS_1              134                 42
  CLUS_2               82                 30
  CLUS_3               75                 43
  CLUS_4              104                 47
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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      219    111     65
  16Q LOSS WILD-TYPE     91     47     24
D70V2, multiclass
        clus
vv       16Q LOSS MUTATED 16Q LOSS WILD-TYPE
  CLUS_1              219                 91
  CLUS_2              111                 47
  CLUS_3               65                 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
  16Q LOSS MUTATED      134     79    182
  16Q LOSS WILD-TYPE     47     52     61
D70V3, multiclass
        clus
vv       16Q LOSS MUTATED 16Q LOSS WILD-TYPE
  CLUS_1              134                 47
  CLUS_2               79                 52
  CLUS_3              182                 61
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_10 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  16Q LOSS MUTATED       61      35     36     65     25     52     23     30
  16Q LOSS WILD-TYPE     24      22     22     17      9     23     11      6
                    vv
clus                 CLUS_8 CLUS_9
  16Q LOSS MUTATED       42     26
  16Q LOSS WILD-TYPE     10     16
D70V4, multiclass
         clus
vv        16Q LOSS MUTATED 16Q LOSS WILD-TYPE
  CLUS_1                61                 24
  CLUS_10               35                 22
  CLUS_2                36                 22
  CLUS_3                65                 17
  CLUS_4                25                  9
  CLUS_5                52                 23
  CLUS_6                23                 11
  CLUS_7                30                  6
  CLUS_8                42                 10
  CLUS_9                26                 16
[1] 10  2
[1] TRUE
[1] "dimension of contingency table 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      193     74    146
  16Q LOSS WILD-TYPE     49     56     61
D70V5, multiclass
        clus
vv       16Q LOSS MUTATED 16Q LOSS WILD-TYPE
  CLUS_1              193                 49
  CLUS_2               74                 56
  CLUS_3              146                 61
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger 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       90     72    112    131
  16Q LOSS WILD-TYPE     23     26     75     39
D70V6, multiclass
        clus
vv       16Q LOSS MUTATED 16Q LOSS WILD-TYPE
  CLUS_1               90                 23
  CLUS_2               72                 26
  CLUS_3              112                 75
  CLUS_4              131                 39
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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      100    139     49
  16Q LOSS WILD-TYPE     46     50     27
D70V7, multiclass
        clus
vv       16Q LOSS MUTATED 16Q LOSS WILD-TYPE
  CLUS_1              100                 46
  CLUS_2              139                 50
  CLUS_3               49                 27
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  16Q LOSS MUTATED       95     41     45    107
  16Q LOSS WILD-TYPE     48     13     15     47
D70V8, multiclass
        clus
vv       16Q LOSS MUTATED 16Q LOSS WILD-TYPE
  CLUS_1               95                 48
  CLUS_2               41                 13
  CLUS_3               45                 15
  CLUS_4              107                 47
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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       51     80     86
  16Q LOSS WILD-TYPE     28     29     26
D70V9, multiclass
        clus
vv       16Q LOSS MUTATED 16Q LOSS WILD-TYPE
  CLUS_1               51                 28
  CLUS_2               80                 29
  CLUS_3               86                 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
  16Q LOSS MUTATED      103     45     69
  16Q LOSS WILD-TYPE     43     14     26
D70V10, multiclass
        clus
vv       16Q LOSS MUTATED 16Q LOSS WILD-TYPE
  CLUS_1              103                 43
  CLUS_2               45                 14
  CLUS_3               69                 26
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  16Q LOSS MUTATED       47    108     93     77
  16Q LOSS WILD-TYPE     24     27     48     23
D70V11, multiclass
        clus
vv       16Q LOSS MUTATED 16Q LOSS WILD-TYPE
  CLUS_1               47                 24
  CLUS_2              108                 27
  CLUS_3               93                 48
  CLUS_4               77                 23
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  16Q LOSS MUTATED       80     48    128     69
  16Q LOSS WILD-TYPE     25     23     37     37
D70V12, multiclass
        clus
vv       16Q LOSS MUTATED 16Q LOSS WILD-TYPE
  CLUS_1               80                 25
  CLUS_2               48                 23
  CLUS_3              128                 37
  CLUS_4               69                 37
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  16Q LOSS MUTATED        4      4      4      5
  16Q LOSS WILD-TYPE      2      2      1      0
D70V13, multiclass
        clus
vv       16Q LOSS MUTATED 16Q LOSS WILD-TYPE
  CLUS_1                4                  2
  CLUS_2                4                  2
  CLUS_3                4                  1
  CLUS_4                5                  0
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  16Q LOSS MUTATED        4      1      2      3      3      4
  16Q LOSS WILD-TYPE      1      1      0      1      2      0
D70V14, multiclass
        clus
vv       16Q LOSS MUTATED 16Q LOSS WILD-TYPE
  CLUS_1                4                  1
  CLUS_2                1                  1
  CLUS_3                2                  0
  CLUS_4                3                  1
  CLUS_5                3                  2
  CLUS_6                4                  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"

Clustering(71) Variable = 17P LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  17P LOSS MUTATED      141     92    101    126
  17P LOSS WILD-TYPE     35     20     17     25
D71V1, multiclass
        clus
vv       17P LOSS MUTATED 17P LOSS WILD-TYPE
  CLUS_1              141                 35
  CLUS_2               92                 20
  CLUS_3              101                 17
  CLUS_4              126                 25
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  17P LOSS MUTATED      257    134     69
  17P LOSS WILD-TYPE     53     24     20
D71V2, multiclass
        clus
vv       17P LOSS MUTATED 17P LOSS WILD-TYPE
  CLUS_1              257                 53
  CLUS_2              134                 24
  CLUS_3               69                 20
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  17P LOSS MUTATED      156    104    200
  17P LOSS WILD-TYPE     25     27     43
D71V3, multiclass
        clus
vv       17P LOSS MUTATED 17P LOSS WILD-TYPE
  CLUS_1              156                 25
  CLUS_2              104                 27
  CLUS_3              200                 43
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_10 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  17P LOSS MUTATED       71      47     49     70     27     65     30     31
  17P LOSS WILD-TYPE     14      10      9     12      7     10      4      5
                    vv
clus                 CLUS_8 CLUS_9
  17P LOSS MUTATED       34     36
  17P LOSS WILD-TYPE     18      6
D71V4, multiclass
         clus
vv        17P LOSS MUTATED 17P LOSS WILD-TYPE
  CLUS_1                71                 14
  CLUS_10               47                 10
  CLUS_2                49                  9
  CLUS_3                70                 12
  CLUS_4                27                  7
  CLUS_5                65                 10
  CLUS_6                30                  4
  CLUS_7                31                  5
  CLUS_8                34                 18
  CLUS_9                36                  6
[1] 10  2
[1] TRUE
[1] "dimension of contingency table 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      200    103    175
  17P LOSS WILD-TYPE     42     27     32
D71V5, multiclass
        clus
vv       17P LOSS MUTATED 17P LOSS WILD-TYPE
  CLUS_1              200                 42
  CLUS_2              103                 27
  CLUS_3              175                 32
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  17P LOSS MUTATED       92     77    160    140
  17P LOSS WILD-TYPE     21     21     27     30
D71V6, multiclass
        clus
vv       17P LOSS MUTATED 17P LOSS WILD-TYPE
  CLUS_1               92                 21
  CLUS_2               77                 21
  CLUS_3              160                 27
  CLUS_4              140                 30
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  17P LOSS MUTATED      115    155     65
  17P LOSS WILD-TYPE     31     34     11
D71V7, multiclass
        clus
vv       17P LOSS MUTATED 17P LOSS WILD-TYPE
  CLUS_1              115                 31
  CLUS_2              155                 34
  CLUS_3               65                 11
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  17P LOSS MUTATED      115     47     47    126
  17P LOSS WILD-TYPE     28      7     13     28
D71V8, multiclass
        clus
vv       17P LOSS MUTATED 17P LOSS WILD-TYPE
  CLUS_1              115                 28
  CLUS_2               47                  7
  CLUS_3               47                 13
  CLUS_4              126                 28
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  17P LOSS MUTATED       70     85     96
  17P LOSS WILD-TYPE      9     24     16
D71V9, multiclass
        clus
vv       17P LOSS MUTATED 17P LOSS WILD-TYPE
  CLUS_1               70                  9
  CLUS_2               85                 24
  CLUS_3               96                 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
  17P LOSS MUTATED      124     45     82
  17P LOSS WILD-TYPE     22     14     13
D71V10, multiclass
        clus
vv       17P LOSS MUTATED 17P LOSS WILD-TYPE
  CLUS_1              124                 22
  CLUS_2               45                 14
  CLUS_3               82                 13
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  17P LOSS MUTATED       59    117    115     87
  17P LOSS WILD-TYPE     12     18     26     13
D71V11, multiclass
        clus
vv       17P LOSS MUTATED 17P LOSS WILD-TYPE
  CLUS_1               59                 12
  CLUS_2              117                 18
  CLUS_3              115                 26
  CLUS_4               87                 13
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  17P LOSS MUTATED       92     57    143     86
  17P LOSS WILD-TYPE     13     14     22     20
D71V12, multiclass
        clus
vv       17P LOSS MUTATED 17P LOSS WILD-TYPE
  CLUS_1               92                 13
  CLUS_2               57                 14
  CLUS_3              143                 22
  CLUS_4               86                 20
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  17P LOSS MUTATED        5      6      4      5
  17P LOSS WILD-TYPE      1      0      1      0
D71V13, multiclass
[1] "Remove cluster labels:" "17P LOSS WILD-TYPE"    
clus
  17P LOSS MUTATED 17P LOSS WILD-TYPE 
                20                  2 
      TCGA-04-1652       TCGA-09-2050       TCGA-09-2054       TCGA-13-0908 
"17P LOSS MUTATED" "17P LOSS MUTATED" "17P LOSS MUTATED" "17P LOSS MUTATED" 
      TCGA-23-2077       TCGA-24-1928       TCGA-24-2036       TCGA-24-2288 
"17P LOSS MUTATED" "17P LOSS MUTATED" "17P LOSS MUTATED" "17P LOSS MUTATED" 
      TCGA-24-2290       TCGA-24-2297       TCGA-25-2392       TCGA-25-2399 
"17P LOSS MUTATED" "17P LOSS MUTATED" "17P LOSS MUTATED" "17P LOSS MUTATED" 
      TCGA-25-2400       TCGA-25-2404       TCGA-59-2363       TCGA-61-1918 
"17P LOSS MUTATED" "17P LOSS MUTATED" "17P LOSS MUTATED" "17P LOSS MUTATED" 
      TCGA-61-2088       TCGA-61-2098       TCGA-61-2109       TCGA-61-2111 
"17P LOSS MUTATED" "17P LOSS MUTATED" "17P LOSS MUTATED" "17P LOSS MUTATED" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  17P LOSS MUTATED        4      2      2      4      4      4
  17P LOSS WILD-TYPE      1      0      0      0      1      0
D71V14, multiclass
[1] "Remove cluster labels:" "17P LOSS WILD-TYPE"    
clus
  17P LOSS MUTATED 17P LOSS WILD-TYPE 
                20                  2 
      TCGA-04-1652       TCGA-09-2050       TCGA-09-2054       TCGA-13-0908 
"17P LOSS MUTATED" "17P LOSS MUTATED" "17P LOSS MUTATED" "17P LOSS MUTATED" 
      TCGA-23-2077       TCGA-24-1928       TCGA-24-2036       TCGA-24-2288 
"17P LOSS MUTATED" "17P LOSS MUTATED" "17P LOSS MUTATED" "17P LOSS MUTATED" 
      TCGA-24-2290       TCGA-24-2297       TCGA-25-2392       TCGA-25-2399 
"17P LOSS MUTATED" "17P LOSS MUTATED" "17P LOSS MUTATED" "17P LOSS MUTATED" 
      TCGA-25-2400       TCGA-25-2404       TCGA-59-2363       TCGA-61-1918 
"17P LOSS MUTATED" "17P LOSS MUTATED" "17P LOSS MUTATED" "17P LOSS MUTATED" 
      TCGA-61-2088       TCGA-61-2098       TCGA-61-2109       TCGA-61-2111 
"17P LOSS MUTATED" "17P LOSS MUTATED" "17P LOSS MUTATED" "17P LOSS MUTATED" 

Clustering(72) Variable = 17Q LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  17Q LOSS MUTATED      118     66     86    103
  17Q LOSS WILD-TYPE     58     46     32     48
D72V1, multiclass
        clus
vv       17Q LOSS MUTATED 17Q LOSS WILD-TYPE
  CLUS_1              118                 58
  CLUS_2               66                 46
  CLUS_3               86                 32
  CLUS_4              103                 48
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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      223     94     56
  17Q LOSS WILD-TYPE     87     64     33
D72V2, multiclass
        clus
vv       17Q LOSS MUTATED 17Q LOSS WILD-TYPE
  CLUS_1              223                 87
  CLUS_2               94                 64
  CLUS_3               56                 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
  17Q LOSS MUTATED      120     80    172
  17Q LOSS WILD-TYPE     61     51     71
D72V3, multiclass
        clus
vv       17Q LOSS MUTATED 17Q LOSS WILD-TYPE
  CLUS_1              120                 61
  CLUS_2               80                 51
  CLUS_3              172                 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_10 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  17Q LOSS MUTATED       51      38     44     59     19     49     30     26
  17Q LOSS WILD-TYPE     34      19     14     23     15     26      4     10
                    vv
clus                 CLUS_8 CLUS_9
  17Q LOSS MUTATED       27     29
  17Q LOSS WILD-TYPE     25     13
D72V4, multiclass
         clus
vv        17Q LOSS MUTATED 17Q LOSS WILD-TYPE
  CLUS_1                51                 34
  CLUS_10               38                 19
  CLUS_2                44                 14
  CLUS_3                59                 23
  CLUS_4                19                 15
  CLUS_5                49                 26
  CLUS_6                30                  4
  CLUS_7                26                 10
  CLUS_8                27                 25
  CLUS_9                29                 13
[1] 10  2
[1] TRUE
[1] "dimension of contingency table 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      166     83    138
  17Q LOSS WILD-TYPE     76     47     69
D72V5, multiclass
        clus
vv       17Q LOSS MUTATED 17Q LOSS WILD-TYPE
  CLUS_1              166                 76
  CLUS_2               83                 47
  CLUS_3              138                 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
  17Q LOSS MUTATED       71     60    132    117
  17Q LOSS WILD-TYPE     42     38     55     53
D72V6, multiclass
        clus
vv       17Q LOSS MUTATED 17Q LOSS WILD-TYPE
  CLUS_1               71                 42
  CLUS_2               60                 38
  CLUS_3              132                 55
  CLUS_4              117                 53
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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       98    122     53
  17Q LOSS WILD-TYPE     48     67     23
D72V7, multiclass
        clus
vv       17Q LOSS MUTATED 17Q LOSS WILD-TYPE
  CLUS_1               98                 48
  CLUS_2              122                 67
  CLUS_3               53                 23
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  17Q LOSS MUTATED       91     34     37    111
  17Q LOSS WILD-TYPE     52     20     23     43
D72V8, multiclass
        clus
vv       17Q LOSS MUTATED 17Q LOSS WILD-TYPE
  CLUS_1               91                 52
  CLUS_2               34                 20
  CLUS_3               37                 23
  CLUS_4              111                 43
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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       64     72     66
  17Q LOSS WILD-TYPE     15     37     46
D72V9, multiclass
        clus
vv       17Q LOSS MUTATED 17Q LOSS WILD-TYPE
  CLUS_1               64                 15
  CLUS_2               72                 37
  CLUS_3               66                 46
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  17Q LOSS MUTATED      107     39     56
  17Q LOSS WILD-TYPE     39     20     39
D72V10, multiclass
        clus
vv       17Q LOSS MUTATED 17Q LOSS WILD-TYPE
  CLUS_1              107                 39
  CLUS_2               39                 20
  CLUS_3               56                 39
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  17Q LOSS MUTATED       39     94     97     72
  17Q LOSS WILD-TYPE     32     41     44     28
D72V11, multiclass
        clus
vv       17Q LOSS MUTATED 17Q LOSS WILD-TYPE
  CLUS_1               39                 32
  CLUS_2               94                 41
  CLUS_3               97                 44
  CLUS_4               72                 28
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  17Q LOSS MUTATED       66     51    113     72
  17Q LOSS WILD-TYPE     39     20     52     34
D72V12, multiclass
        clus
vv       17Q LOSS MUTATED 17Q LOSS WILD-TYPE
  CLUS_1               66                 39
  CLUS_2               51                 20
  CLUS_3              113                 52
  CLUS_4               72                 34
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  17Q LOSS MUTATED        5      4      4      4
  17Q LOSS WILD-TYPE      1      2      1      1
D72V13, multiclass
        clus
vv       17Q LOSS MUTATED 17Q LOSS WILD-TYPE
  CLUS_1                5                  1
  CLUS_2                4                  2
  CLUS_3                4                  1
  CLUS_4                4                  1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  17Q LOSS MUTATED        4      2      2      2      4      3
  17Q LOSS WILD-TYPE      1      0      0      2      1      1
D72V14, multiclass
        clus
vv       17Q LOSS MUTATED 17Q LOSS WILD-TYPE
  CLUS_1                4                  1
  CLUS_2                2                  0
  CLUS_3                2                  0
  CLUS_4                2                  2
  CLUS_5                4                  1
  CLUS_6                3                  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"

Clustering(73) Variable = 18P LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  18P LOSS MUTATED       66     52     49     59
  18P LOSS WILD-TYPE    110     60     69     92
D73V1, multiclass
        clus
vv       18P LOSS MUTATED 18P LOSS WILD-TYPE
  CLUS_1               66                110
  CLUS_2               52                 60
  CLUS_3               49                 69
  CLUS_4               59                 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
  18P LOSS MUTATED      123     66     37
  18P LOSS WILD-TYPE    187     92     52
D73V2, multiclass
        clus
vv       18P LOSS MUTATED 18P LOSS WILD-TYPE
  CLUS_1              123                187
  CLUS_2               66                 92
  CLUS_3               37                 52
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  18P LOSS MUTATED       82     54     91
  18P LOSS WILD-TYPE     99     77    152
D73V3, multiclass
        clus
vv       18P LOSS MUTATED 18P LOSS WILD-TYPE
  CLUS_1               82                 99
  CLUS_2               54                 77
  CLUS_3               91                152
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_10 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  18P LOSS MUTATED       37      16     20     26     21     39     12     17
  18P LOSS WILD-TYPE     48      41     38     56     13     36     22     19
                    vv
clus                 CLUS_8 CLUS_9
  18P LOSS MUTATED       21     18
  18P LOSS WILD-TYPE     31     24
D73V4, multiclass
         clus
vv        18P LOSS MUTATED 18P LOSS WILD-TYPE
  CLUS_1                37                 48
  CLUS_10               16                 41
  CLUS_2                20                 38
  CLUS_3                26                 56
  CLUS_4                21                 13
  CLUS_5                39                 36
  CLUS_6                12                 22
  CLUS_7                17                 19
  CLUS_8                21                 31
  CLUS_9                18                 24
[1] 10  2
[1] TRUE
[1] "dimension of contingency table 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       94     59     80
  18P LOSS WILD-TYPE    148     71    127
D73V5, multiclass
        clus
vv       18P LOSS MUTATED 18P LOSS WILD-TYPE
  CLUS_1               94                148
  CLUS_2               59                 71
  CLUS_3               80                127
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger 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       40     48     82     60
  18P LOSS WILD-TYPE     73     50    105    110
D73V6, multiclass
        clus
vv       18P LOSS MUTATED 18P LOSS WILD-TYPE
  CLUS_1               40                 73
  CLUS_2               48                 50
  CLUS_3               82                105
  CLUS_4               60                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
  18P LOSS MUTATED       63     69     36
  18P LOSS WILD-TYPE     83    120     40
D73V7, multiclass
        clus
vv       18P LOSS MUTATED 18P LOSS WILD-TYPE
  CLUS_1               63                 83
  CLUS_2               69                120
  CLUS_3               36                 40
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  18P LOSS MUTATED       56     23     30     59
  18P LOSS WILD-TYPE     87     31     30     95
D73V8, multiclass
        clus
vv       18P LOSS MUTATED 18P LOSS WILD-TYPE
  CLUS_1               56                 87
  CLUS_2               23                 31
  CLUS_3               30                 30
  CLUS_4               59                 95
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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       29     46     47
  18P LOSS WILD-TYPE     50     63     65
D73V9, multiclass
        clus
vv       18P LOSS MUTATED 18P LOSS WILD-TYPE
  CLUS_1               29                 50
  CLUS_2               46                 63
  CLUS_3               47                 65
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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     27     46
  18P LOSS WILD-TYPE     97     32     49
D73V10, multiclass
        clus
vv       18P LOSS MUTATED 18P LOSS WILD-TYPE
  CLUS_1               49                 97
  CLUS_2               27                 32
  CLUS_3               46                 49
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  18P LOSS MUTATED       28     60     59     37
  18P LOSS WILD-TYPE     43     75     82     63
D73V11, multiclass
        clus
vv       18P LOSS MUTATED 18P LOSS WILD-TYPE
  CLUS_1               28                 43
  CLUS_2               60                 75
  CLUS_3               59                 82
  CLUS_4               37                 63
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger 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       47     30     69     38
  18P LOSS WILD-TYPE     58     41     96     68
D73V12, multiclass
        clus
vv       18P LOSS MUTATED 18P LOSS WILD-TYPE
  CLUS_1               47                 58
  CLUS_2               30                 41
  CLUS_3               69                 96
  CLUS_4               38                 68
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger 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        1      2      2      3
  18P LOSS WILD-TYPE      5      4      3      2
D73V13, multiclass
        clus
vv       18P LOSS MUTATED 18P LOSS WILD-TYPE
  CLUS_1                1                  5
  CLUS_2                2                  4
  CLUS_3                2                  3
  CLUS_4                3                  2
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  18P LOSS MUTATED        1      0      0      2      2      3
  18P LOSS WILD-TYPE      4      2      2      2      3      1
D73V14, multiclass
        clus
vv       18P LOSS MUTATED 18P LOSS WILD-TYPE
  CLUS_1                1                  4
  CLUS_2                0                  2
  CLUS_3                0                  2
  CLUS_4                2                  2
  CLUS_5                2                  3
  CLUS_6                3                  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"

Clustering(74) Variable = 18Q LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  18Q LOSS MUTATED       92     60     61     65
  18Q LOSS WILD-TYPE     84     52     57     86
D74V1, multiclass
        clus
vv       18Q LOSS MUTATED 18Q LOSS WILD-TYPE
  CLUS_1               92                 84
  CLUS_2               60                 52
  CLUS_3               61                 57
  CLUS_4               65                 86
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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      152     79     47
  18Q LOSS WILD-TYPE    158     79     42
D74V2, multiclass
        clus
vv       18Q LOSS MUTATED 18Q LOSS WILD-TYPE
  CLUS_1              152                158
  CLUS_2               79                 79
  CLUS_3               47                 42
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  18Q LOSS MUTATED       96     64    118
  18Q LOSS WILD-TYPE     85     67    125
D74V3, multiclass
        clus
vv       18Q LOSS MUTATED 18Q LOSS WILD-TYPE
  CLUS_1               96                 85
  CLUS_2               64                 67
  CLUS_3              118                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_10 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  18Q LOSS MUTATED       43      28     26     38     20     40     18     17
  18Q LOSS WILD-TYPE     42      29     32     44     14     35     16     19
                    vv
clus                 CLUS_8 CLUS_9
  18Q LOSS MUTATED       28     20
  18Q LOSS WILD-TYPE     24     22
D74V4, multiclass
         clus
vv        18Q LOSS MUTATED 18Q LOSS WILD-TYPE
  CLUS_1                43                 42
  CLUS_10               28                 29
  CLUS_2                26                 32
  CLUS_3                38                 44
  CLUS_4                20                 14
  CLUS_5                40                 35
  CLUS_6                18                 16
  CLUS_7                17                 19
  CLUS_8                28                 24
  CLUS_9                20                 22
[1] 10  2
[1] TRUE
[1] "dimension of contingency table 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      114     65    109
  18Q LOSS WILD-TYPE    128     65     98
D74V5, multiclass
        clus
vv       18Q LOSS MUTATED 18Q LOSS WILD-TYPE
  CLUS_1              114                128
  CLUS_2               65                 65
  CLUS_3              109                 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 CLUS_4
  18Q LOSS MUTATED       55     54     96     80
  18Q LOSS WILD-TYPE     58     44     91     90
D74V6, multiclass
        clus
vv       18Q LOSS MUTATED 18Q LOSS WILD-TYPE
  CLUS_1               55                 58
  CLUS_2               54                 44
  CLUS_3               96                 91
  CLUS_4               80                 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
  18Q LOSS MUTATED       74     89     37
  18Q LOSS WILD-TYPE     72    100     39
D74V7, multiclass
        clus
vv       18Q LOSS MUTATED 18Q LOSS WILD-TYPE
  CLUS_1               74                 72
  CLUS_2               89                100
  CLUS_3               37                 39
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  18Q LOSS MUTATED       69     27     36     68
  18Q LOSS WILD-TYPE     74     27     24     86
D74V8, multiclass
        clus
vv       18Q LOSS MUTATED 18Q LOSS WILD-TYPE
  CLUS_1               69                 74
  CLUS_2               27                 27
  CLUS_3               36                 24
  CLUS_4               68                 86
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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       36     60     55
  18Q LOSS WILD-TYPE     43     49     57
D74V9, multiclass
        clus
vv       18Q LOSS MUTATED 18Q LOSS WILD-TYPE
  CLUS_1               36                 43
  CLUS_2               60                 49
  CLUS_3               55                 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
  18Q LOSS MUTATED       62     37     52
  18Q LOSS WILD-TYPE     84     22     43
D74V10, multiclass
        clus
vv       18Q LOSS MUTATED 18Q LOSS WILD-TYPE
  CLUS_1               62                 84
  CLUS_2               37                 22
  CLUS_3               52                 43
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  18Q LOSS MUTATED       36     72     72     47
  18Q LOSS WILD-TYPE     35     63     69     53
D74V11, multiclass
        clus
vv       18Q LOSS MUTATED 18Q LOSS WILD-TYPE
  CLUS_1               36                 35
  CLUS_2               72                 63
  CLUS_3               72                 69
  CLUS_4               47                 53
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger 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       57     38     83     49
  18Q LOSS WILD-TYPE     48     33     82     57
D74V12, multiclass
        clus
vv       18Q LOSS MUTATED 18Q LOSS WILD-TYPE
  CLUS_1               57                 48
  CLUS_2               38                 33
  CLUS_3               83                 82
  CLUS_4               49                 57
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  18Q LOSS MUTATED        1      3      4      3
  18Q LOSS WILD-TYPE      5      3      1      2
D74V13, multiclass
        clus
vv       18Q LOSS MUTATED 18Q LOSS WILD-TYPE
  CLUS_1                1                  5
  CLUS_2                3                  3
  CLUS_3                4                  1
  CLUS_4                3                  2
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  18Q LOSS MUTATED        1      2      1      1      3      3
  18Q LOSS WILD-TYPE      4      0      1      3      2      1
D74V14, multiclass
        clus
vv       18Q LOSS MUTATED 18Q LOSS WILD-TYPE
  CLUS_1                1                  4
  CLUS_2                2                  0
  CLUS_3                1                  1
  CLUS_4                1                  3
  CLUS_5                3                  2
  CLUS_6                3                  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"

Clustering(75) Variable = 19P LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  19P LOSS MUTATED       56     37     34     52
  19P LOSS WILD-TYPE    120     75     84     99
D75V1, multiclass
        clus
vv       19P LOSS MUTATED 19P LOSS WILD-TYPE
  CLUS_1               56                120
  CLUS_2               37                 75
  CLUS_3               34                 84
  CLUS_4               52                 99
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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      100     46     33
  19P LOSS WILD-TYPE    210    112     56
D75V2, multiclass
        clus
vv       19P LOSS MUTATED 19P LOSS WILD-TYPE
  CLUS_1              100                210
  CLUS_2               46                112
  CLUS_3               33                 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
  19P LOSS MUTATED       55     43     81
  19P LOSS WILD-TYPE    126     88    162
D75V3, multiclass
        clus
vv       19P LOSS MUTATED 19P LOSS WILD-TYPE
  CLUS_1               55                126
  CLUS_2               43                 88
  CLUS_3               81                162
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_10 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  19P LOSS MUTATED       24      16     21     32      8     19     17     10
  19P LOSS WILD-TYPE     61      41     37     50     26     56     17     26
                    vv
clus                 CLUS_8 CLUS_9
  19P LOSS MUTATED       12     20
  19P LOSS WILD-TYPE     40     22
D75V4, multiclass
         clus
vv        19P LOSS MUTATED 19P LOSS WILD-TYPE
  CLUS_1                24                 61
  CLUS_10               16                 41
  CLUS_2                21                 37
  CLUS_3                32                 50
  CLUS_4                 8                 26
  CLUS_5                19                 56
  CLUS_6                17                 17
  CLUS_7                10                 26
  CLUS_8                12                 40
  CLUS_9                20                 22
[1] 10  2
[1] TRUE
[1] "dimension of contingency table 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       87     44     53
  19P LOSS WILD-TYPE    155     86    154
D75V5, multiclass
        clus
vv       19P LOSS MUTATED 19P LOSS WILD-TYPE
  CLUS_1               87                155
  CLUS_2               44                 86
  CLUS_3               53                154
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger 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       38     36     46     60
  19P LOSS WILD-TYPE     75     62    141    110
D75V6, multiclass
        clus
vv       19P LOSS MUTATED 19P LOSS WILD-TYPE
  CLUS_1               38                 75
  CLUS_2               36                 62
  CLUS_3               46                141
  CLUS_4               60                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
  19P LOSS MUTATED       36     57     32
  19P LOSS WILD-TYPE    110    132     44
D75V7, multiclass
        clus
vv       19P LOSS MUTATED 19P LOSS WILD-TYPE
  CLUS_1               36                110
  CLUS_2               57                132
  CLUS_3               32                 44
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  19P LOSS MUTATED       35     25     20     45
  19P LOSS WILD-TYPE    108     29     40    109
D75V8, multiclass
        clus
vv       19P LOSS MUTATED 19P LOSS WILD-TYPE
  CLUS_1               35                108
  CLUS_2               25                 29
  CLUS_3               20                 40
  CLUS_4               45                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
  19P LOSS MUTATED       26     36     38
  19P LOSS WILD-TYPE     53     73     74
D75V9, multiclass
        clus
vv       19P LOSS MUTATED 19P LOSS WILD-TYPE
  CLUS_1               26                 53
  CLUS_2               36                 73
  CLUS_3               38                 74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       46     26     28
  19P LOSS WILD-TYPE    100     33     67
D75V10, multiclass
        clus
vv       19P LOSS MUTATED 19P LOSS WILD-TYPE
  CLUS_1               46                100
  CLUS_2               26                 33
  CLUS_3               28                 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
  19P LOSS MUTATED       22     42     49     36
  19P LOSS WILD-TYPE     49     93     92     64
D75V11, multiclass
        clus
vv       19P LOSS MUTATED 19P LOSS WILD-TYPE
  CLUS_1               22                 49
  CLUS_2               42                 93
  CLUS_3               49                 92
  CLUS_4               36                 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
  19P LOSS MUTATED       28     26     62     33
  19P LOSS WILD-TYPE     77     45    103     73
D75V12, multiclass
        clus
vv       19P LOSS MUTATED 19P LOSS WILD-TYPE
  CLUS_1               28                 77
  CLUS_2               26                 45
  CLUS_3               62                103
  CLUS_4               33                 73
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  19P LOSS MUTATED        2      0      3      4
  19P LOSS WILD-TYPE      4      6      2      1
D75V13, multiclass
        clus
vv       19P LOSS MUTATED 19P LOSS WILD-TYPE
  CLUS_1                2                  4
  CLUS_2                0                  6
  CLUS_3                3                  2
  CLUS_4                4                  1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  19P LOSS MUTATED        2      0      2      0      2      3
  19P LOSS WILD-TYPE      3      2      0      4      3      1
D75V14, multiclass
        clus
vv       19P LOSS MUTATED 19P LOSS WILD-TYPE
  CLUS_1                2                  3
  CLUS_2                0                  2
  CLUS_3                2                  0
  CLUS_4                0                  4
  CLUS_5                2                  3
  CLUS_6                3                  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"

Clustering(76) Variable = 19Q LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  19Q LOSS MUTATED       50     32     41     45
  19Q LOSS WILD-TYPE    126     80     77    106
D76V1, multiclass
        clus
vv       19Q LOSS MUTATED 19Q LOSS WILD-TYPE
  CLUS_1               50                126
  CLUS_2               32                 80
  CLUS_3               41                 77
  CLUS_4               45                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
  19Q LOSS MUTATED       97     41     30
  19Q LOSS WILD-TYPE    213    117     59
D76V2, multiclass
        clus
vv       19Q LOSS MUTATED 19Q LOSS WILD-TYPE
  CLUS_1               97                213
  CLUS_2               41                117
  CLUS_3               30                 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
  19Q LOSS MUTATED       55     37     76
  19Q LOSS WILD-TYPE    126     94    167
D76V3, multiclass
        clus
vv       19Q LOSS MUTATED 19Q LOSS WILD-TYPE
  CLUS_1               55                126
  CLUS_2               37                 94
  CLUS_3               76                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_10 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  19Q LOSS MUTATED       26      16     18     31      7     18     17      9
  19Q LOSS WILD-TYPE     59      41     40     51     27     57     17     27
                    vv
clus                 CLUS_8 CLUS_9
  19Q LOSS MUTATED        8     18
  19Q LOSS WILD-TYPE     44     24
D76V4, multiclass
         clus
vv        19Q LOSS MUTATED 19Q LOSS WILD-TYPE
  CLUS_1                26                 59
  CLUS_10               16                 41
  CLUS_2                18                 40
  CLUS_3                31                 51
  CLUS_4                 7                 27
  CLUS_5                18                 57
  CLUS_6                17                 17
  CLUS_7                 9                 27
  CLUS_8                 8                 44
  CLUS_9                18                 24
[1] 10  2
[1] TRUE
[1] "dimension of contingency table 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       79     49     47
  19Q LOSS WILD-TYPE    163     81    160
D76V5, multiclass
        clus
vv       19Q LOSS MUTATED 19Q LOSS WILD-TYPE
  CLUS_1               79                163
  CLUS_2               49                 81
  CLUS_3               47                160
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger 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       33     31     47     60
  19Q LOSS WILD-TYPE     80     67    140    110
D76V6, multiclass
        clus
vv       19Q LOSS MUTATED 19Q LOSS WILD-TYPE
  CLUS_1               33                 80
  CLUS_2               31                 67
  CLUS_3               47                140
  CLUS_4               60                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
  19Q LOSS MUTATED       34     50     29
  19Q LOSS WILD-TYPE    112    139     47
D76V7, multiclass
        clus
vv       19Q LOSS MUTATED 19Q LOSS WILD-TYPE
  CLUS_1               34                112
  CLUS_2               50                139
  CLUS_3               29                 47
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  19Q LOSS MUTATED       33     22     18     40
  19Q LOSS WILD-TYPE    110     32     42    114
D76V8, multiclass
        clus
vv       19Q LOSS MUTATED 19Q LOSS WILD-TYPE
  CLUS_1               33                110
  CLUS_2               22                 32
  CLUS_3               18                 42
  CLUS_4               40                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
  19Q LOSS MUTATED       24     30     35
  19Q LOSS WILD-TYPE     55     79     77
D76V9, multiclass
        clus
vv       19Q LOSS MUTATED 19Q LOSS WILD-TYPE
  CLUS_1               24                 55
  CLUS_2               30                 79
  CLUS_3               35                 77
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       41     21     27
  19Q LOSS WILD-TYPE    105     38     68
D76V10, multiclass
        clus
vv       19Q LOSS MUTATED 19Q LOSS WILD-TYPE
  CLUS_1               41                105
  CLUS_2               21                 38
  CLUS_3               27                 68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger 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       21     37     45     33
  19Q LOSS WILD-TYPE     50     98     96     67
D76V11, multiclass
        clus
vv       19Q LOSS MUTATED 19Q LOSS WILD-TYPE
  CLUS_1               21                 50
  CLUS_2               37                 98
  CLUS_3               45                 96
  CLUS_4               33                 67
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger 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       24     22     59     31
  19Q LOSS WILD-TYPE     81     49    106     75
D76V12, multiclass
        clus
vv       19Q LOSS MUTATED 19Q LOSS WILD-TYPE
  CLUS_1               24                 81
  CLUS_2               22                 49
  CLUS_3               59                106
  CLUS_4               31                 75
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  19Q LOSS MUTATED        2      0      2      3
  19Q LOSS WILD-TYPE      4      6      3      2
D76V13, multiclass
        clus
vv       19Q LOSS MUTATED 19Q LOSS WILD-TYPE
  CLUS_1                2                  4
  CLUS_2                0                  6
  CLUS_3                2                  3
  CLUS_4                3                  2
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  19Q LOSS MUTATED        1      0      2      0      1      3
  19Q LOSS WILD-TYPE      4      2      0      4      4      1
D76V14, multiclass
        clus
vv       19Q LOSS MUTATED 19Q LOSS WILD-TYPE
  CLUS_1                1                  4
  CLUS_2                0                  2
  CLUS_3                2                  0
  CLUS_4                0                  4
  CLUS_5                1                  4
  CLUS_6                3                  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"

Clustering(77) Variable = 20P LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  20P LOSS MUTATED       14     10     11     13
  20P LOSS WILD-TYPE    162    102    107    138
D77V1, multiclass
        clus
vv       20P LOSS MUTATED 20P LOSS WILD-TYPE
  CLUS_1               14                162
  CLUS_2               10                102
  CLUS_3               11                107
  CLUS_4               13                138
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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       29     13      6
  20P LOSS WILD-TYPE    281    145     83
D77V2, multiclass
        clus
vv       20P LOSS MUTATED 20P LOSS WILD-TYPE
  CLUS_1               29                281
  CLUS_2               13                145
  CLUS_3                6                 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
  20P LOSS MUTATED       16      9     23
  20P LOSS WILD-TYPE    165    122    220
D77V3, multiclass
        clus
vv       20P LOSS MUTATED 20P LOSS WILD-TYPE
  CLUS_1               16                165
  CLUS_2                9                122
  CLUS_3               23                220
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_10 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  20P LOSS MUTATED        8       5      3     10      2      4      2      2
  20P LOSS WILD-TYPE     77      52     55     72     32     71     32     34
                    vv
clus                 CLUS_8 CLUS_9
  20P LOSS MUTATED        6      6
  20P LOSS WILD-TYPE     46     36
D77V4, multiclass
         clus
vv        20P LOSS MUTATED 20P LOSS WILD-TYPE
  CLUS_1                 8                 77
  CLUS_10                5                 52
  CLUS_2                 3                 55
  CLUS_3                10                 72
  CLUS_4                 2                 32
  CLUS_5                 4                 71
  CLUS_6                 2                 32
  CLUS_7                 2                 34
  CLUS_8                 6                 46
  CLUS_9                 6                 36
[1] 10  2
[1] TRUE
[1] "dimension of contingency table 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       16     14     21
  20P LOSS WILD-TYPE    226    116    186
D77V5, multiclass
        clus
vv       20P LOSS MUTATED 20P LOSS WILD-TYPE
  CLUS_1               16                226
  CLUS_2               14                116
  CLUS_3               21                186
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger 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       10      7     23     10
  20P LOSS WILD-TYPE    103     91    164    160
D77V6, multiclass
        clus
vv       20P LOSS MUTATED 20P LOSS WILD-TYPE
  CLUS_1               10                103
  CLUS_2                7                 91
  CLUS_3               23                164
  CLUS_4               10                160
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  20P LOSS MUTATED        7     19      5
  20P LOSS WILD-TYPE    139    170     71
D77V7, multiclass
        clus
vv       20P LOSS MUTATED 20P LOSS WILD-TYPE
  CLUS_1                7                139
  CLUS_2               19                170
  CLUS_3                5                 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
  20P LOSS MUTATED        7      3      5     16
  20P LOSS WILD-TYPE    136     51     55    138
D77V8, multiclass
        clus
vv       20P LOSS MUTATED 20P LOSS WILD-TYPE
  CLUS_1                7                136
  CLUS_2                3                 51
  CLUS_3                5                 55
  CLUS_4               16                138
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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        5      8     13
  20P LOSS WILD-TYPE     74    101     99
D77V9, multiclass
        clus
vv       20P LOSS MUTATED 20P LOSS WILD-TYPE
  CLUS_1                5                 74
  CLUS_2                8                101
  CLUS_3               13                 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
  20P LOSS MUTATED        9      7     10
  20P LOSS WILD-TYPE    137     52     85
D77V10, multiclass
        clus
vv       20P LOSS MUTATED 20P LOSS WILD-TYPE
  CLUS_1                9                137
  CLUS_2                7                 52
  CLUS_3               10                 85
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger 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        3     14     13     11
  20P LOSS WILD-TYPE     68    121    128     89
D77V11, multiclass
        clus
vv       20P LOSS MUTATED 20P LOSS WILD-TYPE
  CLUS_1                3                 68
  CLUS_2               14                121
  CLUS_3               13                128
  CLUS_4               11                 89
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger 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       13      7     12      9
  20P LOSS WILD-TYPE     92     64    153     97
D77V12, multiclass
        clus
vv       20P LOSS MUTATED 20P LOSS WILD-TYPE
  CLUS_1               13                 92
  CLUS_2                7                 64
  CLUS_3               12                153
  CLUS_4                9                 97
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  20P LOSS MUTATED        0      0      0      2
  20P LOSS WILD-TYPE      6      6      5      3
D77V13, multiclass
[1] "Remove cluster labels:" "20P LOSS MUTATED"      
clus
  20P LOSS MUTATED 20P LOSS WILD-TYPE 
                 2                 20 
        TCGA-04-1652         TCGA-09-2050         TCGA-09-2054 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-13-0908         TCGA-23-2077         TCGA-24-1928 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-24-2036         TCGA-24-2288         TCGA-24-2289 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-24-2290         TCGA-24-2297         TCGA-25-2399 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-25-2400         TCGA-25-2404         TCGA-57-1994 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-59-2363         TCGA-61-1918         TCGA-61-2098 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-61-2109         TCGA-61-2111 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  20P LOSS MUTATED        0      0      0      0      0      2
  20P LOSS WILD-TYPE      5      2      2      4      5      2
D77V14, multiclass
[1] "Remove cluster labels:" "20P LOSS MUTATED"      
clus
  20P LOSS MUTATED 20P LOSS WILD-TYPE 
                 2                 20 
        TCGA-04-1652         TCGA-09-2050         TCGA-09-2054 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-13-0908         TCGA-23-2077         TCGA-24-1928 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-24-2036         TCGA-24-2288         TCGA-24-2289 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-24-2290         TCGA-24-2297         TCGA-25-2399 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-25-2400         TCGA-25-2404         TCGA-57-1994 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-59-2363         TCGA-61-1918         TCGA-61-2098 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-61-2109         TCGA-61-2111 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 

Clustering(78) Variable = 20Q LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  20Q LOSS MUTATED        8      4      9     10
  20Q LOSS WILD-TYPE    168    108    109    141
D78V1, multiclass
        clus
vv       20Q LOSS MUTATED 20Q LOSS WILD-TYPE
  CLUS_1                8                168
  CLUS_2                4                108
  CLUS_3                9                109
  CLUS_4               10                141
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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       20      7      4
  20Q LOSS WILD-TYPE    290    151     85
D78V2, multiclass
        clus
vv       20Q LOSS MUTATED 20Q LOSS WILD-TYPE
  CLUS_1               20                290
  CLUS_2                7                151
  CLUS_3                4                 85
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       13      2     16
  20Q LOSS WILD-TYPE    168    129    227
D78V3, multiclass
        clus
vv       20Q LOSS MUTATED 20Q LOSS WILD-TYPE
  CLUS_1               13                168
  CLUS_2                2                129
  CLUS_3               16                227
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_10 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  20Q LOSS MUTATED        7       4      1      8      0      4      2      1
  20Q LOSS WILD-TYPE     78      53     57     74     34     71     32     35
                    vv
clus                 CLUS_8 CLUS_9
  20Q LOSS MUTATED        2      2
  20Q LOSS WILD-TYPE     50     40
D78V4, multiclass
         clus
vv        20Q LOSS MUTATED 20Q LOSS WILD-TYPE
  CLUS_1                 7                 78
  CLUS_10                4                 53
  CLUS_2                 1                 57
  CLUS_3                 8                 74
  CLUS_4                 0                 34
  CLUS_5                 4                 71
  CLUS_6                 2                 32
  CLUS_7                 1                 35
  CLUS_8                 2                 50
  CLUS_9                 2                 40
[1] 10  2
[1] TRUE
[1] "dimension of contingency table 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       11      9     13
  20Q LOSS WILD-TYPE    231    121    194
D78V5, multiclass
        clus
vv       20Q LOSS MUTATED 20Q LOSS WILD-TYPE
  CLUS_1               11                231
  CLUS_2                9                121
  CLUS_3               13                194
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger 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        6      4     14      8
  20Q LOSS WILD-TYPE    107     94    173    162
D78V6, multiclass
        clus
vv       20Q LOSS MUTATED 20Q LOSS WILD-TYPE
  CLUS_1                6                107
  CLUS_2                4                 94
  CLUS_3               14                173
  CLUS_4                8                162
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  20Q LOSS MUTATED        4     15      2
  20Q LOSS WILD-TYPE    142    174     74
D78V7, multiclass
        clus
vv       20Q LOSS MUTATED 20Q LOSS WILD-TYPE
  CLUS_1                4                142
  CLUS_2               15                174
  CLUS_3                2                 74
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger 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        4      4      2     11
  20Q LOSS WILD-TYPE    139     50     58    143
D78V8, multiclass
        clus
vv       20Q LOSS MUTATED 20Q LOSS WILD-TYPE
  CLUS_1                4                139
  CLUS_2                4                 50
  CLUS_3                2                 58
  CLUS_4               11                143
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  20Q LOSS MUTATED        2      4      9
  20Q LOSS WILD-TYPE     77    105    103
D78V9, multiclass
        clus
vv       20Q LOSS MUTATED 20Q LOSS WILD-TYPE
  CLUS_1                2                 77
  CLUS_2                4                105
  CLUS_3                9                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
  20Q LOSS MUTATED        5      4      6
  20Q LOSS WILD-TYPE    141     55     89
D78V10, multiclass
        clus
vv       20Q LOSS MUTATED 20Q LOSS WILD-TYPE
  CLUS_1                5                141
  CLUS_2                4                 55
  CLUS_3                6                 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 CLUS_4
  20Q LOSS MUTATED        3     10      6      9
  20Q LOSS WILD-TYPE     68    125    135     91
D78V11, multiclass
        clus
vv       20Q LOSS MUTATED 20Q LOSS WILD-TYPE
  CLUS_1                3                 68
  CLUS_2               10                125
  CLUS_3                6                135
  CLUS_4                9                 91
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger 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       10      4     10      4
  20Q LOSS WILD-TYPE     95     67    155    102
D78V12, multiclass
        clus
vv       20Q LOSS MUTATED 20Q LOSS WILD-TYPE
  CLUS_1               10                 95
  CLUS_2                4                 67
  CLUS_3               10                155
  CLUS_4                4                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
  20Q LOSS MUTATED        0      0      0      2
  20Q LOSS WILD-TYPE      6      6      5      3
D78V13, multiclass
[1] "Remove cluster labels:" "20Q LOSS MUTATED"      
clus
  20Q LOSS MUTATED 20Q LOSS WILD-TYPE 
                 2                 20 
        TCGA-04-1652         TCGA-09-2050         TCGA-09-2054 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-13-0908         TCGA-23-2077         TCGA-24-1928 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-24-2036         TCGA-24-2288         TCGA-24-2289 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-24-2290         TCGA-24-2297         TCGA-25-2399 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-25-2400         TCGA-25-2404         TCGA-57-1994 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-59-2363         TCGA-61-1918         TCGA-61-2098 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-61-2109         TCGA-61-2111 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  20Q LOSS MUTATED        0      0      0      0      0      2
  20Q LOSS WILD-TYPE      5      2      2      4      5      2
D78V14, multiclass
[1] "Remove cluster labels:" "20Q LOSS MUTATED"      
clus
  20Q LOSS MUTATED 20Q LOSS WILD-TYPE 
                 2                 20 
        TCGA-04-1652         TCGA-09-2050         TCGA-09-2054 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-13-0908         TCGA-23-2077         TCGA-24-1928 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-24-2036         TCGA-24-2288         TCGA-24-2289 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-24-2290         TCGA-24-2297         TCGA-25-2399 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-25-2400         TCGA-25-2404         TCGA-57-1994 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-59-2363         TCGA-61-1918         TCGA-61-2098 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-61-2109         TCGA-61-2111 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 

Clustering(79) Variable = 21Q LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  21Q LOSS MUTATED       63     37     40     54
  21Q LOSS WILD-TYPE    113     75     78     97
D79V1, multiclass
        clus
vv       21Q LOSS MUTATED 21Q LOSS WILD-TYPE
  CLUS_1               63                113
  CLUS_2               37                 75
  CLUS_3               40                 78
  CLUS_4               54                 97
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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      106     48     40
  21Q LOSS WILD-TYPE    204    110     49
D79V2, multiclass
        clus
vv       21Q LOSS MUTATED 21Q LOSS WILD-TYPE
  CLUS_1              106                204
  CLUS_2               48                110
  CLUS_3               40                 49
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  21Q LOSS MUTATED       58     44     92
  21Q LOSS WILD-TYPE    123     87    151
D79V3, multiclass
        clus
vv       21Q LOSS MUTATED 21Q LOSS WILD-TYPE
  CLUS_1               58                123
  CLUS_2               44                 87
  CLUS_3               92                151
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_10 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  21Q LOSS MUTATED       28      19     16     27      6     29     15     16
  21Q LOSS WILD-TYPE     57      38     42     55     28     46     19     20
                    vv
clus                 CLUS_8 CLUS_9
  21Q LOSS MUTATED       24     14
  21Q LOSS WILD-TYPE     28     28
D79V4, multiclass
         clus
vv        21Q LOSS MUTATED 21Q LOSS WILD-TYPE
  CLUS_1                28                 57
  CLUS_10               19                 38
  CLUS_2                16                 42
  CLUS_3                27                 55
  CLUS_4                 6                 28
  CLUS_5                29                 46
  CLUS_6                15                 19
  CLUS_7                16                 20
  CLUS_8                24                 28
  CLUS_9                14                 28
[1] 10  2
[1] TRUE
[1] "dimension of contingency table 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       99     42     61
  21Q LOSS WILD-TYPE    143     88    146
D79V5, multiclass
        clus
vv       21Q LOSS MUTATED 21Q LOSS WILD-TYPE
  CLUS_1               99                143
  CLUS_2               42                 88
  CLUS_3               61                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 CLUS_4
  21Q LOSS MUTATED       30     38     58     71
  21Q LOSS WILD-TYPE     83     60    129     99
D79V6, multiclass
        clus
vv       21Q LOSS MUTATED 21Q LOSS WILD-TYPE
  CLUS_1               30                 83
  CLUS_2               38                 60
  CLUS_3               58                129
  CLUS_4               71                 99
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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       47     58     29
  21Q LOSS WILD-TYPE     99    131     47
D79V7, multiclass
        clus
vv       21Q LOSS MUTATED 21Q LOSS WILD-TYPE
  CLUS_1               47                 99
  CLUS_2               58                131
  CLUS_3               29                 47
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  21Q LOSS MUTATED       49     18     16     51
  21Q LOSS WILD-TYPE     94     36     44    103
D79V8, multiclass
        clus
vv       21Q LOSS MUTATED 21Q LOSS WILD-TYPE
  CLUS_1               49                 94
  CLUS_2               18                 36
  CLUS_3               16                 44
  CLUS_4               51                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
  21Q LOSS MUTATED       24     37     37
  21Q LOSS WILD-TYPE     55     72     75
D79V9, multiclass
        clus
vv       21Q LOSS MUTATED 21Q LOSS WILD-TYPE
  CLUS_1               24                 55
  CLUS_2               37                 72
  CLUS_3               37                 75
[1] 3 2
[1] TRUE
[1] "dimension of contingency table 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       46     23     29
  21Q LOSS WILD-TYPE    100     36     66
D79V10, multiclass
        clus
vv       21Q LOSS MUTATED 21Q LOSS WILD-TYPE
  CLUS_1               46                100
  CLUS_2               23                 36
  CLUS_3               29                 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 CLUS_4
  21Q LOSS MUTATED       16     47     50     42
  21Q LOSS WILD-TYPE     55     88     91     58
D79V11, multiclass
        clus
vv       21Q LOSS MUTATED 21Q LOSS WILD-TYPE
  CLUS_1               16                 55
  CLUS_2               47                 88
  CLUS_3               50                 91
  CLUS_4               42                 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
  21Q LOSS MUTATED       32     23     62     38
  21Q LOSS WILD-TYPE     73     48    103     68
D79V12, multiclass
        clus
vv       21Q LOSS MUTATED 21Q LOSS WILD-TYPE
  CLUS_1               32                 73
  CLUS_2               23                 48
  CLUS_3               62                103
  CLUS_4               38                 68
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  21Q LOSS MUTATED        3      1      1      1
  21Q LOSS WILD-TYPE      3      5      4      4
D79V13, multiclass
        clus
vv       21Q LOSS MUTATED 21Q LOSS WILD-TYPE
  CLUS_1                3                  3
  CLUS_2                1                  5
  CLUS_3                1                  4
  CLUS_4                1                  4
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  21Q LOSS MUTATED        3      0      1      1      1      0
  21Q LOSS WILD-TYPE      2      2      1      3      4      4
D79V14, multiclass
        clus
vv       21Q LOSS MUTATED 21Q LOSS WILD-TYPE
  CLUS_1                3                  2
  CLUS_2                0                  2
  CLUS_3                1                  1
  CLUS_4                1                  3
  CLUS_5                1                  4
  CLUS_6                0                  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"

Clustering(80) Variable = 22Q LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  22Q LOSS MUTATED      149     81     85     98
  22Q LOSS WILD-TYPE     27     31     33     53
D80V1, multiclass
        clus
vv       22Q LOSS MUTATED 22Q LOSS WILD-TYPE
  CLUS_1              149                 27
  CLUS_2               81                 31
  CLUS_3               85                 33
  CLUS_4               98                 53
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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      225    114     74
  22Q LOSS WILD-TYPE     85     44     15
D80V2, multiclass
        clus
vv       22Q LOSS MUTATED 22Q LOSS WILD-TYPE
  CLUS_1              225                 85
  CLUS_2              114                 44
  CLUS_3               74                 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
  22Q LOSS MUTATED      131     87    195
  22Q LOSS WILD-TYPE     50     44     48
D80V3, multiclass
        clus
vv       22Q LOSS MUTATED 22Q LOSS WILD-TYPE
  CLUS_1              131                 50
  CLUS_2               87                 44
  CLUS_3              195                 48
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_10 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  22Q LOSS MUTATED       56      40     43     62     25     54     29     27
  22Q LOSS WILD-TYPE     29      17     15     20      9     21      5      9
                    vv
clus                 CLUS_8 CLUS_9
  22Q LOSS MUTATED       46     31
  22Q LOSS WILD-TYPE      6     11
D80V4, multiclass
         clus
vv        22Q LOSS MUTATED 22Q LOSS WILD-TYPE
  CLUS_1                56                 29
  CLUS_10               40                 17
  CLUS_2                43                 15
  CLUS_3                62                 20
  CLUS_4                25                  9
  CLUS_5                54                 21
  CLUS_6                29                  5
  CLUS_7                27                  9
  CLUS_8                46                  6
  CLUS_9                31                 11
[1] 10  2
[1] TRUE
[1] "dimension of contingency table 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      206     87    138
  22Q LOSS WILD-TYPE     36     43     69
D80V5, multiclass
        clus
vv       22Q LOSS MUTATED 22Q LOSS WILD-TYPE
  CLUS_1              206                 36
  CLUS_2               87                 43
  CLUS_3              138                 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
  22Q LOSS MUTATED       89     85    118    129
  22Q LOSS WILD-TYPE     24     13     69     41
D80V6, multiclass
        clus
vv       22Q LOSS MUTATED 22Q LOSS WILD-TYPE
  CLUS_1               89                 24
  CLUS_2               85                 13
  CLUS_3              118                 69
  CLUS_4              129                 41
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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      105    152     48
  22Q LOSS WILD-TYPE     41     37     28
D80V7, multiclass
        clus
vv       22Q LOSS MUTATED 22Q LOSS WILD-TYPE
  CLUS_1              105                 41
  CLUS_2              152                 37
  CLUS_3               48                 28
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  22Q LOSS MUTATED       97     37     46    125
  22Q LOSS WILD-TYPE     46     17     14     29
D80V8, multiclass
        clus
vv       22Q LOSS MUTATED 22Q LOSS WILD-TYPE
  CLUS_1               97                 46
  CLUS_2               37                 17
  CLUS_3               46                 14
  CLUS_4              125                 29
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  22Q LOSS MUTATED       54     88     82
  22Q LOSS WILD-TYPE     25     21     30
D80V9, multiclass
        clus
vv       22Q LOSS MUTATED 22Q LOSS WILD-TYPE
  CLUS_1               54                 25
  CLUS_2               88                 21
  CLUS_3               82                 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
  22Q LOSS MUTATED      102     52     70
  22Q LOSS WILD-TYPE     44      7     25
D80V10, multiclass
        clus
vv       22Q LOSS MUTATED 22Q LOSS WILD-TYPE
  CLUS_1              102                 44
  CLUS_2               52                  7
  CLUS_3               70                 25
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  22Q LOSS MUTATED       46    108    108     80
  22Q LOSS WILD-TYPE     25     27     33     20
D80V11, multiclass
        clus
vv       22Q LOSS MUTATED 22Q LOSS WILD-TYPE
  CLUS_1               46                 25
  CLUS_2              108                 27
  CLUS_3              108                 33
  CLUS_4               80                 20
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  22Q LOSS MUTATED       79     56    130     77
  22Q LOSS WILD-TYPE     26     15     35     29
D80V12, multiclass
        clus
vv       22Q LOSS MUTATED 22Q LOSS WILD-TYPE
  CLUS_1               79                 26
  CLUS_2               56                 15
  CLUS_3              130                 35
  CLUS_4               77                 29
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  22Q LOSS MUTATED        4      5      3      5
  22Q LOSS WILD-TYPE      2      1      2      0
D80V13, multiclass
        clus
vv       22Q LOSS MUTATED 22Q LOSS WILD-TYPE
  CLUS_1                4                  2
  CLUS_2                5                  1
  CLUS_3                3                  2
  CLUS_4                5                  0
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  22Q LOSS MUTATED        4      2      2      3      2      4
  22Q LOSS WILD-TYPE      1      0      0      1      3      0
D80V14, multiclass
        clus
vv       22Q LOSS MUTATED 22Q LOSS WILD-TYPE
  CLUS_1                4                  1
  CLUS_2                2                  0
  CLUS_3                2                  0
  CLUS_4                3                  1
  CLUS_5                2                  3
  CLUS_6                4                  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"

Clustering(81) Variable = XP LOSS MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  XP LOSS MUTATED       96     55     68     96
  XP LOSS WILD-TYPE     80     57     50     55
D81V1, multiclass
        clus
vv       XP LOSS MUTATED XP LOSS WILD-TYPE
  CLUS_1              96                80
  CLUS_2              55                57
  CLUS_3              68                50
  CLUS_4              96                55
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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      184     83     48
  XP LOSS WILD-TYPE    126     75     41
D81V2, multiclass
        clus
vv       XP LOSS MUTATED XP LOSS WILD-TYPE
  CLUS_1             184               126
  CLUS_2              83                75
  CLUS_3              48                41
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  XP LOSS MUTATED       98     75    142
  XP LOSS WILD-TYPE     83     56    101
D81V3, multiclass
        clus
vv       XP LOSS MUTATED XP LOSS WILD-TYPE
  CLUS_1              98                83
  CLUS_2              75                56
  CLUS_3             142               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_10 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  XP LOSS MUTATED       44      34     32     47     17     47     18     21
  XP LOSS WILD-TYPE     41      23     26     35     17     28     16     15
                   vv
clus                CLUS_8 CLUS_9
  XP LOSS MUTATED       26     29
  XP LOSS WILD-TYPE     26     13
D81V4, multiclass
         clus
vv        XP LOSS MUTATED XP LOSS WILD-TYPE
  CLUS_1               44                41
  CLUS_10              34                23
  CLUS_2               32                26
  CLUS_3               47                35
  CLUS_4               17                17
  CLUS_5               47                28
  CLUS_6               18                16
  CLUS_7               21                15
  CLUS_8               26                26
  CLUS_9               29                13
[1] 10  2
[1] TRUE
[1] "dimension of contingency table 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      124     75    129
  XP LOSS WILD-TYPE    118     55     78
D81V5, multiclass
        clus
vv       XP LOSS MUTATED XP LOSS WILD-TYPE
  CLUS_1             124               118
  CLUS_2              75                55
  CLUS_3             129                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 CLUS_4
  XP LOSS MUTATED       50     55    121     98
  XP LOSS WILD-TYPE     63     43     66     72
D81V6, multiclass
        clus
vv       XP LOSS MUTATED XP LOSS WILD-TYPE
  CLUS_1              50                63
  CLUS_2              55                43
  CLUS_3             121                66
  CLUS_4              98                72
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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       76    112     43
  XP LOSS WILD-TYPE     70     77     33
D81V7, multiclass
        clus
vv       XP LOSS MUTATED XP LOSS WILD-TYPE
  CLUS_1              76                70
  CLUS_2             112                77
  CLUS_3              43                33
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  XP LOSS MUTATED       65     34     39     93
  XP LOSS WILD-TYPE     78     20     21     61
D81V8, multiclass
        clus
vv       XP LOSS MUTATED XP LOSS WILD-TYPE
  CLUS_1              65                78
  CLUS_2              34                20
  CLUS_3              39                21
  CLUS_4              93                61
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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       48     60     62
  XP LOSS WILD-TYPE     31     49     50
D81V9, multiclass
        clus
vv       XP LOSS MUTATED XP LOSS WILD-TYPE
  CLUS_1              48                31
  CLUS_2              60                49
  CLUS_3              62                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
  XP LOSS MUTATED       82     34     54
  XP LOSS WILD-TYPE     64     25     41
D81V10, multiclass
        clus
vv       XP LOSS MUTATED XP LOSS WILD-TYPE
  CLUS_1              82                64
  CLUS_2              34                25
  CLUS_3              54                41
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  XP LOSS MUTATED       31     78     87     66
  XP LOSS WILD-TYPE     40     57     54     34
D81V11, multiclass
        clus
vv       XP LOSS MUTATED XP LOSS WILD-TYPE
  CLUS_1              31                40
  CLUS_2              78                57
  CLUS_3              87                54
  CLUS_4              66                34
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  XP LOSS MUTATED       65     42     90     65
  XP LOSS WILD-TYPE     40     29     75     41
D81V12, multiclass
        clus
vv       XP LOSS MUTATED XP LOSS WILD-TYPE
  CLUS_1              65                40
  CLUS_2              42                29
  CLUS_3              90                75
  CLUS_4              65                41
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  XP LOSS MUTATED        5      6      3      4
  XP LOSS WILD-TYPE      1      0      2      1
D81V13, multiclass
        clus
vv       XP LOSS MUTATED XP LOSS WILD-TYPE
  CLUS_1               5                 1
  CLUS_2               6                 0
  CLUS_3               3                 2
  CLUS_4               4                 1
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  XP LOSS MUTATED        4      2      2      4      3      3
  XP LOSS WILD-TYPE      1      0      0      0      2      1
D81V14, multiclass
        clus
vv       XP LOSS MUTATED XP LOSS WILD-TYPE
  CLUS_1               4                 1
  CLUS_2               2                 0
  CLUS_3               2                 0
  CLUS_4               4                 0
  CLUS_5               3                 2
  CLUS_6               3                 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"

Clustering(82) Variable = XQ LOSS MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  XQ LOSS MUTATED       83     49     60     81
  XQ LOSS WILD-TYPE     93     63     58     70
D82V1, multiclass
        clus
vv       XQ LOSS MUTATED XQ LOSS WILD-TYPE
  CLUS_1              83                93
  CLUS_2              49                63
  CLUS_3              60                58
  CLUS_4              81                70
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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      158     72     43
  XQ LOSS WILD-TYPE    152     86     46
D82V2, multiclass
        clus
vv       XQ LOSS MUTATED XQ LOSS WILD-TYPE
  CLUS_1             158               152
  CLUS_2              72                86
  CLUS_3              43                46
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  XQ LOSS MUTATED       89     61    123
  XQ LOSS WILD-TYPE     92     70    120
D82V3, multiclass
        clus
vv       XQ LOSS MUTATED XQ LOSS WILD-TYPE
  CLUS_1              89                92
  CLUS_2              61                70
  CLUS_3             123               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_10 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  XQ LOSS MUTATED       39      29     29     42     15     38     16     19
  XQ LOSS WILD-TYPE     46      28     29     40     19     37     18     17
                   vv
clus                CLUS_8 CLUS_9
  XQ LOSS MUTATED       22     24
  XQ LOSS WILD-TYPE     30     18
D82V4, multiclass
         clus
vv        XQ LOSS MUTATED XQ LOSS WILD-TYPE
  CLUS_1               39                46
  CLUS_10              29                28
  CLUS_2               29                29
  CLUS_3               42                40
  CLUS_4               15                19
  CLUS_5               38                37
  CLUS_6               16                18
  CLUS_7               19                17
  CLUS_8               22                30
  CLUS_9               24                18
[1] 10  2
[1] TRUE
[1] "dimension of contingency table 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      102     72    111
  XQ LOSS WILD-TYPE    140     58     96
D82V5, multiclass
        clus
vv       XQ LOSS MUTATED XQ LOSS WILD-TYPE
  CLUS_1             102               140
  CLUS_2              72                58
  CLUS_3             111                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 CLUS_4
  XQ LOSS MUTATED       44     48    113     77
  XQ LOSS WILD-TYPE     69     50     74     93
D82V6, multiclass
        clus
vv       XQ LOSS MUTATED XQ LOSS WILD-TYPE
  CLUS_1              44                69
  CLUS_2              48                50
  CLUS_3             113                74
  CLUS_4              77                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
  XQ LOSS MUTATED       62     93     40
  XQ LOSS WILD-TYPE     84     96     36
D82V7, multiclass
        clus
vv       XQ LOSS MUTATED XQ LOSS WILD-TYPE
  CLUS_1              62                84
  CLUS_2              93                96
  CLUS_3              40                36
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  XQ LOSS MUTATED       56     31     34     74
  XQ LOSS WILD-TYPE     87     23     26     80
D82V8, multiclass
        clus
vv       XQ LOSS MUTATED XQ LOSS WILD-TYPE
  CLUS_1              56                87
  CLUS_2              31                23
  CLUS_3              34                26
  CLUS_4              74                80
[1] 4 2
[1] TRUE
[1] "dimension of contingency table 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       42     52     52
  XQ LOSS WILD-TYPE     37     57     60
D82V9, multiclass
        clus
vv       XQ LOSS MUTATED XQ LOSS WILD-TYPE
  CLUS_1              42                37
  CLUS_2              52                57
  CLUS_3              52                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
  XQ LOSS MUTATED       74     29     43
  XQ LOSS WILD-TYPE     72     30     52
D82V10, multiclass
        clus
vv       XQ LOSS MUTATED XQ LOSS WILD-TYPE
  CLUS_1              74                72
  CLUS_2              29                30
  CLUS_3              43                52
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  XQ LOSS MUTATED       28     67     70     58
  XQ LOSS WILD-TYPE     43     68     71     42
D82V11, multiclass
        clus
vv       XQ LOSS MUTATED XQ LOSS WILD-TYPE
  CLUS_1              28                43
  CLUS_2              67                68
  CLUS_3              70                71
  CLUS_4              58                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
  XQ LOSS MUTATED       57     34     79     53
  XQ LOSS WILD-TYPE     48     37     86     53
D82V12, multiclass
        clus
vv       XQ LOSS MUTATED XQ LOSS WILD-TYPE
  CLUS_1              57                48
  CLUS_2              34                37
  CLUS_3              79                86
  CLUS_4              53                53
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  XQ LOSS MUTATED        4      5      3      3
  XQ LOSS WILD-TYPE      2      1      2      2
D82V13, multiclass
        clus
vv       XQ LOSS MUTATED XQ LOSS WILD-TYPE
  CLUS_1               4                 2
  CLUS_2               5                 1
  CLUS_3               3                 2
  CLUS_4               3                 2
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  XQ LOSS MUTATED        3      2      2      3      3      2
  XQ LOSS WILD-TYPE      2      0      0      1      2      2
D82V14, multiclass
        clus
vv       XQ LOSS MUTATED XQ LOSS WILD-TYPE
  CLUS_1               3                 2
  CLUS_2               2                 0
  CLUS_3               2                 0
  CLUS_4               3                 1
  CLUS_5               3                 2
  CLUS_6               2                 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"
