[1] "ofn"        "-oTKIRC-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/KIRC-TP/22555002/KIRC-TP.transferedmergedcluster.txt"
[1] "dfn:"
[1] "/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_Correlate_Genomic_Events_Preprocess/KIRC-TP/22531285/transformed.cor.cli.txt"

nPatients in clinical file=537, in cluster file=528, common to both=528
[1] "Reduce the number of clustering variables from 82 to 80."
[1]  80 528
[1] "1P GAIN MUTATION ANALYSIS"
[1] 3
  1P GAIN MUTATED 1P GAIN WILD-TYPE 
               22               506 
  1P GAIN MUTATED 1P GAIN WILD-TYPE 
               22               506 
[1] "1Q GAIN MUTATION ANALYSIS"
[1] 3
  1Q GAIN MUTATED 1Q GAIN WILD-TYPE 
               51               477 
  1Q GAIN MUTATED 1Q GAIN WILD-TYPE 
               51               477 
[1] "2P GAIN MUTATION ANALYSIS"
[1] 3
  2P GAIN MUTATED 2P GAIN WILD-TYPE 
               78               450 
  2P GAIN MUTATED 2P GAIN WILD-TYPE 
               78               450 
[1] "2Q GAIN MUTATION ANALYSIS"
[1] 3
  2Q GAIN MUTATED 2Q GAIN WILD-TYPE 
               79               449 
  2Q GAIN MUTATED 2Q GAIN WILD-TYPE 
               79               449 
[1] "3P GAIN MUTATION ANALYSIS"
[1] 3
  3P GAIN MUTATED 3P GAIN WILD-TYPE 
               20               508 
  3P GAIN MUTATED 3P GAIN WILD-TYPE 
               20               508 
[1] "3Q GAIN MUTATION ANALYSIS"
[1] 3
  3Q GAIN MUTATED 3Q GAIN WILD-TYPE 
               60               468 
  3Q GAIN MUTATED 3Q GAIN WILD-TYPE 
               60               468 
[1] "4P GAIN MUTATION ANALYSIS"
[1] 3
  4P GAIN MUTATED 4P GAIN WILD-TYPE 
               13               515 
  4P GAIN MUTATED 4P GAIN WILD-TYPE 
               13               515 
[1] "4Q GAIN MUTATION ANALYSIS"
[1] 3
  4Q GAIN MUTATED 4Q GAIN WILD-TYPE 
               13               515 
  4Q GAIN MUTATED 4Q GAIN WILD-TYPE 
               13               515 
[1] "5P GAIN MUTATION ANALYSIS"
[1] 3
  5P GAIN MUTATED 5P GAIN WILD-TYPE 
              191               337 
  5P GAIN MUTATED 5P GAIN WILD-TYPE 
              191               337 
[1] "5Q GAIN MUTATION ANALYSIS"
[1] 3
  5Q GAIN MUTATED 5Q GAIN WILD-TYPE 
              210               318 
  5Q GAIN MUTATED 5Q GAIN WILD-TYPE 
              210               318 
[1] "6P GAIN MUTATION ANALYSIS"
[1] 3
  6P GAIN MUTATED 6P GAIN WILD-TYPE 
               11               517 
  6P GAIN MUTATED 6P GAIN WILD-TYPE 
               11               517 
[1] "6Q GAIN MUTATION ANALYSIS"
[1] 3
  6Q GAIN MUTATED 6Q GAIN WILD-TYPE 
                9               519 
  6Q GAIN MUTATED 6Q GAIN WILD-TYPE 
                9               519 
[1] "7P GAIN MUTATION ANALYSIS"
[1] 3
  7P GAIN MUTATED 7P GAIN WILD-TYPE 
              173               355 
  7P GAIN MUTATED 7P GAIN WILD-TYPE 
              173               355 
[1] "7Q GAIN MUTATION ANALYSIS"
[1] 3
  7Q GAIN MUTATED 7Q GAIN WILD-TYPE 
              173               355 
  7Q GAIN MUTATED 7Q GAIN WILD-TYPE 
              173               355 
[1] "8P GAIN MUTATION ANALYSIS"
[1] 3
  8P GAIN MUTATED 8P GAIN WILD-TYPE 
               31               497 
  8P GAIN MUTATED 8P GAIN WILD-TYPE 
               31               497 
[1] "8Q GAIN MUTATION ANALYSIS"
[1] 3
  8Q GAIN MUTATED 8Q GAIN WILD-TYPE 
               61               467 
  8Q GAIN MUTATED 8Q GAIN WILD-TYPE 
               61               467 
[1] "9P GAIN MUTATION ANALYSIS"
[1] 3
  9P GAIN MUTATED 9P GAIN WILD-TYPE 
               14               514 
  9P GAIN MUTATED 9P GAIN WILD-TYPE 
               14               514 
[1] "9Q GAIN MUTATION ANALYSIS"
[1] 3
  9Q GAIN MUTATED 9Q GAIN WILD-TYPE 
               13               515 
  9Q GAIN MUTATED 9Q GAIN WILD-TYPE 
               13               515 
[1] "10P GAIN MUTATION ANALYSIS"
[1] 3
  10P GAIN MUTATED 10P GAIN WILD-TYPE 
                16                512 
  10P GAIN MUTATED 10P GAIN WILD-TYPE 
                16                512 
[1] "10Q GAIN MUTATION ANALYSIS"
[1] 3
  10Q GAIN MUTATED 10Q GAIN WILD-TYPE 
                12                516 
  10Q GAIN MUTATED 10Q GAIN WILD-TYPE 
                12                516 
[1] "11P GAIN MUTATION ANALYSIS"
[1] 3
  11P GAIN MUTATED 11P GAIN WILD-TYPE 
                31                497 
  11P GAIN MUTATED 11P GAIN WILD-TYPE 
                31                497 
[1] "11Q GAIN MUTATION ANALYSIS"
[1] 3
  11Q GAIN MUTATED 11Q GAIN WILD-TYPE 
                29                499 
  11Q GAIN MUTATED 11Q GAIN WILD-TYPE 
                29                499 
[1] "12P GAIN MUTATION ANALYSIS"
[1] 3
  12P GAIN MUTATED 12P GAIN WILD-TYPE 
               121                407 
  12P GAIN MUTATED 12P GAIN WILD-TYPE 
               121                407 
[1] "12Q GAIN MUTATION ANALYSIS"
[1] 3
  12Q GAIN MUTATED 12Q GAIN WILD-TYPE 
               122                406 
  12Q GAIN MUTATED 12Q GAIN WILD-TYPE 
               122                406 
[1] "13Q GAIN MUTATION ANALYSIS"
[1] 3
  13Q GAIN MUTATED 13Q GAIN WILD-TYPE 
                22                506 
  13Q GAIN MUTATED 13Q GAIN WILD-TYPE 
                22                506 
[1] "14Q GAIN MUTATION ANALYSIS"
[1] 3
  14Q GAIN MUTATED 14Q GAIN WILD-TYPE 
                16                512 
  14Q GAIN MUTATED 14Q GAIN WILD-TYPE 
                16                512 
[1] "15Q GAIN MUTATION ANALYSIS"
[1] 3
  15Q GAIN MUTATED 15Q GAIN WILD-TYPE 
                26                502 
  15Q GAIN MUTATED 15Q GAIN WILD-TYPE 
                26                502 
[1] "16P GAIN MUTATION ANALYSIS"
[1] 3
  16P GAIN MUTATED 16P GAIN WILD-TYPE 
               107                421 
  16P GAIN MUTATED 16P GAIN WILD-TYPE 
               107                421 
[1] "16Q GAIN MUTATION ANALYSIS"
[1] 3
  16Q GAIN MUTATED 16Q GAIN WILD-TYPE 
                99                429 
  16Q GAIN MUTATED 16Q GAIN WILD-TYPE 
                99                429 
[1] "17P GAIN MUTATION ANALYSIS"
[1] 3
  17P GAIN MUTATED 17P GAIN WILD-TYPE 
                26                502 
  17P GAIN MUTATED 17P GAIN WILD-TYPE 
                26                502 
[1] "17Q GAIN MUTATION ANALYSIS"
[1] 3
  17Q GAIN MUTATED 17Q GAIN WILD-TYPE 
                33                495 
  17Q GAIN MUTATED 17Q GAIN WILD-TYPE 
                33                495 
[1] "18P GAIN MUTATION ANALYSIS"
[1] 3
  18P GAIN MUTATED 18P GAIN WILD-TYPE 
                25                503 
  18P GAIN MUTATED 18P GAIN WILD-TYPE 
                25                503 
[1] "18Q GAIN MUTATION ANALYSIS"
[1] 3
  18Q GAIN MUTATED 18Q GAIN WILD-TYPE 
                25                503 
  18Q GAIN MUTATED 18Q GAIN WILD-TYPE 
                25                503 
[1] "19P GAIN MUTATION ANALYSIS"
[1] 3
  19P GAIN MUTATED 19P GAIN WILD-TYPE 
                51                477 
  19P GAIN MUTATED 19P GAIN WILD-TYPE 
                51                477 
[1] "19Q GAIN MUTATION ANALYSIS"
[1] 3
  19Q GAIN MUTATED 19Q GAIN WILD-TYPE 
                57                471 
  19Q GAIN MUTATED 19Q GAIN WILD-TYPE 
                57                471 
[1] "20P GAIN MUTATION ANALYSIS"
[1] 3
  20P GAIN MUTATED 20P GAIN WILD-TYPE 
               112                416 
  20P GAIN MUTATED 20P GAIN WILD-TYPE 
               112                416 
[1] "20Q GAIN MUTATION ANALYSIS"
[1] 3
  20Q GAIN MUTATED 20Q GAIN WILD-TYPE 
               115                413 
  20Q GAIN MUTATED 20Q GAIN WILD-TYPE 
               115                413 
[1] "21Q GAIN MUTATION ANALYSIS"
[1] 3
  21Q GAIN MUTATED 21Q GAIN WILD-TYPE 
                50                478 
  21Q GAIN MUTATED 21Q GAIN WILD-TYPE 
                50                478 
[1] "22Q GAIN MUTATION ANALYSIS"
[1] 3
  22Q GAIN MUTATED 22Q GAIN WILD-TYPE 
                40                488 
  22Q GAIN MUTATED 22Q GAIN WILD-TYPE 
                40                488 
[1] "XP GAIN MUTATION ANALYSIS"
[1] 3
  XP GAIN MUTATED XP GAIN WILD-TYPE 
               32               496 
  XP GAIN MUTATED XP GAIN WILD-TYPE 
               32               496 
[1] "XQ GAIN MUTATION ANALYSIS"
[1] 3
  XQ GAIN MUTATED XQ GAIN WILD-TYPE 
               31               497 
  XQ GAIN MUTATED XQ GAIN WILD-TYPE 
               31               497 
[1] "1P LOSS MUTATION ANALYSIS"
[1] 3
  1P LOSS MUTATED 1P LOSS WILD-TYPE 
               60               468 
  1P LOSS MUTATED 1P LOSS WILD-TYPE 
               60               468 
[1] "1Q LOSS MUTATION ANALYSIS"
[1] 3
  1Q LOSS MUTATED 1Q LOSS WILD-TYPE 
               37               491 
  1Q LOSS MUTATED 1Q LOSS WILD-TYPE 
               37               491 
[1] "2P LOSS MUTATION ANALYSIS"
[1] 3
  2P LOSS MUTATED 2P LOSS WILD-TYPE 
               14               514 
  2P LOSS MUTATED 2P LOSS WILD-TYPE 
               14               514 
[1] "2Q LOSS MUTATION ANALYSIS"
[1] 3
  2Q LOSS MUTATED 2Q LOSS WILD-TYPE 
               14               514 
  2Q LOSS MUTATED 2Q LOSS WILD-TYPE 
               14               514 
[1] "3P LOSS MUTATION ANALYSIS"
[1] 3
  3P LOSS MUTATED 3P LOSS WILD-TYPE 
              379               149 
  3P LOSS MUTATED 3P LOSS WILD-TYPE 
              379               149 
[1] "3Q LOSS MUTATION ANALYSIS"
[1] 3
  3Q LOSS MUTATED 3Q LOSS WILD-TYPE 
              102               426 
  3Q LOSS MUTATED 3Q LOSS WILD-TYPE 
              102               426 
[1] "4P LOSS MUTATION ANALYSIS"
[1] 3
  4P LOSS MUTATED 4P LOSS WILD-TYPE 
               72               456 
  4P LOSS MUTATED 4P LOSS WILD-TYPE 
               72               456 
[1] "4Q LOSS MUTATION ANALYSIS"
[1] 3
  4Q LOSS MUTATED 4Q LOSS WILD-TYPE 
               65               463 
  4Q LOSS MUTATED 4Q LOSS WILD-TYPE 
               65               463 
[1] "5P LOSS MUTATION ANALYSIS"
[1] 3
  5P LOSS MUTATED 5P LOSS WILD-TYPE 
                8               520 
  5P LOSS MUTATED 5P LOSS WILD-TYPE 
                8               520 
[1] "5Q LOSS MUTATION ANALYSIS"
[1] 3
  5Q LOSS MUTATED 5Q LOSS WILD-TYPE 
                7               521 
  5Q LOSS MUTATED 5Q LOSS WILD-TYPE 
                7               521 
[1] "6P LOSS MUTATION ANALYSIS"
[1] 3
  6P LOSS MUTATED 6P LOSS WILD-TYPE 
              100               428 
  6P LOSS MUTATED 6P LOSS WILD-TYPE 
              100               428 
[1] "6Q LOSS MUTATION ANALYSIS"
[1] 3
  6Q LOSS MUTATED 6Q LOSS WILD-TYPE 
              128               400 
  6Q LOSS MUTATED 6Q LOSS WILD-TYPE 
              128               400 
[1] "8P LOSS MUTATION ANALYSIS"
[1] 3
  8P LOSS MUTATED 8P LOSS WILD-TYPE 
              137               391 
  8P LOSS MUTATED 8P LOSS WILD-TYPE 
              137               391 
[1] "8Q LOSS MUTATION ANALYSIS"
[1] 3
  8Q LOSS MUTATED 8Q LOSS WILD-TYPE 
               65               463 
  8Q LOSS MUTATED 8Q LOSS WILD-TYPE 
               65               463 
[1] "9P LOSS MUTATION ANALYSIS"
[1] 3
  9P LOSS MUTATED 9P LOSS WILD-TYPE 
              149               379 
  9P LOSS MUTATED 9P LOSS WILD-TYPE 
              149               379 
[1] "9Q LOSS MUTATION ANALYSIS"
[1] 3
  9Q LOSS MUTATED 9Q LOSS WILD-TYPE 
              151               377 
  9Q LOSS MUTATED 9Q LOSS WILD-TYPE 
              151               377 
[1] "10P LOSS MUTATION ANALYSIS"
[1] 3
  10P LOSS MUTATED 10P LOSS WILD-TYPE 
                68                460 
  10P LOSS MUTATED 10P LOSS WILD-TYPE 
                68                460 
[1] "10Q LOSS MUTATION ANALYSIS"
[1] 3
  10Q LOSS MUTATED 10Q LOSS WILD-TYPE 
                89                439 
  10Q LOSS MUTATED 10Q LOSS WILD-TYPE 
                89                439 
[1] "11P LOSS MUTATION ANALYSIS"
[1] 3
  11P LOSS MUTATED 11P LOSS WILD-TYPE 
                18                510 
  11P LOSS MUTATED 11P LOSS WILD-TYPE 
                18                510 
[1] "11Q LOSS MUTATION ANALYSIS"
[1] 3
  11Q LOSS MUTATED 11Q LOSS WILD-TYPE 
                23                505 
  11Q LOSS MUTATED 11Q LOSS WILD-TYPE 
                23                505 
[1] "12P LOSS MUTATION ANALYSIS"
[1] 3
  12P LOSS MUTATED 12P LOSS WILD-TYPE 
                 4                524 
  12P LOSS MUTATED 12P LOSS WILD-TYPE 
                 4                524 
[1] "12Q LOSS MUTATION ANALYSIS"
[1] 3
  12Q LOSS MUTATED 12Q LOSS WILD-TYPE 
                 4                524 
  12Q LOSS MUTATED 12Q LOSS WILD-TYPE 
                 4                524 
[1] "13Q LOSS MUTATION ANALYSIS"
[1] 3
  13Q LOSS MUTATED 13Q LOSS WILD-TYPE 
                70                458 
  13Q LOSS MUTATED 13Q LOSS WILD-TYPE 
                70                458 
[1] "14Q LOSS MUTATION ANALYSIS"
[1] 3
  14Q LOSS MUTATED 14Q LOSS WILD-TYPE 
               216                312 
  14Q LOSS MUTATED 14Q LOSS WILD-TYPE 
               216                312 
[1] "15Q LOSS MUTATION ANALYSIS"
[1] 3
  15Q LOSS MUTATED 15Q LOSS WILD-TYPE 
                35                493 
  15Q LOSS MUTATED 15Q LOSS WILD-TYPE 
                35                493 
[1] "16P LOSS MUTATION ANALYSIS"
[1] 3
  16P LOSS MUTATED 16P LOSS WILD-TYPE 
                10                518 
  16P LOSS MUTATED 16P LOSS WILD-TYPE 
                10                518 
[1] "16Q LOSS MUTATION ANALYSIS"
[1] 3
  16Q LOSS MUTATED 16Q LOSS WILD-TYPE 
                16                512 
  16Q LOSS MUTATED 16Q LOSS WILD-TYPE 
                16                512 
[1] "17P LOSS MUTATION ANALYSIS"
[1] 3
  17P LOSS MUTATED 17P LOSS WILD-TYPE 
                46                482 
  17P LOSS MUTATED 17P LOSS WILD-TYPE 
                46                482 
[1] "17Q LOSS MUTATION ANALYSIS"
[1] 3
  17Q LOSS MUTATED 17Q LOSS WILD-TYPE 
                28                500 
  17Q LOSS MUTATED 17Q LOSS WILD-TYPE 
                28                500 
[1] "18P LOSS MUTATION ANALYSIS"
[1] 3
  18P LOSS MUTATED 18P LOSS WILD-TYPE 
                93                435 
  18P LOSS MUTATED 18P LOSS WILD-TYPE 
                93                435 
[1] "18Q LOSS MUTATION ANALYSIS"
[1] 3
  18Q LOSS MUTATED 18Q LOSS WILD-TYPE 
                95                433 
  18Q LOSS MUTATED 18Q LOSS WILD-TYPE 
                95                433 
[1] "19P LOSS MUTATION ANALYSIS"
[1] 3
  19P LOSS MUTATED 19P LOSS WILD-TYPE 
                11                517 
  19P LOSS MUTATED 19P LOSS WILD-TYPE 
                11                517 
[1] "19Q LOSS MUTATION ANALYSIS"
[1] 3
  19Q LOSS MUTATED 19Q LOSS WILD-TYPE 
                 4                524 
  19Q LOSS MUTATED 19Q LOSS WILD-TYPE 
                 4                524 
[1] "20P LOSS MUTATION ANALYSIS"
[1] 3
  20P LOSS MUTATED 20P LOSS WILD-TYPE 
                 8                520 
  20P LOSS MUTATED 20P LOSS WILD-TYPE 
                 8                520 
[1] "20Q LOSS MUTATION ANALYSIS"
[1] 3
  20Q LOSS MUTATED 20Q LOSS WILD-TYPE 
                 3                525 
  20Q LOSS MUTATED 20Q LOSS WILD-TYPE 
                 3                525 
[1] "21Q LOSS MUTATION ANALYSIS"
[1] 3
  21Q LOSS MUTATED 21Q LOSS WILD-TYPE 
                55                473 
  21Q LOSS MUTATED 21Q LOSS WILD-TYPE 
                55                473 
[1] "22Q LOSS MUTATION ANALYSIS"
[1] 3
  22Q LOSS MUTATED 22Q LOSS WILD-TYPE 
                39                489 
  22Q LOSS MUTATED 22Q LOSS WILD-TYPE 
                39                489 
[1] "XP LOSS MUTATION ANALYSIS"
[1] 3
  XP LOSS MUTATED XP LOSS WILD-TYPE 
               45               483 
  XP LOSS MUTATED XP LOSS WILD-TYPE 
               45               483 
[1] "XQ LOSS MUTATION ANALYSIS"
[1] 3
  XQ LOSS MUTATED XQ LOSS WILD-TYPE 
               45               483 
  XQ LOSS MUTATED XQ LOSS WILD-TYPE 
               45               483 
[1] "data2feature, selection=ALL"
 [1] "MRNA_CNMF"                   "MRNA_CHIERARCHICAL"         
 [3] "CN_CNMF"                     "METHLYATION_CNMF"           
 [5] "RPPA_CNMF"                   "RPPA_CHIERARCHICAL"         
 [7] "MRNASEQ_CNMF"                "MRNASEQ_CHIERARCHICAL"      
 [9] "MIRSEQ_CNMF"                 "MIRSEQ_CHIERARCHICAL"       
[11] "MIRSEQ_MATURE_CNMF"          "MIRSEQ_MATURE_CHIERARCHICAL"

Input Data has 12 rows and 528 columns.

Variable 1:'MRNA_CNMF':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 2:'MRNA_CHIERARCHICAL':	nDistinctValues=7,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 3:'CN_CNMF':	nDistinctValues=6,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 4:'METHLYATION_CNMF':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 5:'RPPA_CNMF':	nDistinctValues=6,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 6:'RPPA_CHIERARCHICAL':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 7:'MRNASEQ_CNMF':	nDistinctValues=5,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 8:'MRNASEQ_CHIERARCHICAL':	nDistinctValues=6,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 9:'MIRSEQ_CNMF':	nDistinctValues=5,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 10:'MIRSEQ_CHIERARCHICAL':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 11:'MIRSEQ_MATURE_CNMF':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 12:'MIRSEQ_MATURE_CHIERARCHICAL':	nDistinctValues=4,	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 528 columns, 0 survival variables, and 12 non-survival variables.
[1] "* survival variables: "
NULL
[1] "* non-survival variables: "
 [1] "MRNA_CNMF"                   "MRNA_CHIERARCHICAL"         
 [3] "CN_CNMF"                     "METHLYATION_CNMF"           
 [5] "RPPA_CNMF"                   "RPPA_CHIERARCHICAL"         
 [7] "MRNASEQ_CNMF"                "MRNASEQ_CHIERARCHICAL"      
 [9] "MIRSEQ_CNMF"                 "MIRSEQ_CHIERARCHICAL"       
[11] "MIRSEQ_MATURE_CNMF"          "MIRSEQ_MATURE_CHIERARCHICAL"
MRNA_CNMF, nv=3, binary=FALSE, numeric=FALSE
MRNA_CHIERARCHICAL, nv=7, binary=FALSE, numeric=FALSE
CN_CNMF, nv=6, binary=FALSE, numeric=FALSE
METHLYATION_CNMF, nv=4, binary=FALSE, numeric=FALSE
RPPA_CNMF, nv=6, binary=FALSE, numeric=FALSE
RPPA_CHIERARCHICAL, nv=4, binary=FALSE, numeric=FALSE
MRNASEQ_CNMF, nv=5, binary=FALSE, numeric=FALSE
MRNASEQ_CHIERARCHICAL, nv=6, binary=FALSE, numeric=FALSE
MIRSEQ_CNMF, nv=5, binary=FALSE, numeric=FALSE
MIRSEQ_CHIERARCHICAL, nv=3, binary=FALSE, numeric=FALSE
MIRSEQ_MATURE_CNMF, nv=4, binary=FALSE, numeric=FALSE
MIRSEQ_MATURE_CHIERARCHICAL, nv=4, binary=FALSE, numeric=FALSE

Clustering(1) Variable = 1P GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  1P GAIN MUTATED        2      1      0
  1P GAIN WILD-TYPE     29     24     14
D1V1, multiclass
        clus
vv       1P GAIN MUTATED 1P GAIN WILD-TYPE
  CLUS_1               2                29
  CLUS_2               1                24
  CLUS_3               0                14
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  1P GAIN MUTATED        0      0      0      1      1      1      0
  1P GAIN WILD-TYPE     11     12      4     10     12      8     10
D1V2, multiclass
        clus
vv       1P GAIN MUTATED 1P GAIN WILD-TYPE
  CLUS_1               0                11
  CLUS_2               0                12
  CLUS_3               0                 4
  CLUS_4               1                10
  CLUS_5               1                12
  CLUS_6               1                 8
  CLUS_7               0                10
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  1P GAIN MUTATED        1      2     15      4      0      0
  1P GAIN WILD-TYPE     60     78    141     78     80     69
D1V3, multiclass
        clus
vv       1P GAIN MUTATED 1P GAIN WILD-TYPE
  CLUS_1               1                60
  CLUS_2               2                78
  CLUS_3              15               141
  CLUS_4               4                78
  CLUS_5               0                80
  CLUS_6               0                69
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  1P GAIN MUTATED        0      6      5      0
  1P GAIN WILD-TYPE     67     64     91     81
D1V4, multiclass
        clus
vv       1P GAIN MUTATED 1P GAIN WILD-TYPE
  CLUS_1               0                67
  CLUS_2               6                64
  CLUS_3               5                91
  CLUS_4               0                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 CLUS_5 CLUS_6
  1P GAIN MUTATED        3      1      9      3      4      0
  1P GAIN WILD-TYPE     85     85     81     79     88     33
D1V5, multiclass
        clus
vv       1P GAIN MUTATED 1P GAIN WILD-TYPE
  CLUS_1               3                85
  CLUS_2               1                85
  CLUS_3               9                81
  CLUS_4               3                79
  CLUS_5               4                88
  CLUS_6               0                33
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  1P GAIN MUTATED        5      5      6      4
  1P GAIN WILD-TYPE    130    107     79    135
D1V6, multiclass
        clus
vv       1P GAIN MUTATED 1P GAIN WILD-TYPE
  CLUS_1               5               130
  CLUS_2               5               107
  CLUS_3               6                79
  CLUS_4               4               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 CLUS_4 CLUS_5
  1P GAIN MUTATED        2      2      4     12      1
  1P GAIN WILD-TYPE     79    168     77    141     39
D1V7, multiclass
        clus
vv       1P GAIN MUTATED 1P GAIN WILD-TYPE
  CLUS_1               2                79
  CLUS_2               2               168
  CLUS_3               4                77
  CLUS_4              12               141
  CLUS_5               1                39
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- 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        1      1      4     11      4      0
  1P GAIN WILD-TYPE    116     32    179    121     31     25
D1V8, multiclass
        clus
vv       1P GAIN MUTATED 1P GAIN WILD-TYPE
  CLUS_1               1               116
  CLUS_2               1                32
  CLUS_3               4               179
  CLUS_4              11               121
  CLUS_5               4                31
  CLUS_6               0                25
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  1P GAIN MUTATED        0      2      3     15      2
  1P GAIN WILD-TYPE     91     55    183    104     55
D1V9, multiclass
        clus
vv       1P GAIN MUTATED 1P GAIN WILD-TYPE
  CLUS_1               0                91
  CLUS_2               2                55
  CLUS_3               3               183
  CLUS_4              15               104
  CLUS_5               2                55
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  1P GAIN MUTATED       10      3      9
  1P GAIN WILD-TYPE    163    206    119
D1V10, multiclass
        clus
vv       1P GAIN MUTATED 1P GAIN WILD-TYPE
  CLUS_1              10               163
  CLUS_2               3               206
  CLUS_3               9               119
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  1P GAIN MUTATED        1      0      1      2
  1P GAIN WILD-TYPE     38     21     43     36
D1V11, multiclass
        clus
vv       1P GAIN MUTATED 1P GAIN WILD-TYPE
  CLUS_1               1                38
  CLUS_2               0                21
  CLUS_3               1                43
  CLUS_4               2                36
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  1P GAIN MUTATED        0      3      0      1
  1P GAIN WILD-TYPE     40     49     28     21
D1V12, multiclass
        clus
vv       1P GAIN MUTATED 1P GAIN WILD-TYPE
  CLUS_1               0                40
  CLUS_2               3                49
  CLUS_3               0                28
  CLUS_4               1                21
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(2) Variable = 1Q GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  1Q GAIN MUTATED        3      5      1
  1Q GAIN WILD-TYPE     28     20     13
D2V1, multiclass
        clus
vv       1Q GAIN MUTATED 1Q GAIN WILD-TYPE
  CLUS_1               3                28
  CLUS_2               5                20
  CLUS_3               1                13
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  1Q GAIN MUTATED        1      3      0      2      1      1      1
  1Q GAIN WILD-TYPE     10      9      4      9     12      8      9
D2V2, multiclass
        clus
vv       1Q GAIN MUTATED 1Q GAIN WILD-TYPE
  CLUS_1               1                10
  CLUS_2               3                 9
  CLUS_3               0                 4
  CLUS_4               2                 9
  CLUS_5               1                12
  CLUS_6               1                 8
  CLUS_7               1                 9
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  1Q GAIN MUTATED        4      3     36      8      0      0
  1Q GAIN WILD-TYPE     57     77    120     74     80     69
D2V3, multiclass
        clus
vv       1Q GAIN MUTATED 1Q GAIN WILD-TYPE
  CLUS_1               4                57
  CLUS_2               3                77
  CLUS_3              36               120
  CLUS_4               8                74
  CLUS_5               0                80
  CLUS_6               0                69
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  1Q GAIN MUTATED        3      9     11      2
  1Q GAIN WILD-TYPE     64     61     85     79
D2V4, multiclass
        clus
vv       1Q GAIN MUTATED 1Q GAIN WILD-TYPE
  CLUS_1               3                64
  CLUS_2               9                61
  CLUS_3              11                85
  CLUS_4               2                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 CLUS_5 CLUS_6
  1Q GAIN MUTATED        6      6     16      9      7      2
  1Q GAIN WILD-TYPE     82     80     74     73     85     31
D2V5, multiclass
        clus
vv       1Q GAIN MUTATED 1Q GAIN WILD-TYPE
  CLUS_1               6                82
  CLUS_2               6                80
  CLUS_3              16                74
  CLUS_4               9                73
  CLUS_5               7                85
  CLUS_6               2                31
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  1Q GAIN MUTATED        8     15     10     13
  1Q GAIN WILD-TYPE    127     97     75    126
D2V6, multiclass
        clus
vv       1Q GAIN MUTATED 1Q GAIN WILD-TYPE
  CLUS_1               8               127
  CLUS_2              15                97
  CLUS_3              10                75
  CLUS_4              13               126
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  1Q GAIN MUTATED        2     12      6     28      1
  1Q GAIN WILD-TYPE     79    158     75    125     39
D2V7, multiclass
        clus
vv       1Q GAIN MUTATED 1Q GAIN WILD-TYPE
  CLUS_1               2                79
  CLUS_2              12               158
  CLUS_3               6                75
  CLUS_4              28               125
  CLUS_5               1                39
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- 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        4      2     15     22      6      0
  1Q GAIN WILD-TYPE    113     31    168    110     29     25
D2V8, multiclass
        clus
vv       1Q GAIN MUTATED 1Q GAIN WILD-TYPE
  CLUS_1               4               113
  CLUS_2               2                31
  CLUS_3              15               168
  CLUS_4              22               110
  CLUS_5               6                29
  CLUS_6               0                25
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  1Q GAIN MUTATED        2      8     12     24      3
  1Q GAIN WILD-TYPE     89     49    174     95     54
D2V9, multiclass
        clus
vv       1Q GAIN MUTATED 1Q GAIN WILD-TYPE
  CLUS_1               2                89
  CLUS_2               8                49
  CLUS_3              12               174
  CLUS_4              24                95
  CLUS_5               3                54
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  1Q GAIN MUTATED       19     14     16
  1Q GAIN WILD-TYPE    154    195    112
D2V10, multiclass
        clus
vv       1Q GAIN MUTATED 1Q GAIN WILD-TYPE
  CLUS_1              19               154
  CLUS_2              14               195
  CLUS_3              16               112
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  1Q GAIN MUTATED        4      0      2      3
  1Q GAIN WILD-TYPE     35     21     42     35
D2V11, multiclass
        clus
vv       1Q GAIN MUTATED 1Q GAIN WILD-TYPE
  CLUS_1               4                35
  CLUS_2               0                21
  CLUS_3               2                42
  CLUS_4               3                35
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  1Q GAIN MUTATED        3      3      2      1
  1Q GAIN WILD-TYPE     37     49     26     21
D2V12, multiclass
        clus
vv       1Q GAIN MUTATED 1Q GAIN WILD-TYPE
  CLUS_1               3                37
  CLUS_2               3                49
  CLUS_3               2                26
  CLUS_4               1                21
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(3) Variable = 2P GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  2P GAIN MUTATED        4      2      0
  2P GAIN WILD-TYPE     27     23     14
D3V1, multiclass
        clus
vv       2P GAIN MUTATED 2P GAIN WILD-TYPE
  CLUS_1               4                27
  CLUS_2               2                23
  CLUS_3               0                14
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  2P GAIN MUTATED        0      2      0      0      3      1      0
  2P GAIN WILD-TYPE     11     10      4     11     10      8     10
D3V2, multiclass
        clus
vv       2P GAIN MUTATED 2P GAIN WILD-TYPE
  CLUS_1               0                11
  CLUS_2               2                10
  CLUS_3               0                 4
  CLUS_4               0                11
  CLUS_5               3                10
  CLUS_6               1                 8
  CLUS_7               0                10
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  2P GAIN MUTATED       19      9     30      5      9      6
  2P GAIN WILD-TYPE     42     71    126     77     71     63
D3V3, multiclass
        clus
vv       2P GAIN MUTATED 2P GAIN WILD-TYPE
  CLUS_1              19                42
  CLUS_2               9                71
  CLUS_3              30               126
  CLUS_4               5                77
  CLUS_5               9                71
  CLUS_6               6                63
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  2P GAIN MUTATED       12      8     17      9
  2P GAIN WILD-TYPE     55     62     79     72
D3V4, multiclass
        clus
vv       2P GAIN MUTATED 2P GAIN WILD-TYPE
  CLUS_1              12                55
  CLUS_2               8                62
  CLUS_3              17                79
  CLUS_4               9                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 CLUS_5 CLUS_6
  2P GAIN MUTATED       17      6     18     15     10      4
  2P GAIN WILD-TYPE     71     80     72     67     82     29
D3V5, multiclass
        clus
vv       2P GAIN MUTATED 2P GAIN WILD-TYPE
  CLUS_1              17                71
  CLUS_2               6                80
  CLUS_3              18                72
  CLUS_4              15                67
  CLUS_5              10                82
  CLUS_6               4                29
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  2P GAIN MUTATED       17     16     14     23
  2P GAIN WILD-TYPE    118     96     71    116
D3V6, multiclass
        clus
vv       2P GAIN MUTATED 2P GAIN WILD-TYPE
  CLUS_1              17               118
  CLUS_2              16                96
  CLUS_3              14                71
  CLUS_4              23               116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  2P GAIN MUTATED       10     25     10     27      5
  2P GAIN WILD-TYPE     71    145     71    126     35
D3V7, multiclass
        clus
vv       2P GAIN MUTATED 2P GAIN WILD-TYPE
  CLUS_1              10                71
  CLUS_2              25               145
  CLUS_3              10                71
  CLUS_4              27               126
  CLUS_5               5                35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  2P GAIN MUTATED       13      2     30     29      3      0
  2P GAIN WILD-TYPE    104     31    153    103     32     25
D3V8, multiclass
        clus
vv       2P GAIN MUTATED 2P GAIN WILD-TYPE
  CLUS_1              13               104
  CLUS_2               2                31
  CLUS_3              30               153
  CLUS_4              29               103
  CLUS_5               3                32
  CLUS_6               0                25
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  2P GAIN MUTATED       15      7     28     22      6
  2P GAIN WILD-TYPE     76     50    158     97     51
D3V9, multiclass
        clus
vv       2P GAIN MUTATED 2P GAIN WILD-TYPE
  CLUS_1              15                76
  CLUS_2               7                50
  CLUS_3              28               158
  CLUS_4              22                97
  CLUS_5               6                51
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  2P GAIN MUTATED       28     39     11
  2P GAIN WILD-TYPE    145    170    117
D3V10, multiclass
        clus
vv       2P GAIN MUTATED 2P GAIN WILD-TYPE
  CLUS_1              28               145
  CLUS_2              39               170
  CLUS_3              11               117
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  2P GAIN MUTATED        5      4      5      8
  2P GAIN WILD-TYPE     34     17     39     30
D3V11, multiclass
        clus
vv       2P GAIN MUTATED 2P GAIN WILD-TYPE
  CLUS_1               5                34
  CLUS_2               4                17
  CLUS_3               5                39
  CLUS_4               8                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
  2P GAIN MUTATED        6     11      4      1
  2P GAIN WILD-TYPE     34     41     24     21
D3V12, multiclass
        clus
vv       2P GAIN MUTATED 2P GAIN WILD-TYPE
  CLUS_1               6                34
  CLUS_2              11                41
  CLUS_3               4                24
  CLUS_4               1                21
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(4) Variable = 2Q GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  2Q GAIN MUTATED        4      2      0
  2Q GAIN WILD-TYPE     27     23     14
D4V1, multiclass
        clus
vv       2Q GAIN MUTATED 2Q GAIN WILD-TYPE
  CLUS_1               4                27
  CLUS_2               2                23
  CLUS_3               0                14
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  2Q GAIN MUTATED        0      2      0      0      3      1      0
  2Q GAIN WILD-TYPE     11     10      4     11     10      8     10
D4V2, multiclass
        clus
vv       2Q GAIN MUTATED 2Q GAIN WILD-TYPE
  CLUS_1               0                11
  CLUS_2               2                10
  CLUS_3               0                 4
  CLUS_4               0                11
  CLUS_5               3                10
  CLUS_6               1                 8
  CLUS_7               0                10
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  2Q GAIN MUTATED       19      9     29      6     10      6
  2Q GAIN WILD-TYPE     42     71    127     76     70     63
D4V3, multiclass
        clus
vv       2Q GAIN MUTATED 2Q GAIN WILD-TYPE
  CLUS_1              19                42
  CLUS_2               9                71
  CLUS_3              29               127
  CLUS_4               6                76
  CLUS_5              10                70
  CLUS_6               6                63
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  2Q GAIN MUTATED       11      8     17     10
  2Q GAIN WILD-TYPE     56     62     79     71
D4V4, multiclass
        clus
vv       2Q GAIN MUTATED 2Q GAIN WILD-TYPE
  CLUS_1              11                56
  CLUS_2               8                62
  CLUS_3              17                79
  CLUS_4              10                71
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  2Q GAIN MUTATED       18      8     18     14     10      4
  2Q GAIN WILD-TYPE     70     78     72     68     82     29
D4V5, multiclass
        clus
vv       2Q GAIN MUTATED 2Q GAIN WILD-TYPE
  CLUS_1              18                70
  CLUS_2               8                78
  CLUS_3              18                72
  CLUS_4              14                68
  CLUS_5              10                82
  CLUS_6               4                29
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  2Q GAIN MUTATED       18     15     14     25
  2Q GAIN WILD-TYPE    117     97     71    114
D4V6, multiclass
        clus
vv       2Q GAIN MUTATED 2Q GAIN WILD-TYPE
  CLUS_1              18               117
  CLUS_2              15                97
  CLUS_3              14                71
  CLUS_4              25               114
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  2Q GAIN MUTATED       10     28     10     26      5
  2Q GAIN WILD-TYPE     71    142     71    127     35
D4V7, multiclass
        clus
vv       2Q GAIN MUTATED 2Q GAIN WILD-TYPE
  CLUS_1              10                71
  CLUS_2              28               142
  CLUS_3              10                71
  CLUS_4              26               127
  CLUS_5               5                35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  2Q GAIN MUTATED       13      2     32     28      4      0
  2Q GAIN WILD-TYPE    104     31    151    104     31     25
D4V8, multiclass
        clus
vv       2Q GAIN MUTATED 2Q GAIN WILD-TYPE
  CLUS_1              13               104
  CLUS_2               2                31
  CLUS_3              32               151
  CLUS_4              28               104
  CLUS_5               4                31
  CLUS_6               0                25
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  2Q GAIN MUTATED       15      6     30     21      6
  2Q GAIN WILD-TYPE     76     51    156     98     51
D4V9, multiclass
        clus
vv       2Q GAIN MUTATED 2Q GAIN WILD-TYPE
  CLUS_1              15                76
  CLUS_2               6                51
  CLUS_3              30               156
  CLUS_4              21                98
  CLUS_5               6                51
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  2Q GAIN MUTATED       28     41      9
  2Q GAIN WILD-TYPE    145    168    119
D4V10, multiclass
        clus
vv       2Q GAIN MUTATED 2Q GAIN WILD-TYPE
  CLUS_1              28               145
  CLUS_2              41               168
  CLUS_3               9               119
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  2Q GAIN MUTATED        5      4      6      8
  2Q GAIN WILD-TYPE     34     17     38     30
D4V11, multiclass
        clus
vv       2Q GAIN MUTATED 2Q GAIN WILD-TYPE
  CLUS_1               5                34
  CLUS_2               4                17
  CLUS_3               6                38
  CLUS_4               8                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
  2Q GAIN MUTATED        6     11      5      1
  2Q GAIN WILD-TYPE     34     41     23     21
D4V12, multiclass
        clus
vv       2Q GAIN MUTATED 2Q GAIN WILD-TYPE
  CLUS_1               6                34
  CLUS_2              11                41
  CLUS_3               5                23
  CLUS_4               1                21
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(5) Variable = 3P GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  3P GAIN MUTATED        0      2      2
  3P GAIN WILD-TYPE     31     23     12
D5V1, multiclass
        clus
vv       3P GAIN MUTATED 3P GAIN WILD-TYPE
  CLUS_1               0                31
  CLUS_2               2                23
  CLUS_3               2                12
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  3P GAIN MUTATED        0      1      0      1      0      0      2
  3P GAIN WILD-TYPE     11     11      4     10     13      9      8
D5V2, multiclass
        clus
vv       3P GAIN MUTATED 3P GAIN WILD-TYPE
  CLUS_1               0                11
  CLUS_2               1                11
  CLUS_3               0                 4
  CLUS_4               1                10
  CLUS_5               0                13
  CLUS_6               0                 9
  CLUS_7               2                 8
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  3P GAIN MUTATED        1      5      6      0      6      2
  3P GAIN WILD-TYPE     60     75    150     82     74     67
D5V3, multiclass
        clus
vv       3P GAIN MUTATED 3P GAIN WILD-TYPE
  CLUS_1               1                60
  CLUS_2               5                75
  CLUS_3               6               150
  CLUS_4               0                82
  CLUS_5               6                74
  CLUS_6               2                67
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  3P GAIN MUTATED        4      2      5      0
  3P GAIN WILD-TYPE     63     68     91     81
D5V4, multiclass
        clus
vv       3P GAIN MUTATED 3P GAIN WILD-TYPE
  CLUS_1               4                63
  CLUS_2               2                68
  CLUS_3               5                91
  CLUS_4               0                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 CLUS_5 CLUS_6
  3P GAIN MUTATED        6      1      7      2      2      0
  3P GAIN WILD-TYPE     82     85     83     80     90     33
D5V5, multiclass
        clus
vv       3P GAIN MUTATED 3P GAIN WILD-TYPE
  CLUS_1               6                82
  CLUS_2               1                85
  CLUS_3               7                83
  CLUS_4               2                80
  CLUS_5               2                90
  CLUS_6               0                33
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  3P GAIN MUTATED        1      3     11      3
  3P GAIN WILD-TYPE    134    109     74    136
D5V6, multiclass
        clus
vv       3P GAIN MUTATED 3P GAIN WILD-TYPE
  CLUS_1               1               134
  CLUS_2               3               109
  CLUS_3              11                74
  CLUS_4               3               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 CLUS_4 CLUS_5
  3P GAIN MUTATED        9      2      1      8      0
  3P GAIN WILD-TYPE     72    168     80    145     40
D5V7, multiclass
        clus
vv       3P GAIN MUTATED 3P GAIN WILD-TYPE
  CLUS_1               9                72
  CLUS_2               2               168
  CLUS_3               1                80
  CLUS_4               8               145
  CLUS_5               0                40
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- 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        1      2      2      9      2      4
  3P GAIN WILD-TYPE    116     31    181    123     33     21
D5V8, multiclass
        clus
vv       3P GAIN MUTATED 3P GAIN WILD-TYPE
  CLUS_1               1               116
  CLUS_2               2                31
  CLUS_3               2               181
  CLUS_4               9               123
  CLUS_5               2                33
  CLUS_6               4                21
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  3P GAIN MUTATED        3      1      1     14      1
  3P GAIN WILD-TYPE     88     56    185    105     56
D5V9, multiclass
        clus
vv       3P GAIN MUTATED 3P GAIN WILD-TYPE
  CLUS_1               3                88
  CLUS_2               1                56
  CLUS_3               1               185
  CLUS_4              14               105
  CLUS_5               1                56
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  3P GAIN MUTATED        8      2     10
  3P GAIN WILD-TYPE    165    207    118
D5V10, multiclass
        clus
vv       3P GAIN MUTATED 3P GAIN WILD-TYPE
  CLUS_1               8               165
  CLUS_2               2               207
  CLUS_3              10               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
  3P GAIN MUTATED        1      0      1      3
  3P GAIN WILD-TYPE     38     21     43     35
D5V11, multiclass
        clus
vv       3P GAIN MUTATED 3P GAIN WILD-TYPE
  CLUS_1               1                38
  CLUS_2               0                21
  CLUS_3               1                43
  CLUS_4               3                35
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  3P GAIN MUTATED        1      3      0      1
  3P GAIN WILD-TYPE     39     49     28     21
D5V12, multiclass
        clus
vv       3P GAIN MUTATED 3P GAIN WILD-TYPE
  CLUS_1               1                39
  CLUS_2               3                49
  CLUS_3               0                28
  CLUS_4               1                21
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(6) Variable = 3Q GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  3Q GAIN MUTATED        1      7      2
  3Q GAIN WILD-TYPE     30     18     12
D6V1, multiclass
        clus
vv       3Q GAIN MUTATED 3Q GAIN WILD-TYPE
  CLUS_1               1                30
  CLUS_2               7                18
  CLUS_3               2                12
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  3Q GAIN MUTATED        0      2      0      5      0      1      2
  3Q GAIN WILD-TYPE     11     10      4      6     13      8      8
D6V2, multiclass
        clus
vv       3Q GAIN MUTATED 3Q GAIN WILD-TYPE
  CLUS_1               0                11
  CLUS_2               2                10
  CLUS_3               0                 4
  CLUS_4               5                 6
  CLUS_5               0                13
  CLUS_6               1                 8
  CLUS_7               2                 8
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  3Q GAIN MUTATED        6      7     26      4     14      3
  3Q GAIN WILD-TYPE     55     73    130     78     66     66
D6V3, multiclass
        clus
vv       3Q GAIN MUTATED 3Q GAIN WILD-TYPE
  CLUS_1               6                55
  CLUS_2               7                73
  CLUS_3              26               130
  CLUS_4               4                78
  CLUS_5              14                66
  CLUS_6               3                66
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  3Q GAIN MUTATED        6      9     19      0
  3Q GAIN WILD-TYPE     61     61     77     81
D6V4, multiclass
        clus
vv       3Q GAIN MUTATED 3Q GAIN WILD-TYPE
  CLUS_1               6                61
  CLUS_2               9                61
  CLUS_3              19                77
  CLUS_4               0                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 CLUS_5 CLUS_6
  3Q GAIN MUTATED       16      4     24      4      7      0
  3Q GAIN WILD-TYPE     72     82     66     78     85     33
D6V5, multiclass
        clus
vv       3Q GAIN MUTATED 3Q GAIN WILD-TYPE
  CLUS_1              16                72
  CLUS_2               4                82
  CLUS_3              24                66
  CLUS_4               4                78
  CLUS_5               7                85
  CLUS_6               0                33
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  3Q GAIN MUTATED        9     12     25      9
  3Q GAIN WILD-TYPE    126    100     60    130
D6V6, multiclass
        clus
vv       3Q GAIN MUTATED 3Q GAIN WILD-TYPE
  CLUS_1               9               126
  CLUS_2              12               100
  CLUS_3              25                60
  CLUS_4               9               130
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  3Q GAIN MUTATED       15      8      7     29      1
  3Q GAIN WILD-TYPE     66    162     74    124     39
D6V7, multiclass
        clus
vv       3Q GAIN MUTATED 3Q GAIN WILD-TYPE
  CLUS_1              15                66
  CLUS_2               8               162
  CLUS_3               7                74
  CLUS_4              29               124
  CLUS_5               1                39
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- 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        8      4      8     29      7      4
  3Q GAIN WILD-TYPE    109     29    175    103     28     21
D6V8, multiclass
        clus
vv       3Q GAIN MUTATED 3Q GAIN WILD-TYPE
  CLUS_1               8               109
  CLUS_2               4                29
  CLUS_3               8               175
  CLUS_4              29               103
  CLUS_5               7                28
  CLUS_6               4                21
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  3Q GAIN MUTATED        7      9      8     31      4
  3Q GAIN WILD-TYPE     84     48    178     88     53
D6V9, multiclass
        clus
vv       3Q GAIN MUTATED 3Q GAIN WILD-TYPE
  CLUS_1               7                84
  CLUS_2               9                48
  CLUS_3               8               178
  CLUS_4              31                88
  CLUS_5               4                53
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  3Q GAIN MUTATED       28      8     23
  3Q GAIN WILD-TYPE    145    201    105
D6V10, multiclass
        clus
vv       3Q GAIN MUTATED 3Q GAIN WILD-TYPE
  CLUS_1              28               145
  CLUS_2               8               201
  CLUS_3              23               105
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  3Q GAIN MUTATED        1      0      2     11
  3Q GAIN WILD-TYPE     38     21     42     27
D6V11, multiclass
        clus
vv       3Q GAIN MUTATED 3Q GAIN WILD-TYPE
  CLUS_1               1                38
  CLUS_2               0                21
  CLUS_3               2                42
  CLUS_4              11                27
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  3Q GAIN MUTATED        3      8      1      2
  3Q GAIN WILD-TYPE     37     44     27     20
D6V12, multiclass
        clus
vv       3Q GAIN MUTATED 3Q GAIN WILD-TYPE
  CLUS_1               3                37
  CLUS_2               8                44
  CLUS_3               1                27
  CLUS_4               2                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"

Clustering(7) Variable = 4P GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  4P GAIN MUTATED        0      1      1
  4P GAIN WILD-TYPE     31     24     13
D7V1, multiclass
[1] "Remove cluster labels:" "4P GAIN MUTATED"       
clus
  4P GAIN MUTATED 4P GAIN WILD-TYPE 
                2                68 
       TCGA-A3-3306        TCGA-A3-3307        TCGA-A3-3308        TCGA-A3-3311 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-A3-3313        TCGA-A3-3316        TCGA-A3-3317        TCGA-A3-3319 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-A3-3320        TCGA-A3-3322        TCGA-A3-3323        TCGA-A3-3324 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-A3-3325        TCGA-A3-3326        TCGA-A3-3331        TCGA-A3-3335 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-A3-3336        TCGA-A3-3343        TCGA-A3-3346        TCGA-A3-3347 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-A3-3349        TCGA-A3-3351        TCGA-A3-3352        TCGA-A3-3359 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-A3-3362        TCGA-A3-3363        TCGA-A3-3365        TCGA-A3-3372 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-A3-3378        TCGA-A3-3380        TCGA-A3-3382        TCGA-A3-3383 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-AK-3426        TCGA-AK-3427        TCGA-AK-3443        TCGA-AK-3444 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-AK-3447        TCGA-AK-3453        TCGA-AK-3455        TCGA-AK-3456 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-AK-3465        TCGA-AS-3777        TCGA-AS-3778        TCGA-B2-3923 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-B2-3924        TCGA-B2-4098        TCGA-B2-4099        TCGA-B2-4102 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-B8-4143        TCGA-B8-4148        TCGA-B8-4151        TCGA-B8-4154 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-B8-4619        TCGA-B8-4620        TCGA-BP-4161        TCGA-BP-4162 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-BP-4163        TCGA-BP-4164        TCGA-BP-4167        TCGA-CJ-4634 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-CJ-4636        TCGA-CJ-4637        TCGA-CJ-4638        TCGA-CJ-4639 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-CJ-4640        TCGA-CJ-4641        TCGA-CJ-4643        TCGA-CJ-4644 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  4P GAIN MUTATED        0      1      0      0      0      0      1
  4P GAIN WILD-TYPE     11     11      4     11     13      9      9
D7V2, multiclass
[1] "Remove cluster labels:" "4P GAIN MUTATED"       
clus
  4P GAIN MUTATED 4P GAIN WILD-TYPE 
                2                68 
       TCGA-A3-3306        TCGA-A3-3307        TCGA-A3-3308        TCGA-A3-3311 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-A3-3313        TCGA-A3-3316        TCGA-A3-3317        TCGA-A3-3319 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-A3-3320        TCGA-A3-3322        TCGA-A3-3323        TCGA-A3-3324 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-A3-3325        TCGA-A3-3326        TCGA-A3-3331        TCGA-A3-3335 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-A3-3336        TCGA-A3-3343        TCGA-A3-3346        TCGA-A3-3347 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-A3-3349        TCGA-A3-3351        TCGA-A3-3352        TCGA-A3-3359 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-A3-3362        TCGA-A3-3363        TCGA-A3-3365        TCGA-A3-3372 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-A3-3378        TCGA-A3-3380        TCGA-A3-3382        TCGA-A3-3383 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-AK-3426        TCGA-AK-3427        TCGA-AK-3443        TCGA-AK-3444 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-AK-3447        TCGA-AK-3453        TCGA-AK-3455        TCGA-AK-3456 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-AK-3465        TCGA-AS-3777        TCGA-AS-3778        TCGA-B2-3923 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-B2-3924        TCGA-B2-4098        TCGA-B2-4099        TCGA-B2-4102 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-B8-4143        TCGA-B8-4148        TCGA-B8-4151        TCGA-B8-4154 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-B8-4619        TCGA-B8-4620        TCGA-BP-4161        TCGA-BP-4162 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-BP-4163        TCGA-BP-4164        TCGA-BP-4167        TCGA-CJ-4634 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-CJ-4636        TCGA-CJ-4637        TCGA-CJ-4638        TCGA-CJ-4639 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-CJ-4640        TCGA-CJ-4641        TCGA-CJ-4643        TCGA-CJ-4644 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  4P GAIN MUTATED        2      2      4      0      0      5
  4P GAIN WILD-TYPE     59     78    152     82     80     64
D7V3, multiclass
        clus
vv       4P GAIN MUTATED 4P GAIN WILD-TYPE
  CLUS_1               2                59
  CLUS_2               2                78
  CLUS_3               4               152
  CLUS_4               0                82
  CLUS_5               0                80
  CLUS_6               5                64
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  4P GAIN MUTATED        2      0      3      0
  4P GAIN WILD-TYPE     65     70     93     81
D7V4, multiclass
        clus
vv       4P GAIN MUTATED 4P GAIN WILD-TYPE
  CLUS_1               2                65
  CLUS_2               0                70
  CLUS_3               3                93
  CLUS_4               0                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 CLUS_5 CLUS_6
  4P GAIN MUTATED        3      1      5      0      0      0
  4P GAIN WILD-TYPE     85     85     85     82     92     33
D7V5, multiclass
        clus
vv       4P GAIN MUTATED 4P GAIN WILD-TYPE
  CLUS_1               3                85
  CLUS_2               1                85
  CLUS_3               5                85
  CLUS_4               0                82
  CLUS_5               0                92
  CLUS_6               0                33
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  4P GAIN MUTATED        0      2      7      0
  4P GAIN WILD-TYPE    135    110     78    139
D7V6, multiclass
        clus
vv       4P GAIN MUTATED 4P GAIN WILD-TYPE
  CLUS_1               0               135
  CLUS_2               2               110
  CLUS_3               7                78
  CLUS_4               0               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 CLUS_4 CLUS_5
  4P GAIN MUTATED        5      0      3      2      2
  4P GAIN WILD-TYPE     76    170     78    151     38
D7V7, multiclass
        clus
vv       4P GAIN MUTATED 4P GAIN WILD-TYPE
  CLUS_1               5                76
  CLUS_2               0               170
  CLUS_3               3                78
  CLUS_4               2               151
  CLUS_5               2                38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  4P GAIN MUTATED        3      0      0      5      0      4
  4P GAIN WILD-TYPE    114     33    183    127     35     21
D7V8, multiclass
        clus
vv       4P GAIN MUTATED 4P GAIN WILD-TYPE
  CLUS_1               3               114
  CLUS_2               0                33
  CLUS_3               0               183
  CLUS_4               5               127
  CLUS_5               0                35
  CLUS_6               4                21
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  4P GAIN MUTATED        2      2      0      7      2
  4P GAIN WILD-TYPE     89     55    186    112     55
D7V9, multiclass
        clus
vv       4P GAIN MUTATED 4P GAIN WILD-TYPE
  CLUS_1               2                89
  CLUS_2               2                55
  CLUS_3               0               186
  CLUS_4               7               112
  CLUS_5               2                55
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  4P GAIN MUTATED        5      2      6
  4P GAIN WILD-TYPE    168    207    122
D7V10, multiclass
        clus
vv       4P GAIN MUTATED 4P GAIN WILD-TYPE
  CLUS_1               5               168
  CLUS_2               2               207
  CLUS_3               6               122
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  4P GAIN MUTATED        1      0      0      1
  4P GAIN WILD-TYPE     38     21     44     37
D7V11, multiclass
[1] "Remove cluster labels:" "4P GAIN MUTATED"       
clus
  4P GAIN MUTATED 4P GAIN WILD-TYPE 
                2               140 
       TCGA-3Z-A93Z        TCGA-6D-AA2E        TCGA-A3-3317        TCGA-A3-3358 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-A3-3387        TCGA-A3-A6NI        TCGA-A3-A6NJ        TCGA-A3-A6NL 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-A3-A8CQ        TCGA-A3-A8OU        TCGA-A3-A8OV        TCGA-A3-A8OW 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-A3-A8OX        TCGA-AK-3458        TCGA-AK-3465        TCGA-B0-4698 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-B0-4700        TCGA-B0-4706        TCGA-B0-4710        TCGA-B0-4712 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-B0-4810        TCGA-B0-4811        TCGA-B0-4821        TCGA-B0-4836 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-B0-4837        TCGA-B0-4852        TCGA-B0-5080        TCGA-B0-5085 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-B0-5088        TCGA-B0-5399        TCGA-B0-5691        TCGA-B0-5692 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-B0-5693        TCGA-B0-5694        TCGA-B0-5695        TCGA-B0-5696 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-B0-5699        TCGA-B0-5702        TCGA-B0-5705        TCGA-B0-5709 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-B2-3923        TCGA-B2-3924        TCGA-B2-5633        TCGA-B2-5635 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-B2-5639        TCGA-B4-5377        TCGA-B4-5836        TCGA-B8-4621 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-B8-5545        TCGA-B8-5550        TCGA-B8-5551        TCGA-B8-5552 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-B8-5553        TCGA-B8-A54H        TCGA-B8-A54I        TCGA-B8-A54J 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-B8-A54K        TCGA-B8-A7U6        TCGA-B8-A8YJ        TCGA-BP-4173 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-BP-4340        TCGA-BP-4761        TCGA-BP-4770        TCGA-BP-4787 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-BP-4789        TCGA-BP-4790        TCGA-BP-4804        TCGA-BP-4807 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-BP-4959        TCGA-BP-4961        TCGA-BP-4967        TCGA-BP-4968 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-BP-4969        TCGA-BP-4970        TCGA-BP-4974        TCGA-BP-4976 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-BP-4981        TCGA-BP-4982        TCGA-BP-4985        TCGA-BP-4988 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-BP-4992        TCGA-BP-4995        TCGA-BP-4998        TCGA-BP-5001 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-BP-5008        TCGA-BP-5009        TCGA-CJ-4870        TCGA-CJ-4875 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-CJ-4876        TCGA-CJ-4878        TCGA-CJ-4881        TCGA-CJ-4887 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-CJ-4889        TCGA-CJ-4890        TCGA-CJ-4895        TCGA-CJ-4900 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-CJ-5671        TCGA-CJ-5675        TCGA-CJ-5676        TCGA-CJ-5681 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-CJ-5683        TCGA-CJ-5686        TCGA-CJ-6031        TCGA-CJ-6032 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-CW-5585        TCGA-CW-5589        TCGA-CW-6087        TCGA-CW-6088 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-CZ-4854        TCGA-CZ-4857        TCGA-CZ-4858        TCGA-CZ-4860 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-CZ-4864        TCGA-CZ-5453        TCGA-CZ-5454        TCGA-CZ-5455 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-CZ-5457        TCGA-CZ-5459        TCGA-CZ-5462        TCGA-CZ-5463 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-CZ-5464        TCGA-CZ-5466        TCGA-CZ-5467        TCGA-CZ-5469 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-CZ-5470        TCGA-CZ-5989        TCGA-DV-5565        TCGA-DV-5566 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-DV-5569        TCGA-DV-5573        TCGA-EU-5904        TCGA-G6-A5PC 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-G6-A8L6        TCGA-G6-A8L7        TCGA-G6-A8L8        TCGA-GK-A6C7 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-MM-A563        TCGA-MM-A564        TCGA-MM-A84U        TCGA-T7-A92I 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  4P GAIN MUTATED        1      1      0      0
  4P GAIN WILD-TYPE     39     51     28     22
D7V12, multiclass
[1] "Remove cluster labels:" "4P GAIN MUTATED"       
clus
  4P GAIN MUTATED 4P GAIN WILD-TYPE 
                2               140 
       TCGA-3Z-A93Z        TCGA-6D-AA2E        TCGA-A3-3317        TCGA-A3-3358 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-A3-3387        TCGA-A3-A6NI        TCGA-A3-A6NJ        TCGA-A3-A6NL 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-A3-A8CQ        TCGA-A3-A8OU        TCGA-A3-A8OV        TCGA-A3-A8OW 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-A3-A8OX        TCGA-AK-3458        TCGA-AK-3465        TCGA-B0-4698 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-B0-4700        TCGA-B0-4706        TCGA-B0-4710        TCGA-B0-4712 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-B0-4810        TCGA-B0-4811        TCGA-B0-4821        TCGA-B0-4836 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-B0-4837        TCGA-B0-4852        TCGA-B0-5080        TCGA-B0-5085 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-B0-5088        TCGA-B0-5399        TCGA-B0-5691        TCGA-B0-5692 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-B0-5693        TCGA-B0-5694        TCGA-B0-5695        TCGA-B0-5696 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-B0-5699        TCGA-B0-5702        TCGA-B0-5705        TCGA-B0-5709 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-B2-3923        TCGA-B2-3924        TCGA-B2-5633        TCGA-B2-5635 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-B2-5639        TCGA-B4-5377        TCGA-B4-5836        TCGA-B8-4621 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-B8-5545        TCGA-B8-5550        TCGA-B8-5551        TCGA-B8-5552 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-B8-5553        TCGA-B8-A54H        TCGA-B8-A54I        TCGA-B8-A54J 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-B8-A54K        TCGA-B8-A7U6        TCGA-B8-A8YJ        TCGA-BP-4173 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-BP-4340        TCGA-BP-4761        TCGA-BP-4770        TCGA-BP-4787 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-BP-4789        TCGA-BP-4790        TCGA-BP-4804        TCGA-BP-4807 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-BP-4959        TCGA-BP-4961        TCGA-BP-4967        TCGA-BP-4968 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-BP-4969        TCGA-BP-4970        TCGA-BP-4974        TCGA-BP-4976 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-BP-4981        TCGA-BP-4982        TCGA-BP-4985        TCGA-BP-4988 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-BP-4992        TCGA-BP-4995        TCGA-BP-4998        TCGA-BP-5001 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-BP-5008        TCGA-BP-5009        TCGA-CJ-4870        TCGA-CJ-4875 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-CJ-4876        TCGA-CJ-4878        TCGA-CJ-4881        TCGA-CJ-4887 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-CJ-4889        TCGA-CJ-4890        TCGA-CJ-4895        TCGA-CJ-4900 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-CJ-5671        TCGA-CJ-5675        TCGA-CJ-5676        TCGA-CJ-5681 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-CJ-5683        TCGA-CJ-5686        TCGA-CJ-6031        TCGA-CJ-6032 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-CW-5585        TCGA-CW-5589        TCGA-CW-6087        TCGA-CW-6088 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-CZ-4854        TCGA-CZ-4857        TCGA-CZ-4858        TCGA-CZ-4860 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-CZ-4864        TCGA-CZ-5453        TCGA-CZ-5454        TCGA-CZ-5455 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-CZ-5457        TCGA-CZ-5459        TCGA-CZ-5462        TCGA-CZ-5463 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-CZ-5464        TCGA-CZ-5466        TCGA-CZ-5467        TCGA-CZ-5469 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-CZ-5470        TCGA-CZ-5989        TCGA-DV-5565        TCGA-DV-5566 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-DV-5569        TCGA-DV-5573        TCGA-EU-5904        TCGA-G6-A5PC 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-G6-A8L6        TCGA-G6-A8L7        TCGA-G6-A8L8        TCGA-GK-A6C7 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 
       TCGA-MM-A563        TCGA-MM-A564        TCGA-MM-A84U        TCGA-T7-A92I 
"4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" "4P GAIN WILD-TYPE" 

Clustering(8) Variable = 4Q GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  4Q GAIN MUTATED        0      1      1
  4Q GAIN WILD-TYPE     31     24     13
D8V1, multiclass
[1] "Remove cluster labels:" "4Q GAIN MUTATED"       
clus
  4Q GAIN MUTATED 4Q GAIN WILD-TYPE 
                2                68 
       TCGA-A3-3306        TCGA-A3-3307        TCGA-A3-3308        TCGA-A3-3311 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-A3-3313        TCGA-A3-3316        TCGA-A3-3317        TCGA-A3-3319 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-A3-3320        TCGA-A3-3322        TCGA-A3-3323        TCGA-A3-3324 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-A3-3325        TCGA-A3-3326        TCGA-A3-3331        TCGA-A3-3335 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-A3-3336        TCGA-A3-3343        TCGA-A3-3346        TCGA-A3-3347 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-A3-3349        TCGA-A3-3351        TCGA-A3-3352        TCGA-A3-3359 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-A3-3362        TCGA-A3-3363        TCGA-A3-3365        TCGA-A3-3372 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-A3-3378        TCGA-A3-3380        TCGA-A3-3382        TCGA-A3-3383 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-AK-3426        TCGA-AK-3427        TCGA-AK-3443        TCGA-AK-3444 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-AK-3447        TCGA-AK-3453        TCGA-AK-3455        TCGA-AK-3456 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-AK-3465        TCGA-AS-3777        TCGA-AS-3778        TCGA-B2-3923 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-B2-3924        TCGA-B2-4098        TCGA-B2-4099        TCGA-B2-4102 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-B8-4143        TCGA-B8-4148        TCGA-B8-4151        TCGA-B8-4154 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-B8-4619        TCGA-B8-4620        TCGA-BP-4161        TCGA-BP-4162 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-BP-4163        TCGA-BP-4164        TCGA-BP-4167        TCGA-CJ-4634 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-CJ-4636        TCGA-CJ-4637        TCGA-CJ-4638        TCGA-CJ-4639 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-CJ-4640        TCGA-CJ-4641        TCGA-CJ-4643        TCGA-CJ-4644 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  4Q GAIN MUTATED        0      1      0      0      0      0      1
  4Q GAIN WILD-TYPE     11     11      4     11     13      9      9
D8V2, multiclass
[1] "Remove cluster labels:" "4Q GAIN MUTATED"       
clus
  4Q GAIN MUTATED 4Q GAIN WILD-TYPE 
                2                68 
       TCGA-A3-3306        TCGA-A3-3307        TCGA-A3-3308        TCGA-A3-3311 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-A3-3313        TCGA-A3-3316        TCGA-A3-3317        TCGA-A3-3319 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-A3-3320        TCGA-A3-3322        TCGA-A3-3323        TCGA-A3-3324 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-A3-3325        TCGA-A3-3326        TCGA-A3-3331        TCGA-A3-3335 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-A3-3336        TCGA-A3-3343        TCGA-A3-3346        TCGA-A3-3347 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-A3-3349        TCGA-A3-3351        TCGA-A3-3352        TCGA-A3-3359 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-A3-3362        TCGA-A3-3363        TCGA-A3-3365        TCGA-A3-3372 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-A3-3378        TCGA-A3-3380        TCGA-A3-3382        TCGA-A3-3383 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-AK-3426        TCGA-AK-3427        TCGA-AK-3443        TCGA-AK-3444 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-AK-3447        TCGA-AK-3453        TCGA-AK-3455        TCGA-AK-3456 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-AK-3465        TCGA-AS-3777        TCGA-AS-3778        TCGA-B2-3923 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-B2-3924        TCGA-B2-4098        TCGA-B2-4099        TCGA-B2-4102 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-B8-4143        TCGA-B8-4148        TCGA-B8-4151        TCGA-B8-4154 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-B8-4619        TCGA-B8-4620        TCGA-BP-4161        TCGA-BP-4162 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-BP-4163        TCGA-BP-4164        TCGA-BP-4167        TCGA-CJ-4634 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-CJ-4636        TCGA-CJ-4637        TCGA-CJ-4638        TCGA-CJ-4639 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-CJ-4640        TCGA-CJ-4641        TCGA-CJ-4643        TCGA-CJ-4644 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  4Q GAIN MUTATED        2      1      5      0      0      5
  4Q GAIN WILD-TYPE     59     79    151     82     80     64
D8V3, multiclass
        clus
vv       4Q GAIN MUTATED 4Q GAIN WILD-TYPE
  CLUS_1               2                59
  CLUS_2               1                79
  CLUS_3               5               151
  CLUS_4               0                82
  CLUS_5               0                80
  CLUS_6               5                64
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  4Q GAIN MUTATED        3      0      2      0
  4Q GAIN WILD-TYPE     64     70     94     81
D8V4, multiclass
        clus
vv       4Q GAIN MUTATED 4Q GAIN WILD-TYPE
  CLUS_1               3                64
  CLUS_2               0                70
  CLUS_3               2                94
  CLUS_4               0                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 CLUS_5 CLUS_6
  4Q GAIN MUTATED        3      1      4      0      1      0
  4Q GAIN WILD-TYPE     85     85     86     82     91     33
D8V5, multiclass
        clus
vv       4Q GAIN MUTATED 4Q GAIN WILD-TYPE
  CLUS_1               3                85
  CLUS_2               1                85
  CLUS_3               4                86
  CLUS_4               0                82
  CLUS_5               1                91
  CLUS_6               0                33
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  4Q GAIN MUTATED        1      2      6      0
  4Q GAIN WILD-TYPE    134    110     79    139
D8V6, multiclass
        clus
vv       4Q GAIN MUTATED 4Q GAIN WILD-TYPE
  CLUS_1               1               134
  CLUS_2               2               110
  CLUS_3               6                79
  CLUS_4               0               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 CLUS_4 CLUS_5
  4Q GAIN MUTATED        5      0      3      2      2
  4Q GAIN WILD-TYPE     76    170     78    151     38
D8V7, multiclass
        clus
vv       4Q GAIN MUTATED 4Q GAIN WILD-TYPE
  CLUS_1               5                76
  CLUS_2               0               170
  CLUS_3               3                78
  CLUS_4               2               151
  CLUS_5               2                38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  4Q GAIN MUTATED        3      0      1      4      0      4
  4Q GAIN WILD-TYPE    114     33    182    128     35     21
D8V8, multiclass
        clus
vv       4Q GAIN MUTATED 4Q GAIN WILD-TYPE
  CLUS_1               3               114
  CLUS_2               0                33
  CLUS_3               1               182
  CLUS_4               4               128
  CLUS_5               0                35
  CLUS_6               4                21
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  4Q GAIN MUTATED        2      2      0      7      2
  4Q GAIN WILD-TYPE     89     55    186    112     55
D8V9, multiclass
        clus
vv       4Q GAIN MUTATED 4Q GAIN WILD-TYPE
  CLUS_1               2                89
  CLUS_2               2                55
  CLUS_3               0               186
  CLUS_4               7               112
  CLUS_5               2                55
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  4Q GAIN MUTATED        4      3      6
  4Q GAIN WILD-TYPE    169    206    122
D8V10, multiclass
        clus
vv       4Q GAIN MUTATED 4Q GAIN WILD-TYPE
  CLUS_1               4               169
  CLUS_2               3               206
  CLUS_3               6               122
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  4Q GAIN MUTATED        1      0      0      1
  4Q GAIN WILD-TYPE     38     21     44     37
D8V11, multiclass
[1] "Remove cluster labels:" "4Q GAIN MUTATED"       
clus
  4Q GAIN MUTATED 4Q GAIN WILD-TYPE 
                2               140 
       TCGA-3Z-A93Z        TCGA-6D-AA2E        TCGA-A3-3317        TCGA-A3-3358 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-A3-3387        TCGA-A3-A6NI        TCGA-A3-A6NJ        TCGA-A3-A6NL 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-A3-A8CQ        TCGA-A3-A8OU        TCGA-A3-A8OV        TCGA-A3-A8OW 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-A3-A8OX        TCGA-AK-3458        TCGA-AK-3465        TCGA-B0-4698 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-B0-4700        TCGA-B0-4706        TCGA-B0-4710        TCGA-B0-4712 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-B0-4810        TCGA-B0-4811        TCGA-B0-4821        TCGA-B0-4836 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-B0-4837        TCGA-B0-4852        TCGA-B0-5080        TCGA-B0-5085 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-B0-5088        TCGA-B0-5399        TCGA-B0-5691        TCGA-B0-5692 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-B0-5693        TCGA-B0-5694        TCGA-B0-5695        TCGA-B0-5696 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-B0-5699        TCGA-B0-5702        TCGA-B0-5705        TCGA-B0-5709 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-B2-3923        TCGA-B2-3924        TCGA-B2-5633        TCGA-B2-5635 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-B2-5639        TCGA-B4-5377        TCGA-B4-5836        TCGA-B8-4621 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-B8-5545        TCGA-B8-5550        TCGA-B8-5551        TCGA-B8-5552 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-B8-5553        TCGA-B8-A54H        TCGA-B8-A54I        TCGA-B8-A54J 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-B8-A54K        TCGA-B8-A7U6        TCGA-B8-A8YJ        TCGA-BP-4173 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-BP-4340        TCGA-BP-4761        TCGA-BP-4770        TCGA-BP-4787 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-BP-4789        TCGA-BP-4790        TCGA-BP-4804        TCGA-BP-4807 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-BP-4959        TCGA-BP-4961        TCGA-BP-4967        TCGA-BP-4968 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-BP-4969        TCGA-BP-4970        TCGA-BP-4974        TCGA-BP-4976 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-BP-4981        TCGA-BP-4982        TCGA-BP-4985        TCGA-BP-4988 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-BP-4992        TCGA-BP-4995        TCGA-BP-4998        TCGA-BP-5001 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-BP-5008        TCGA-BP-5009        TCGA-CJ-4870        TCGA-CJ-4875 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-CJ-4876        TCGA-CJ-4878        TCGA-CJ-4881        TCGA-CJ-4887 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-CJ-4889        TCGA-CJ-4890        TCGA-CJ-4895        TCGA-CJ-4900 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-CJ-5671        TCGA-CJ-5675        TCGA-CJ-5676        TCGA-CJ-5681 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-CJ-5683        TCGA-CJ-5686        TCGA-CJ-6031        TCGA-CJ-6032 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-CW-5585        TCGA-CW-5589        TCGA-CW-6087        TCGA-CW-6088 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-CZ-4854        TCGA-CZ-4857        TCGA-CZ-4858        TCGA-CZ-4860 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-CZ-4864        TCGA-CZ-5453        TCGA-CZ-5454        TCGA-CZ-5455 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-CZ-5457        TCGA-CZ-5459        TCGA-CZ-5462        TCGA-CZ-5463 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-CZ-5464        TCGA-CZ-5466        TCGA-CZ-5467        TCGA-CZ-5469 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-CZ-5470        TCGA-CZ-5989        TCGA-DV-5565        TCGA-DV-5566 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-DV-5569        TCGA-DV-5573        TCGA-EU-5904        TCGA-G6-A5PC 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-G6-A8L6        TCGA-G6-A8L7        TCGA-G6-A8L8        TCGA-GK-A6C7 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-MM-A563        TCGA-MM-A564        TCGA-MM-A84U        TCGA-T7-A92I 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  4Q GAIN MUTATED        1      1      0      0
  4Q GAIN WILD-TYPE     39     51     28     22
D8V12, multiclass
[1] "Remove cluster labels:" "4Q GAIN MUTATED"       
clus
  4Q GAIN MUTATED 4Q GAIN WILD-TYPE 
                2               140 
       TCGA-3Z-A93Z        TCGA-6D-AA2E        TCGA-A3-3317        TCGA-A3-3358 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-A3-3387        TCGA-A3-A6NI        TCGA-A3-A6NJ        TCGA-A3-A6NL 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-A3-A8CQ        TCGA-A3-A8OU        TCGA-A3-A8OV        TCGA-A3-A8OW 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-A3-A8OX        TCGA-AK-3458        TCGA-AK-3465        TCGA-B0-4698 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-B0-4700        TCGA-B0-4706        TCGA-B0-4710        TCGA-B0-4712 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-B0-4810        TCGA-B0-4811        TCGA-B0-4821        TCGA-B0-4836 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-B0-4837        TCGA-B0-4852        TCGA-B0-5080        TCGA-B0-5085 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-B0-5088        TCGA-B0-5399        TCGA-B0-5691        TCGA-B0-5692 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-B0-5693        TCGA-B0-5694        TCGA-B0-5695        TCGA-B0-5696 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-B0-5699        TCGA-B0-5702        TCGA-B0-5705        TCGA-B0-5709 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-B2-3923        TCGA-B2-3924        TCGA-B2-5633        TCGA-B2-5635 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-B2-5639        TCGA-B4-5377        TCGA-B4-5836        TCGA-B8-4621 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-B8-5545        TCGA-B8-5550        TCGA-B8-5551        TCGA-B8-5552 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-B8-5553        TCGA-B8-A54H        TCGA-B8-A54I        TCGA-B8-A54J 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-B8-A54K        TCGA-B8-A7U6        TCGA-B8-A8YJ        TCGA-BP-4173 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-BP-4340        TCGA-BP-4761        TCGA-BP-4770        TCGA-BP-4787 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-BP-4789        TCGA-BP-4790        TCGA-BP-4804        TCGA-BP-4807 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-BP-4959        TCGA-BP-4961        TCGA-BP-4967        TCGA-BP-4968 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-BP-4969        TCGA-BP-4970        TCGA-BP-4974        TCGA-BP-4976 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-BP-4981        TCGA-BP-4982        TCGA-BP-4985        TCGA-BP-4988 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-BP-4992        TCGA-BP-4995        TCGA-BP-4998        TCGA-BP-5001 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-BP-5008        TCGA-BP-5009        TCGA-CJ-4870        TCGA-CJ-4875 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-CJ-4876        TCGA-CJ-4878        TCGA-CJ-4881        TCGA-CJ-4887 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-CJ-4889        TCGA-CJ-4890        TCGA-CJ-4895        TCGA-CJ-4900 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-CJ-5671        TCGA-CJ-5675        TCGA-CJ-5676        TCGA-CJ-5681 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-CJ-5683        TCGA-CJ-5686        TCGA-CJ-6031        TCGA-CJ-6032 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-CW-5585        TCGA-CW-5589        TCGA-CW-6087        TCGA-CW-6088 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-CZ-4854        TCGA-CZ-4857        TCGA-CZ-4858        TCGA-CZ-4860 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-CZ-4864        TCGA-CZ-5453        TCGA-CZ-5454        TCGA-CZ-5455 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-CZ-5457        TCGA-CZ-5459        TCGA-CZ-5462        TCGA-CZ-5463 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-CZ-5464        TCGA-CZ-5466        TCGA-CZ-5467        TCGA-CZ-5469 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-CZ-5470        TCGA-CZ-5989        TCGA-DV-5565        TCGA-DV-5566 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-DV-5569        TCGA-DV-5573        TCGA-EU-5904        TCGA-G6-A5PC 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-G6-A8L6        TCGA-G6-A8L7        TCGA-G6-A8L8        TCGA-GK-A6C7 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 
       TCGA-MM-A563        TCGA-MM-A564        TCGA-MM-A84U        TCGA-T7-A92I 
"4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" "4Q GAIN WILD-TYPE" 

Clustering(9) Variable = 5P GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  5P GAIN MUTATED       10      6      3
  5P GAIN WILD-TYPE     21     19     11
D9V1, multiclass
        clus
vv       5P GAIN MUTATED 5P GAIN WILD-TYPE
  CLUS_1              10                21
  CLUS_2               6                19
  CLUS_3               3                11
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  5P GAIN MUTATED        3      4      0      2      4      3      3
  5P GAIN WILD-TYPE      8      8      4      9      9      6      7
D9V2, multiclass
        clus
vv       5P GAIN MUTATED 5P GAIN WILD-TYPE
  CLUS_1               3                 8
  CLUS_2               4                 8
  CLUS_3               0                 4
  CLUS_4               2                 9
  CLUS_5               4                 9
  CLUS_6               3                 6
  CLUS_7               3                 7
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  5P GAIN MUTATED       44     35     52     21     26     13
  5P GAIN WILD-TYPE     17     45    104     61     54     56
D9V3, multiclass
        clus
vv       5P GAIN MUTATED 5P GAIN WILD-TYPE
  CLUS_1              44                17
  CLUS_2              35                45
  CLUS_3              52               104
  CLUS_4              21                61
  CLUS_5              26                54
  CLUS_6              13                56
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  5P GAIN MUTATED       21     23     39     28
  5P GAIN WILD-TYPE     46     47     57     53
D9V4, multiclass
        clus
vv       5P GAIN MUTATED 5P GAIN WILD-TYPE
  CLUS_1              21                46
  CLUS_2              23                47
  CLUS_3              39                57
  CLUS_4              28                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 CLUS_5 CLUS_6
  5P GAIN MUTATED       32     19     39     36     36     10
  5P GAIN WILD-TYPE     56     67     51     46     56     23
D9V5, multiclass
        clus
vv       5P GAIN MUTATED 5P GAIN WILD-TYPE
  CLUS_1              32                56
  CLUS_2              19                67
  CLUS_3              39                51
  CLUS_4              36                46
  CLUS_5              36                56
  CLUS_6              10                23
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  5P GAIN MUTATED       47     41     32     52
  5P GAIN WILD-TYPE     88     71     53     87
D9V6, multiclass
        clus
vv       5P GAIN MUTATED 5P GAIN WILD-TYPE
  CLUS_1              47                88
  CLUS_2              41                71
  CLUS_3              32                53
  CLUS_4              52                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 CLUS_5
  5P GAIN MUTATED       21     57     25     71     15
  5P GAIN WILD-TYPE     60    113     56     82     25
D9V7, multiclass
        clus
vv       5P GAIN MUTATED 5P GAIN WILD-TYPE
  CLUS_1              21                60
  CLUS_2              57               113
  CLUS_3              25                56
  CLUS_4              71                82
  CLUS_5              15                25
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  5P GAIN MUTATED       43      7     61     60     14      4
  5P GAIN WILD-TYPE     74     26    122     72     21     21
D9V8, multiclass
        clus
vv       5P GAIN MUTATED 5P GAIN WILD-TYPE
  CLUS_1              43                74
  CLUS_2               7                26
  CLUS_3              61               122
  CLUS_4              60                72
  CLUS_5              14                21
  CLUS_6               4                21
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  5P GAIN MUTATED       31     22     67     43     24
  5P GAIN WILD-TYPE     60     35    119     76     33
D9V9, multiclass
        clus
vv       5P GAIN MUTATED 5P GAIN WILD-TYPE
  CLUS_1              31                60
  CLUS_2              22                35
  CLUS_3              67               119
  CLUS_4              43                76
  CLUS_5              24                33
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  5P GAIN MUTATED       68     79     40
  5P GAIN WILD-TYPE    105    130     88
D9V10, multiclass
        clus
vv       5P GAIN MUTATED 5P GAIN WILD-TYPE
  CLUS_1              68               105
  CLUS_2              79               130
  CLUS_3              40                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
  5P GAIN MUTATED       13      4     16     22
  5P GAIN WILD-TYPE     26     17     28     16
D9V11, multiclass
        clus
vv       5P GAIN MUTATED 5P GAIN WILD-TYPE
  CLUS_1              13                26
  CLUS_2               4                17
  CLUS_3              16                28
  CLUS_4              22                16
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  5P GAIN MUTATED       14     22     10      9
  5P GAIN WILD-TYPE     26     30     18     13
D9V12, multiclass
        clus
vv       5P GAIN MUTATED 5P GAIN WILD-TYPE
  CLUS_1              14                26
  CLUS_2              22                30
  CLUS_3              10                18
  CLUS_4               9                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"

Clustering(10) Variable = 5Q GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  5Q GAIN MUTATED       13      7      3
  5Q GAIN WILD-TYPE     18     18     11
D10V1, multiclass
        clus
vv       5Q GAIN MUTATED 5Q GAIN WILD-TYPE
  CLUS_1              13                18
  CLUS_2               7                18
  CLUS_3               3                11
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  5Q GAIN MUTATED        5      4      0      2      6      3      3
  5Q GAIN WILD-TYPE      6      8      4      9      7      6      7
D10V2, multiclass
        clus
vv       5Q GAIN MUTATED 5Q GAIN WILD-TYPE
  CLUS_1               5                 6
  CLUS_2               4                 8
  CLUS_3               0                 4
  CLUS_4               2                 9
  CLUS_5               6                 7
  CLUS_6               3                 6
  CLUS_7               3                 7
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  5Q GAIN MUTATED       47     35     55     30     29     14
  5Q GAIN WILD-TYPE     14     45    101     52     51     55
D10V3, multiclass
        clus
vv       5Q GAIN MUTATED 5Q GAIN WILD-TYPE
  CLUS_1              47                14
  CLUS_2              35                45
  CLUS_3              55               101
  CLUS_4              30                52
  CLUS_5              29                51
  CLUS_6              14                55
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  5Q GAIN MUTATED       26     25     43     32
  5Q GAIN WILD-TYPE     41     45     53     49
D10V4, multiclass
        clus
vv       5Q GAIN MUTATED 5Q GAIN WILD-TYPE
  CLUS_1              26                41
  CLUS_2              25                45
  CLUS_3              43                53
  CLUS_4              32                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 CLUS_5 CLUS_6
  5Q GAIN MUTATED       36     20     37     42     41     14
  5Q GAIN WILD-TYPE     52     66     53     40     51     19
D10V5, multiclass
        clus
vv       5Q GAIN MUTATED 5Q GAIN WILD-TYPE
  CLUS_1              36                52
  CLUS_2              20                66
  CLUS_3              37                53
  CLUS_4              42                40
  CLUS_5              41                51
  CLUS_6              14                19
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  5Q GAIN MUTATED       52     42     31     65
  5Q GAIN WILD-TYPE     83     70     54     74
D10V6, multiclass
        clus
vv       5Q GAIN MUTATED 5Q GAIN WILD-TYPE
  CLUS_1              52                83
  CLUS_2              42                70
  CLUS_3              31                54
  CLUS_4              65                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 CLUS_5
  5Q GAIN MUTATED       23     66     30     71     18
  5Q GAIN WILD-TYPE     58    104     51     82     22
D10V7, multiclass
        clus
vv       5Q GAIN MUTATED 5Q GAIN WILD-TYPE
  CLUS_1              23                58
  CLUS_2              66               104
  CLUS_3              30                51
  CLUS_4              71                82
  CLUS_5              18                22
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  5Q GAIN MUTATED       51      9     70     60     14      4
  5Q GAIN WILD-TYPE     66     24    113     72     21     21
D10V8, multiclass
        clus
vv       5Q GAIN MUTATED 5Q GAIN WILD-TYPE
  CLUS_1              51                66
  CLUS_2               9                24
  CLUS_3              70               113
  CLUS_4              60                72
  CLUS_5              14                21
  CLUS_6               4                21
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  5Q GAIN MUTATED       36     23     76     43     26
  5Q GAIN WILD-TYPE     55     34    110     76     31
D10V9, multiclass
        clus
vv       5Q GAIN MUTATED 5Q GAIN WILD-TYPE
  CLUS_1              36                55
  CLUS_2              23                34
  CLUS_3              76               110
  CLUS_4              43                76
  CLUS_5              26                31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  5Q GAIN MUTATED       71     88     45
  5Q GAIN WILD-TYPE    102    121     83
D10V10, multiclass
        clus
vv       5Q GAIN MUTATED 5Q GAIN WILD-TYPE
  CLUS_1              71               102
  CLUS_2              88               121
  CLUS_3              45                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
  5Q GAIN MUTATED       12      4     17     21
  5Q GAIN WILD-TYPE     27     17     27     17
D10V11, multiclass
        clus
vv       5Q GAIN MUTATED 5Q GAIN WILD-TYPE
  CLUS_1              12                27
  CLUS_2               4                17
  CLUS_3              17                27
  CLUS_4              21                17
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  5Q GAIN MUTATED       13     20     11     10
  5Q GAIN WILD-TYPE     27     32     17     12
D10V12, multiclass
        clus
vv       5Q GAIN MUTATED 5Q GAIN WILD-TYPE
  CLUS_1              13                27
  CLUS_2              20                32
  CLUS_3              11                17
  CLUS_4              10                12
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(11) Variable = 6P GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  6P GAIN MUTATED        0      0      1
  6P GAIN WILD-TYPE     31     25     13
D11V1, multiclass
[1] "Remove cluster labels:" "6P GAIN MUTATED"       
clus
  6P GAIN MUTATED 6P GAIN WILD-TYPE 
                1                69 
       TCGA-A3-3306        TCGA-A3-3307        TCGA-A3-3308        TCGA-A3-3311 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-A3-3316        TCGA-A3-3317        TCGA-A3-3319        TCGA-A3-3320 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-A3-3322        TCGA-A3-3323        TCGA-A3-3324        TCGA-A3-3325 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-A3-3326        TCGA-A3-3331        TCGA-A3-3335        TCGA-A3-3336 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-A3-3343        TCGA-A3-3346        TCGA-A3-3347        TCGA-A3-3349 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-A3-3351        TCGA-A3-3352        TCGA-A3-3359        TCGA-A3-3362 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-A3-3363        TCGA-A3-3365        TCGA-A3-3372        TCGA-A3-3374 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-A3-3378        TCGA-A3-3380        TCGA-A3-3382        TCGA-A3-3383 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-AK-3426        TCGA-AK-3427        TCGA-AK-3440        TCGA-AK-3443 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-AK-3444        TCGA-AK-3447        TCGA-AK-3453        TCGA-AK-3455 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-AK-3456        TCGA-AK-3465        TCGA-AS-3777        TCGA-AS-3778 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-B2-3923        TCGA-B2-3924        TCGA-B2-4098        TCGA-B2-4099 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-B2-4102        TCGA-B8-4143        TCGA-B8-4148        TCGA-B8-4151 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-B8-4154        TCGA-B8-4619        TCGA-B8-4620        TCGA-BP-4161 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-BP-4162        TCGA-BP-4163        TCGA-BP-4164        TCGA-BP-4167 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-CJ-4634        TCGA-CJ-4636        TCGA-CJ-4637        TCGA-CJ-4638 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-CJ-4639        TCGA-CJ-4640        TCGA-CJ-4641        TCGA-CJ-4643 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-CJ-4644 
"6P GAIN WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  6P GAIN MUTATED        0      0      1      0      0      0      0
  6P GAIN WILD-TYPE     11     12      3     11     13      9     10
D11V2, multiclass
[1] "Remove cluster labels:" "6P GAIN MUTATED"       
clus
  6P GAIN MUTATED 6P GAIN WILD-TYPE 
                1                69 
       TCGA-A3-3306        TCGA-A3-3307        TCGA-A3-3308        TCGA-A3-3311 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-A3-3316        TCGA-A3-3317        TCGA-A3-3319        TCGA-A3-3320 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-A3-3322        TCGA-A3-3323        TCGA-A3-3324        TCGA-A3-3325 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-A3-3326        TCGA-A3-3331        TCGA-A3-3335        TCGA-A3-3336 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-A3-3343        TCGA-A3-3346        TCGA-A3-3347        TCGA-A3-3349 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-A3-3351        TCGA-A3-3352        TCGA-A3-3359        TCGA-A3-3362 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-A3-3363        TCGA-A3-3365        TCGA-A3-3372        TCGA-A3-3374 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-A3-3378        TCGA-A3-3380        TCGA-A3-3382        TCGA-A3-3383 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-AK-3426        TCGA-AK-3427        TCGA-AK-3440        TCGA-AK-3443 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-AK-3444        TCGA-AK-3447        TCGA-AK-3453        TCGA-AK-3455 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-AK-3456        TCGA-AK-3465        TCGA-AS-3777        TCGA-AS-3778 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-B2-3923        TCGA-B2-3924        TCGA-B2-4098        TCGA-B2-4099 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-B2-4102        TCGA-B8-4143        TCGA-B8-4148        TCGA-B8-4151 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-B8-4154        TCGA-B8-4619        TCGA-B8-4620        TCGA-BP-4161 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-BP-4162        TCGA-BP-4163        TCGA-BP-4164        TCGA-BP-4167 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-CJ-4634        TCGA-CJ-4636        TCGA-CJ-4637        TCGA-CJ-4638 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-CJ-4639        TCGA-CJ-4640        TCGA-CJ-4641        TCGA-CJ-4643 
"6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" "6P GAIN WILD-TYPE" 
       TCGA-CJ-4644 
"6P GAIN WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  6P GAIN MUTATED        0      3      2      4      1      1
  6P GAIN WILD-TYPE     61     77    154     78     79     68
D11V3, multiclass
        clus
vv       6P GAIN MUTATED 6P GAIN WILD-TYPE
  CLUS_1               0                61
  CLUS_2               3                77
  CLUS_3               2               154
  CLUS_4               4                78
  CLUS_5               1                79
  CLUS_6               1                68
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  6P GAIN MUTATED        2      0      2      2
  6P GAIN WILD-TYPE     65     70     94     79
D11V4, multiclass
        clus
vv       6P GAIN MUTATED 6P GAIN WILD-TYPE
  CLUS_1               2                65
  CLUS_2               0                70
  CLUS_3               2                94
  CLUS_4               2                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 CLUS_5 CLUS_6
  6P GAIN MUTATED        5      0      2      1      2      1
  6P GAIN WILD-TYPE     83     86     88     81     90     32
D11V5, multiclass
        clus
vv       6P GAIN MUTATED 6P GAIN WILD-TYPE
  CLUS_1               5                83
  CLUS_2               0                86
  CLUS_3               2                88
  CLUS_4               1                81
  CLUS_5               2                90
  CLUS_6               1                32
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  6P GAIN MUTATED        4      2      2      3
  6P GAIN WILD-TYPE    131    110     83    136
D11V6, multiclass
        clus
vv       6P GAIN MUTATED 6P GAIN WILD-TYPE
  CLUS_1               4               131
  CLUS_2               2               110
  CLUS_3               2                83
  CLUS_4               3               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 CLUS_4 CLUS_5
  6P GAIN MUTATED        1      3      2      4      1
  6P GAIN WILD-TYPE     80    167     79    149     39
D11V7, multiclass
        clus
vv       6P GAIN MUTATED 6P GAIN WILD-TYPE
  CLUS_1               1                80
  CLUS_2               3               167
  CLUS_3               2                79
  CLUS_4               4               149
  CLUS_5               1                39
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- 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      4      3      0      0
  6P GAIN WILD-TYPE    114     32    179    129     35     25
D11V8, multiclass
        clus
vv       6P GAIN MUTATED 6P GAIN WILD-TYPE
  CLUS_1               3               114
  CLUS_2               1                32
  CLUS_3               4               179
  CLUS_4               3               129
  CLUS_5               0                35
  CLUS_6               0                25
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  6P GAIN MUTATED        3      0      5      3      0
  6P GAIN WILD-TYPE     88     57    181    116     57
D11V9, multiclass
        clus
vv       6P GAIN MUTATED 6P GAIN WILD-TYPE
  CLUS_1               3                88
  CLUS_2               0                57
  CLUS_3               5               181
  CLUS_4               3               116
  CLUS_5               0                57
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  6P GAIN MUTATED        2      9      0
  6P GAIN WILD-TYPE    171    200    128
D11V10, multiclass
        clus
vv       6P GAIN MUTATED 6P GAIN WILD-TYPE
  CLUS_1               2               171
  CLUS_2               9               200
  CLUS_3               0               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
  6P GAIN MUTATED        0      1      1      1
  6P GAIN WILD-TYPE     39     20     43     37
D11V11, multiclass
        clus
vv       6P GAIN MUTATED 6P GAIN WILD-TYPE
  CLUS_1               0                39
  CLUS_2               1                20
  CLUS_3               1                43
  CLUS_4               1                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
  6P GAIN MUTATED        0      2      1      0
  6P GAIN WILD-TYPE     40     50     27     22
D11V12, multiclass
        clus
vv       6P GAIN MUTATED 6P GAIN WILD-TYPE
  CLUS_1               0                40
  CLUS_2               2                50
  CLUS_3               1                27
  CLUS_4               0                22
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(12) Variable = 6Q GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  6Q GAIN MUTATED        0      0      1
  6Q GAIN WILD-TYPE     31     25     13
D12V1, multiclass
[1] "Remove cluster labels:" "6Q GAIN MUTATED"       
clus
  6Q GAIN MUTATED 6Q GAIN WILD-TYPE 
                1                69 
       TCGA-A3-3306        TCGA-A3-3307        TCGA-A3-3308        TCGA-A3-3311 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-A3-3316        TCGA-A3-3317        TCGA-A3-3319        TCGA-A3-3320 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-A3-3322        TCGA-A3-3323        TCGA-A3-3324        TCGA-A3-3325 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-A3-3326        TCGA-A3-3331        TCGA-A3-3335        TCGA-A3-3336 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-A3-3343        TCGA-A3-3346        TCGA-A3-3347        TCGA-A3-3349 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-A3-3351        TCGA-A3-3352        TCGA-A3-3359        TCGA-A3-3362 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-A3-3363        TCGA-A3-3365        TCGA-A3-3372        TCGA-A3-3374 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-A3-3378        TCGA-A3-3380        TCGA-A3-3382        TCGA-A3-3383 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-AK-3426        TCGA-AK-3427        TCGA-AK-3440        TCGA-AK-3443 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-AK-3444        TCGA-AK-3447        TCGA-AK-3453        TCGA-AK-3455 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-AK-3456        TCGA-AK-3465        TCGA-AS-3777        TCGA-AS-3778 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-B2-3923        TCGA-B2-3924        TCGA-B2-4098        TCGA-B2-4099 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-B2-4102        TCGA-B8-4143        TCGA-B8-4148        TCGA-B8-4151 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-B8-4154        TCGA-B8-4619        TCGA-B8-4620        TCGA-BP-4161 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-BP-4162        TCGA-BP-4163        TCGA-BP-4164        TCGA-BP-4167 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-CJ-4634        TCGA-CJ-4636        TCGA-CJ-4637        TCGA-CJ-4638 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-CJ-4639        TCGA-CJ-4640        TCGA-CJ-4641        TCGA-CJ-4643 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-CJ-4644 
"6Q GAIN WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  6Q GAIN MUTATED        0      0      1      0      0      0      0
  6Q GAIN WILD-TYPE     11     12      3     11     13      9     10
D12V2, multiclass
[1] "Remove cluster labels:" "6Q GAIN MUTATED"       
clus
  6Q GAIN MUTATED 6Q GAIN WILD-TYPE 
                1                69 
       TCGA-A3-3306        TCGA-A3-3307        TCGA-A3-3308        TCGA-A3-3311 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-A3-3316        TCGA-A3-3317        TCGA-A3-3319        TCGA-A3-3320 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-A3-3322        TCGA-A3-3323        TCGA-A3-3324        TCGA-A3-3325 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-A3-3326        TCGA-A3-3331        TCGA-A3-3335        TCGA-A3-3336 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-A3-3343        TCGA-A3-3346        TCGA-A3-3347        TCGA-A3-3349 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-A3-3351        TCGA-A3-3352        TCGA-A3-3359        TCGA-A3-3362 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-A3-3363        TCGA-A3-3365        TCGA-A3-3372        TCGA-A3-3374 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-A3-3378        TCGA-A3-3380        TCGA-A3-3382        TCGA-A3-3383 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-AK-3426        TCGA-AK-3427        TCGA-AK-3440        TCGA-AK-3443 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-AK-3444        TCGA-AK-3447        TCGA-AK-3453        TCGA-AK-3455 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-AK-3456        TCGA-AK-3465        TCGA-AS-3777        TCGA-AS-3778 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-B2-3923        TCGA-B2-3924        TCGA-B2-4098        TCGA-B2-4099 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-B2-4102        TCGA-B8-4143        TCGA-B8-4148        TCGA-B8-4151 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-B8-4154        TCGA-B8-4619        TCGA-B8-4620        TCGA-BP-4161 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-BP-4162        TCGA-BP-4163        TCGA-BP-4164        TCGA-BP-4167 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-CJ-4634        TCGA-CJ-4636        TCGA-CJ-4637        TCGA-CJ-4638 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-CJ-4639        TCGA-CJ-4640        TCGA-CJ-4641        TCGA-CJ-4643 
"6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" "6Q GAIN WILD-TYPE" 
       TCGA-CJ-4644 
"6Q GAIN WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  6Q GAIN MUTATED        0      3      1      4      0      1
  6Q GAIN WILD-TYPE     61     77    155     78     80     68
D12V3, multiclass
        clus
vv       6Q GAIN MUTATED 6Q GAIN WILD-TYPE
  CLUS_1               0                61
  CLUS_2               3                77
  CLUS_3               1               155
  CLUS_4               4                78
  CLUS_5               0                80
  CLUS_6               1                68
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  6Q GAIN MUTATED        1      0      1      2
  6Q GAIN WILD-TYPE     66     70     95     79
D12V4, multiclass
        clus
vv       6Q GAIN MUTATED 6Q GAIN WILD-TYPE
  CLUS_1               1                66
  CLUS_2               0                70
  CLUS_3               1                95
  CLUS_4               2                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 CLUS_5 CLUS_6
  6Q GAIN MUTATED        5      0      1      1      1      1
  6Q GAIN WILD-TYPE     83     86     89     81     91     32
D12V5, multiclass
        clus
vv       6Q GAIN MUTATED 6Q GAIN WILD-TYPE
  CLUS_1               5                83
  CLUS_2               0                86
  CLUS_3               1                89
  CLUS_4               1                81
  CLUS_5               1                91
  CLUS_6               1                32
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  6Q GAIN MUTATED        3      1      2      3
  6Q GAIN WILD-TYPE    132    111     83    136
D12V6, multiclass
        clus
vv       6Q GAIN MUTATED 6Q GAIN WILD-TYPE
  CLUS_1               3               132
  CLUS_2               1               111
  CLUS_3               2                83
  CLUS_4               3               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 CLUS_4 CLUS_5
  6Q GAIN MUTATED        1      3      1      3      1
  6Q GAIN WILD-TYPE     80    167     80    150     39
D12V7, multiclass
        clus
vv       6Q GAIN MUTATED 6Q GAIN WILD-TYPE
  CLUS_1               1                80
  CLUS_2               3               167
  CLUS_3               1                80
  CLUS_4               3               150
  CLUS_5               1                39
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- 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      1      3      3      0      0
  6Q GAIN WILD-TYPE    115     32    180    129     35     25
D12V8, multiclass
        clus
vv       6Q GAIN MUTATED 6Q GAIN WILD-TYPE
  CLUS_1               2               115
  CLUS_2               1                32
  CLUS_3               3               180
  CLUS_4               3               129
  CLUS_5               0                35
  CLUS_6               0                25
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  6Q GAIN MUTATED        2      0      4      3      0
  6Q GAIN WILD-TYPE     89     57    182    116     57
D12V9, multiclass
        clus
vv       6Q GAIN MUTATED 6Q GAIN WILD-TYPE
  CLUS_1               2                89
  CLUS_2               0                57
  CLUS_3               4               182
  CLUS_4               3               116
  CLUS_5               0                57
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  6Q GAIN MUTATED        2      7      0
  6Q GAIN WILD-TYPE    171    202    128
D12V10, multiclass
        clus
vv       6Q GAIN MUTATED 6Q GAIN WILD-TYPE
  CLUS_1               2               171
  CLUS_2               7               202
  CLUS_3               0               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
  6Q GAIN MUTATED        0      1      1      1
  6Q GAIN WILD-TYPE     39     20     43     37
D12V11, multiclass
        clus
vv       6Q GAIN MUTATED 6Q GAIN WILD-TYPE
  CLUS_1               0                39
  CLUS_2               1                20
  CLUS_3               1                43
  CLUS_4               1                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
  6Q GAIN MUTATED        0      2      1      0
  6Q GAIN WILD-TYPE     40     50     27     22
D12V12, multiclass
        clus
vv       6Q GAIN MUTATED 6Q GAIN WILD-TYPE
  CLUS_1               0                40
  CLUS_2               2                50
  CLUS_3               1                27
  CLUS_4               0                22
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(13) Variable = 7P GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  7P GAIN MUTATED        9      9      6
  7P GAIN WILD-TYPE     22     16      8
D13V1, multiclass
        clus
vv       7P GAIN MUTATED 7P GAIN WILD-TYPE
  CLUS_1               9                22
  CLUS_2               9                16
  CLUS_3               6                 8
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  7P GAIN MUTATED        2      4      2      5      4      3      4
  7P GAIN WILD-TYPE      9      8      2      6      9      6      6
D13V2, multiclass
        clus
vv       7P GAIN MUTATED 7P GAIN WILD-TYPE
  CLUS_1               2                 9
  CLUS_2               4                 8
  CLUS_3               2                 2
  CLUS_4               5                 6
  CLUS_5               4                 9
  CLUS_6               3                 6
  CLUS_7               4                 6
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  7P GAIN MUTATED       37     34     54     11     23     14
  7P GAIN WILD-TYPE     24     46    102     71     57     55
D13V3, multiclass
        clus
vv       7P GAIN MUTATED 7P GAIN WILD-TYPE
  CLUS_1              37                24
  CLUS_2              34                46
  CLUS_3              54               102
  CLUS_4              11                71
  CLUS_5              23                57
  CLUS_6              14                55
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  7P GAIN MUTATED       13     21     35     18
  7P GAIN WILD-TYPE     54     49     61     63
D13V4, multiclass
        clus
vv       7P GAIN MUTATED 7P GAIN WILD-TYPE
  CLUS_1              13                54
  CLUS_2              21                49
  CLUS_3              35                61
  CLUS_4              18                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 CLUS_5 CLUS_6
  7P GAIN MUTATED       32     22     51     23     22      5
  7P GAIN WILD-TYPE     56     64     39     59     70     28
D13V5, multiclass
        clus
vv       7P GAIN MUTATED 7P GAIN WILD-TYPE
  CLUS_1              32                56
  CLUS_2              22                64
  CLUS_3              51                39
  CLUS_4              23                59
  CLUS_5              22                70
  CLUS_6               5                28
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  7P GAIN MUTATED       34     49     41     31
  7P GAIN WILD-TYPE    101     63     44    108
D13V6, multiclass
        clus
vv       7P GAIN MUTATED 7P GAIN WILD-TYPE
  CLUS_1              34               101
  CLUS_2              49                63
  CLUS_3              41                44
  CLUS_4              31               108
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  7P GAIN MUTATED       23     38     27     71     12
  7P GAIN WILD-TYPE     58    132     54     82     28
D13V7, multiclass
        clus
vv       7P GAIN MUTATED 7P GAIN WILD-TYPE
  CLUS_1              23                58
  CLUS_2              38               132
  CLUS_3              27                54
  CLUS_4              71                82
  CLUS_5              12                28
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  7P GAIN MUTATED       38      9     46     60     12      6
  7P GAIN WILD-TYPE     79     24    137     72     23     19
D13V8, multiclass
        clus
vv       7P GAIN MUTATED 7P GAIN WILD-TYPE
  CLUS_1              38                79
  CLUS_2               9                24
  CLUS_3              46               137
  CLUS_4              60                72
  CLUS_5              12                23
  CLUS_6               6                19
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  7P GAIN MUTATED       26     26     56     48     14
  7P GAIN WILD-TYPE     65     31    130     71     43
D13V9, multiclass
        clus
vv       7P GAIN MUTATED 7P GAIN WILD-TYPE
  CLUS_1              26                65
  CLUS_2              26                31
  CLUS_3              56               130
  CLUS_4              48                71
  CLUS_5              14                43
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  7P GAIN MUTATED       59     60     51
  7P GAIN WILD-TYPE    114    149     77
D13V10, multiclass
        clus
vv       7P GAIN MUTATED 7P GAIN WILD-TYPE
  CLUS_1              59               114
  CLUS_2              60               149
  CLUS_3              51                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
  7P GAIN MUTATED       12      7     11     18
  7P GAIN WILD-TYPE     27     14     33     20
D13V11, multiclass
        clus
vv       7P GAIN MUTATED 7P GAIN WILD-TYPE
  CLUS_1              12                27
  CLUS_2               7                14
  CLUS_3              11                33
  CLUS_4              18                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
  7P GAIN MUTATED       13     18     11      6
  7P GAIN WILD-TYPE     27     34     17     16
D13V12, multiclass
        clus
vv       7P GAIN MUTATED 7P GAIN WILD-TYPE
  CLUS_1              13                27
  CLUS_2              18                34
  CLUS_3              11                17
  CLUS_4               6                16
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(14) Variable = 7Q GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  7Q GAIN MUTATED        9      9      6
  7Q GAIN WILD-TYPE     22     16      8
D14V1, multiclass
        clus
vv       7Q GAIN MUTATED 7Q GAIN WILD-TYPE
  CLUS_1               9                22
  CLUS_2               9                16
  CLUS_3               6                 8
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  7Q GAIN MUTATED        2      4      2      5      4      3      4
  7Q GAIN WILD-TYPE      9      8      2      6      9      6      6
D14V2, multiclass
        clus
vv       7Q GAIN MUTATED 7Q GAIN WILD-TYPE
  CLUS_1               2                 9
  CLUS_2               4                 8
  CLUS_3               2                 2
  CLUS_4               5                 6
  CLUS_5               4                 9
  CLUS_6               3                 6
  CLUS_7               4                 6
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  7Q GAIN MUTATED       39     34     54     11     22     13
  7Q GAIN WILD-TYPE     22     46    102     71     58     56
D14V3, multiclass
        clus
vv       7Q GAIN MUTATED 7Q GAIN WILD-TYPE
  CLUS_1              39                22
  CLUS_2              34                46
  CLUS_3              54               102
  CLUS_4              11                71
  CLUS_5              22                58
  CLUS_6              13                56
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  7Q GAIN MUTATED       12     23     35     20
  7Q GAIN WILD-TYPE     55     47     61     61
D14V4, multiclass
        clus
vv       7Q GAIN MUTATED 7Q GAIN WILD-TYPE
  CLUS_1              12                55
  CLUS_2              23                47
  CLUS_3              35                61
  CLUS_4              20                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 CLUS_5 CLUS_6
  7Q GAIN MUTATED       32     21     51     24     23      4
  7Q GAIN WILD-TYPE     56     65     39     58     69     29
D14V5, multiclass
        clus
vv       7Q GAIN MUTATED 7Q GAIN WILD-TYPE
  CLUS_1              32                56
  CLUS_2              21                65
  CLUS_3              51                39
  CLUS_4              24                58
  CLUS_5              23                69
  CLUS_6               4                29
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  7Q GAIN MUTATED       35     50     41     29
  7Q GAIN WILD-TYPE    100     62     44    110
D14V6, multiclass
        clus
vv       7Q GAIN MUTATED 7Q GAIN WILD-TYPE
  CLUS_1              35               100
  CLUS_2              50                62
  CLUS_3              41                44
  CLUS_4              29               110
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  7Q GAIN MUTATED       25     37     27     70     12
  7Q GAIN WILD-TYPE     56    133     54     83     28
D14V7, multiclass
        clus
vv       7Q GAIN MUTATED 7Q GAIN WILD-TYPE
  CLUS_1              25                56
  CLUS_2              37               133
  CLUS_3              27                54
  CLUS_4              70                83
  CLUS_5              12                28
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  7Q GAIN MUTATED       37     11     44     60     13      6
  7Q GAIN WILD-TYPE     80     22    139     72     22     19
D14V8, multiclass
        clus
vv       7Q GAIN MUTATED 7Q GAIN WILD-TYPE
  CLUS_1              37                80
  CLUS_2              11                22
  CLUS_3              44               139
  CLUS_4              60                72
  CLUS_5              13                22
  CLUS_6               6                19
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  7Q GAIN MUTATED       26     26     54     50     14
  7Q GAIN WILD-TYPE     65     31    132     69     43
D14V9, multiclass
        clus
vv       7Q GAIN MUTATED 7Q GAIN WILD-TYPE
  CLUS_1              26                65
  CLUS_2              26                31
  CLUS_3              54               132
  CLUS_4              50                69
  CLUS_5              14                43
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  7Q GAIN MUTATED       60     57     53
  7Q GAIN WILD-TYPE    113    152     75
D14V10, multiclass
        clus
vv       7Q GAIN MUTATED 7Q GAIN WILD-TYPE
  CLUS_1              60               113
  CLUS_2              57               152
  CLUS_3              53                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
  7Q GAIN MUTATED       10      7     11     18
  7Q GAIN WILD-TYPE     29     14     33     20
D14V11, multiclass
        clus
vv       7Q GAIN MUTATED 7Q GAIN WILD-TYPE
  CLUS_1              10                29
  CLUS_2               7                14
  CLUS_3              11                33
  CLUS_4              18                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
  7Q GAIN MUTATED       11     18     11      6
  7Q GAIN WILD-TYPE     29     34     17     16
D14V12, multiclass
        clus
vv       7Q GAIN MUTATED 7Q GAIN WILD-TYPE
  CLUS_1              11                29
  CLUS_2              18                34
  CLUS_3              11                17
  CLUS_4               6                16
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(15) Variable = 8P GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  8P GAIN MUTATED        0      1      1
  8P GAIN WILD-TYPE     31     24     13
D15V1, multiclass
[1] "Remove cluster labels:" "8P GAIN MUTATED"       
clus
  8P GAIN MUTATED 8P GAIN WILD-TYPE 
                2                68 
       TCGA-A3-3306        TCGA-A3-3307        TCGA-A3-3308        TCGA-A3-3311 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-A3-3317        TCGA-A3-3319        TCGA-A3-3320        TCGA-A3-3322 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-A3-3323        TCGA-A3-3324        TCGA-A3-3325        TCGA-A3-3326 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-A3-3331        TCGA-A3-3335        TCGA-A3-3336        TCGA-A3-3343 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-A3-3346        TCGA-A3-3347        TCGA-A3-3349        TCGA-A3-3351 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-A3-3352        TCGA-A3-3359        TCGA-A3-3362        TCGA-A3-3363 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-A3-3365        TCGA-A3-3372        TCGA-A3-3374        TCGA-A3-3378 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-A3-3380        TCGA-A3-3382        TCGA-A3-3383        TCGA-AK-3426 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-AK-3427        TCGA-AK-3440        TCGA-AK-3443        TCGA-AK-3444 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-AK-3447        TCGA-AK-3453        TCGA-AK-3455        TCGA-AK-3456 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-AK-3465        TCGA-AS-3777        TCGA-AS-3778        TCGA-B2-3923 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-B2-3924        TCGA-B2-4098        TCGA-B2-4099        TCGA-B2-4102 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-B8-4143        TCGA-B8-4148        TCGA-B8-4151        TCGA-B8-4154 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-B8-4619        TCGA-B8-4620        TCGA-BP-4161        TCGA-BP-4162 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-BP-4163        TCGA-BP-4164        TCGA-BP-4167        TCGA-CJ-4634 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-CJ-4636        TCGA-CJ-4637        TCGA-CJ-4638        TCGA-CJ-4639 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-CJ-4640        TCGA-CJ-4641        TCGA-CJ-4643        TCGA-CJ-4644 
"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 CLUS_7
  8P GAIN MUTATED        0      1      1      0      0      0      0
  8P GAIN WILD-TYPE     11     11      3     11     13      9     10
D15V2, multiclass
[1] "Remove cluster labels:" "8P GAIN MUTATED"       
clus
  8P GAIN MUTATED 8P GAIN WILD-TYPE 
                2                68 
       TCGA-A3-3306        TCGA-A3-3307        TCGA-A3-3308        TCGA-A3-3311 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-A3-3317        TCGA-A3-3319        TCGA-A3-3320        TCGA-A3-3322 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-A3-3323        TCGA-A3-3324        TCGA-A3-3325        TCGA-A3-3326 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-A3-3331        TCGA-A3-3335        TCGA-A3-3336        TCGA-A3-3343 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-A3-3346        TCGA-A3-3347        TCGA-A3-3349        TCGA-A3-3351 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-A3-3352        TCGA-A3-3359        TCGA-A3-3362        TCGA-A3-3363 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-A3-3365        TCGA-A3-3372        TCGA-A3-3374        TCGA-A3-3378 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-A3-3380        TCGA-A3-3382        TCGA-A3-3383        TCGA-AK-3426 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-AK-3427        TCGA-AK-3440        TCGA-AK-3443        TCGA-AK-3444 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-AK-3447        TCGA-AK-3453        TCGA-AK-3455        TCGA-AK-3456 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-AK-3465        TCGA-AS-3777        TCGA-AS-3778        TCGA-B2-3923 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-B2-3924        TCGA-B2-4098        TCGA-B2-4099        TCGA-B2-4102 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-B8-4143        TCGA-B8-4148        TCGA-B8-4151        TCGA-B8-4154 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-B8-4619        TCGA-B8-4620        TCGA-BP-4161        TCGA-BP-4162 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-BP-4163        TCGA-BP-4164        TCGA-BP-4167        TCGA-CJ-4634 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-CJ-4636        TCGA-CJ-4637        TCGA-CJ-4638        TCGA-CJ-4639 
"8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" "8P GAIN WILD-TYPE" 
       TCGA-CJ-4640        TCGA-CJ-4641        TCGA-CJ-4643        TCGA-CJ-4644 
"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        3      3     16      2      6      1
  8P GAIN WILD-TYPE     58     77    140     80     74     68
D15V3, multiclass
        clus
vv       8P GAIN MUTATED 8P GAIN WILD-TYPE
  CLUS_1               3                58
  CLUS_2               3                77
  CLUS_3              16               140
  CLUS_4               2                80
  CLUS_5               6                74
  CLUS_6               1                68
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  8P GAIN MUTATED        2      4     15      1
  8P GAIN WILD-TYPE     65     66     81     80
D15V4, multiclass
        clus
vv       8P GAIN MUTATED 8P GAIN WILD-TYPE
  CLUS_1               2                65
  CLUS_2               4                66
  CLUS_3              15                81
  CLUS_4               1                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 CLUS_5 CLUS_6
  8P GAIN MUTATED        3      2     16      4      4      0
  8P GAIN WILD-TYPE     85     84     74     78     88     33
D15V5, multiclass
        clus
vv       8P GAIN MUTATED 8P GAIN WILD-TYPE
  CLUS_1               3                85
  CLUS_2               2                84
  CLUS_3              16                74
  CLUS_4               4                78
  CLUS_5               4                88
  CLUS_6               0                33
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  8P GAIN MUTATED        1     18      7      3
  8P GAIN WILD-TYPE    134     94     78    136
D15V6, multiclass
        clus
vv       8P GAIN MUTATED 8P GAIN WILD-TYPE
  CLUS_1               1               134
  CLUS_2              18                94
  CLUS_3               7                78
  CLUS_4               3               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 CLUS_4 CLUS_5
  8P GAIN MUTATED        4      1      5     19      2
  8P GAIN WILD-TYPE     77    169     76    134     38
D15V7, multiclass
        clus
vv       8P GAIN MUTATED 8P GAIN WILD-TYPE
  CLUS_1               4                77
  CLUS_2               1               169
  CLUS_3               5                76
  CLUS_4              19               134
  CLUS_5               2                38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  8P GAIN MUTATED        6      2      1     19      2      1
  8P GAIN WILD-TYPE    111     31    182    113     33     24
D15V8, multiclass
        clus
vv       8P GAIN MUTATED 8P GAIN WILD-TYPE
  CLUS_1               6               111
  CLUS_2               2                31
  CLUS_3               1               182
  CLUS_4              19               113
  CLUS_5               2                33
  CLUS_6               1                24
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  8P GAIN MUTATED        4      4      2     18      3
  8P GAIN WILD-TYPE     87     53    184    101     54
D15V9, multiclass
        clus
vv       8P GAIN MUTATED 8P GAIN WILD-TYPE
  CLUS_1               4                87
  CLUS_2               4                53
  CLUS_3               2               184
  CLUS_4              18               101
  CLUS_5               3                54
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  8P GAIN MUTATED       15      4     12
  8P GAIN WILD-TYPE    158    205    116
D15V10, multiclass
        clus
vv       8P GAIN MUTATED 8P GAIN WILD-TYPE
  CLUS_1              15               158
  CLUS_2               4               205
  CLUS_3              12               116
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  8P GAIN MUTATED        1      0      0      5
  8P GAIN WILD-TYPE     38     21     44     33
D15V11, multiclass
        clus
vv       8P GAIN MUTATED 8P GAIN WILD-TYPE
  CLUS_1               1                38
  CLUS_2               0                21
  CLUS_3               0                44
  CLUS_4               5                33
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  8P GAIN MUTATED        0      4      1      1
  8P GAIN WILD-TYPE     40     48     27     21
D15V12, multiclass
        clus
vv       8P GAIN MUTATED 8P GAIN WILD-TYPE
  CLUS_1               0                40
  CLUS_2               4                48
  CLUS_3               1                27
  CLUS_4               1                21
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(16) Variable = 8Q GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  8Q GAIN MUTATED        1      3      2
  8Q GAIN WILD-TYPE     30     22     12
D16V1, multiclass
        clus
vv       8Q GAIN MUTATED 8Q GAIN WILD-TYPE
  CLUS_1               1                30
  CLUS_2               3                22
  CLUS_3               2                12
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  8Q GAIN MUTATED        0      3      1      0      0      1      1
  8Q GAIN WILD-TYPE     11      9      3     11     13      8      9
D16V2, multiclass
        clus
vv       8Q GAIN MUTATED 8Q GAIN WILD-TYPE
  CLUS_1               0                11
  CLUS_2               3                 9
  CLUS_3               1                 3
  CLUS_4               0                11
  CLUS_5               0                13
  CLUS_6               1                 8
  CLUS_7               1                 9
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  8Q GAIN MUTATED        5      8     37      2      8      1
  8Q GAIN WILD-TYPE     56     72    119     80     72     68
D16V3, multiclass
        clus
vv       8Q GAIN MUTATED 8Q GAIN WILD-TYPE
  CLUS_1               5                56
  CLUS_2               8                72
  CLUS_3              37               119
  CLUS_4               2                80
  CLUS_5               8                72
  CLUS_6               1                68
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  8Q GAIN MUTATED        2     13     23      2
  8Q GAIN WILD-TYPE     65     57     73     79
D16V4, multiclass
        clus
vv       8Q GAIN MUTATED 8Q GAIN WILD-TYPE
  CLUS_1               2                65
  CLUS_2              13                57
  CLUS_3              23                73
  CLUS_4               2                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 CLUS_5 CLUS_6
  8Q GAIN MUTATED        9      4     29      6      8      1
  8Q GAIN WILD-TYPE     79     82     61     76     84     32
D16V5, multiclass
        clus
vv       8Q GAIN MUTATED 8Q GAIN WILD-TYPE
  CLUS_1               9                79
  CLUS_2               4                82
  CLUS_3              29                61
  CLUS_4               6                76
  CLUS_5               8                84
  CLUS_6               1                32
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  8Q GAIN MUTATED        5     29     16      7
  8Q GAIN WILD-TYPE    130     83     69    132
D16V6, multiclass
        clus
vv       8Q GAIN MUTATED 8Q GAIN WILD-TYPE
  CLUS_1               5               130
  CLUS_2              29                83
  CLUS_3              16                69
  CLUS_4               7               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 CLUS_4 CLUS_5
  8Q GAIN MUTATED        4      4      7     42      3
  8Q GAIN WILD-TYPE     77    166     74    111     37
D16V7, multiclass
        clus
vv       8Q GAIN MUTATED 8Q GAIN WILD-TYPE
  CLUS_1               4                77
  CLUS_2               4               166
  CLUS_3               7                74
  CLUS_4              42               111
  CLUS_5               3                37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  8Q GAIN MUTATED        8      2      4     41      4      1
  8Q GAIN WILD-TYPE    109     31    179     91     31     24
D16V8, multiclass
        clus
vv       8Q GAIN MUTATED 8Q GAIN WILD-TYPE
  CLUS_1               8               109
  CLUS_2               2                31
  CLUS_3               4               179
  CLUS_4              41                91
  CLUS_5               4                31
  CLUS_6               1                24
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  8Q GAIN MUTATED        7     10      7     30      5
  8Q GAIN WILD-TYPE     84     47    179     89     52
D16V9, multiclass
        clus
vv       8Q GAIN MUTATED 8Q GAIN WILD-TYPE
  CLUS_1               7                84
  CLUS_2              10                47
  CLUS_3               7               179
  CLUS_4              30                89
  CLUS_5               5                52
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  8Q GAIN MUTATED       29      9     21
  8Q GAIN WILD-TYPE    144    200    107
D16V10, multiclass
        clus
vv       8Q GAIN MUTATED 8Q GAIN WILD-TYPE
  CLUS_1              29               144
  CLUS_2               9               200
  CLUS_3              21               107
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  8Q GAIN MUTATED        3      0      0     11
  8Q GAIN WILD-TYPE     36     21     44     27
D16V11, multiclass
        clus
vv       8Q GAIN MUTATED 8Q GAIN WILD-TYPE
  CLUS_1               3                36
  CLUS_2               0                21
  CLUS_3               0                44
  CLUS_4              11                27
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  8Q GAIN MUTATED        3      7      2      2
  8Q GAIN WILD-TYPE     37     45     26     20
D16V12, multiclass
        clus
vv       8Q GAIN MUTATED 8Q GAIN WILD-TYPE
  CLUS_1               3                37
  CLUS_2               7                45
  CLUS_3               2                26
  CLUS_4               2                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"

Clustering(17) Variable = 9P GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  9P GAIN MUTATED        0      1      1
  9P GAIN WILD-TYPE     31     24     13
D17V1, multiclass
[1] "Remove cluster labels:" "9P GAIN MUTATED"       
clus
  9P GAIN MUTATED 9P GAIN WILD-TYPE 
                2                68 
       TCGA-A3-3306        TCGA-A3-3307        TCGA-A3-3308        TCGA-A3-3311 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-A3-3313        TCGA-A3-3316        TCGA-A3-3317        TCGA-A3-3319 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-A3-3320        TCGA-A3-3322        TCGA-A3-3323        TCGA-A3-3324 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-A3-3325        TCGA-A3-3326        TCGA-A3-3331        TCGA-A3-3335 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-A3-3336        TCGA-A3-3343        TCGA-A3-3346        TCGA-A3-3347 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-A3-3349        TCGA-A3-3351        TCGA-A3-3352        TCGA-A3-3359 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-A3-3362        TCGA-A3-3363        TCGA-A3-3365        TCGA-A3-3372 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-A3-3378        TCGA-A3-3380        TCGA-A3-3382        TCGA-A3-3383 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-AK-3426        TCGA-AK-3427        TCGA-AK-3443        TCGA-AK-3444 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-AK-3447        TCGA-AK-3453        TCGA-AK-3455        TCGA-AK-3456 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-AK-3465        TCGA-AS-3777        TCGA-AS-3778        TCGA-B2-3923 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-B2-3924        TCGA-B2-4098        TCGA-B2-4099        TCGA-B2-4102 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-B8-4143        TCGA-B8-4148        TCGA-B8-4151        TCGA-B8-4154 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-B8-4619        TCGA-B8-4620        TCGA-BP-4161        TCGA-BP-4162 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-BP-4163        TCGA-BP-4164        TCGA-BP-4167        TCGA-CJ-4634 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-CJ-4636        TCGA-CJ-4637        TCGA-CJ-4638        TCGA-CJ-4639 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-CJ-4640        TCGA-CJ-4641        TCGA-CJ-4643        TCGA-CJ-4644 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  9P GAIN MUTATED        0      1      0      0      0      0      1
  9P GAIN WILD-TYPE     11     11      4     11     13      9      9
D17V2, multiclass
[1] "Remove cluster labels:" "9P GAIN MUTATED"       
clus
  9P GAIN MUTATED 9P GAIN WILD-TYPE 
                2                68 
       TCGA-A3-3306        TCGA-A3-3307        TCGA-A3-3308        TCGA-A3-3311 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-A3-3313        TCGA-A3-3316        TCGA-A3-3317        TCGA-A3-3319 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-A3-3320        TCGA-A3-3322        TCGA-A3-3323        TCGA-A3-3324 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-A3-3325        TCGA-A3-3326        TCGA-A3-3331        TCGA-A3-3335 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-A3-3336        TCGA-A3-3343        TCGA-A3-3346        TCGA-A3-3347 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-A3-3349        TCGA-A3-3351        TCGA-A3-3352        TCGA-A3-3359 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-A3-3362        TCGA-A3-3363        TCGA-A3-3365        TCGA-A3-3372 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-A3-3378        TCGA-A3-3380        TCGA-A3-3382        TCGA-A3-3383 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-AK-3426        TCGA-AK-3427        TCGA-AK-3443        TCGA-AK-3444 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-AK-3447        TCGA-AK-3453        TCGA-AK-3455        TCGA-AK-3456 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-AK-3465        TCGA-AS-3777        TCGA-AS-3778        TCGA-B2-3923 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-B2-3924        TCGA-B2-4098        TCGA-B2-4099        TCGA-B2-4102 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-B8-4143        TCGA-B8-4148        TCGA-B8-4151        TCGA-B8-4154 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-B8-4619        TCGA-B8-4620        TCGA-BP-4161        TCGA-BP-4162 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-BP-4163        TCGA-BP-4164        TCGA-BP-4167        TCGA-CJ-4634 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-CJ-4636        TCGA-CJ-4637        TCGA-CJ-4638        TCGA-CJ-4639 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
       TCGA-CJ-4640        TCGA-CJ-4641        TCGA-CJ-4643        TCGA-CJ-4644 
"9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" "9P GAIN WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  9P GAIN MUTATED        1      2      1      0      3      7
  9P GAIN WILD-TYPE     60     78    155     82     77     62
D17V3, multiclass
        clus
vv       9P GAIN MUTATED 9P GAIN WILD-TYPE
  CLUS_1               1                60
  CLUS_2               2                78
  CLUS_3               1               155
  CLUS_4               0                82
  CLUS_5               3                77
  CLUS_6               7                62
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  9P GAIN MUTATED        4      2      1      1
  9P GAIN WILD-TYPE     63     68     95     80
D17V4, multiclass
        clus
vv       9P GAIN MUTATED 9P GAIN WILD-TYPE
  CLUS_1               4                63
  CLUS_2               2                68
  CLUS_3               1                95
  CLUS_4               1                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 CLUS_5 CLUS_6
  9P GAIN MUTATED        3      3      2      3      0      0
  9P GAIN WILD-TYPE     85     83     88     79     92     33
D17V5, multiclass
        clus
vv       9P GAIN MUTATED 9P GAIN WILD-TYPE
  CLUS_1               3                85
  CLUS_2               3                83
  CLUS_3               2                88
  CLUS_4               3                79
  CLUS_5               0                92
  CLUS_6               0                33
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  9P GAIN MUTATED        1      1      3      6
  9P GAIN WILD-TYPE    134    111     82    133
D17V6, multiclass
        clus
vv       9P GAIN MUTATED 9P GAIN WILD-TYPE
  CLUS_1               1               134
  CLUS_2               1               111
  CLUS_3               3                82
  CLUS_4               6               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 CLUS_4 CLUS_5
  9P GAIN MUTATED        3      7      1      3      0
  9P GAIN WILD-TYPE     78    163     80    150     40
D17V7, multiclass
        clus
vv       9P GAIN MUTATED 9P GAIN WILD-TYPE
  CLUS_1               3                78
  CLUS_2               7               163
  CLUS_3               1                80
  CLUS_4               3               150
  CLUS_5               0                40
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- 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        0      0      7      2      2      3
  9P GAIN WILD-TYPE    117     33    176    130     33     22
D17V8, multiclass
        clus
vv       9P GAIN MUTATED 9P GAIN WILD-TYPE
  CLUS_1               0               117
  CLUS_2               0                33
  CLUS_3               7               176
  CLUS_4               2               130
  CLUS_5               2                33
  CLUS_6               3                22
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  9P GAIN MUTATED        4      1      4      5      0
  9P GAIN WILD-TYPE     87     56    182    114     57
D17V9, multiclass
        clus
vv       9P GAIN MUTATED 9P GAIN WILD-TYPE
  CLUS_1               4                87
  CLUS_2               1                56
  CLUS_3               4               182
  CLUS_4               5               114
  CLUS_5               0                57
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  9P GAIN MUTATED        2      7      5
  9P GAIN WILD-TYPE    171    202    123
D17V10, multiclass
        clus
vv       9P GAIN MUTATED 9P GAIN WILD-TYPE
  CLUS_1               2               171
  CLUS_2               7               202
  CLUS_3               5               123
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  9P GAIN MUTATED        2      1      2      1
  9P GAIN WILD-TYPE     37     20     42     37
D17V11, multiclass
        clus
vv       9P GAIN MUTATED 9P GAIN WILD-TYPE
  CLUS_1               2                37
  CLUS_2               1                20
  CLUS_3               2                42
  CLUS_4               1                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
  9P GAIN MUTATED        2      2      1      1
  9P GAIN WILD-TYPE     38     50     27     21
D17V12, multiclass
        clus
vv       9P GAIN MUTATED 9P GAIN WILD-TYPE
  CLUS_1               2                38
  CLUS_2               2                50
  CLUS_3               1                27
  CLUS_4               1                21
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(18) Variable = 9Q GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  9Q GAIN MUTATED        0      1      1
  9Q GAIN WILD-TYPE     31     24     13
D18V1, multiclass
[1] "Remove cluster labels:" "9Q GAIN MUTATED"       
clus
  9Q GAIN MUTATED 9Q GAIN WILD-TYPE 
                2                68 
       TCGA-A3-3306        TCGA-A3-3307        TCGA-A3-3308        TCGA-A3-3311 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-A3-3313        TCGA-A3-3316        TCGA-A3-3317        TCGA-A3-3319 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-A3-3320        TCGA-A3-3322        TCGA-A3-3323        TCGA-A3-3324 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-A3-3325        TCGA-A3-3326        TCGA-A3-3331        TCGA-A3-3335 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-A3-3336        TCGA-A3-3343        TCGA-A3-3346        TCGA-A3-3347 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-A3-3349        TCGA-A3-3351        TCGA-A3-3352        TCGA-A3-3359 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-A3-3362        TCGA-A3-3363        TCGA-A3-3365        TCGA-A3-3372 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-A3-3378        TCGA-A3-3380        TCGA-A3-3382        TCGA-A3-3383 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-AK-3426        TCGA-AK-3427        TCGA-AK-3443        TCGA-AK-3444 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-AK-3447        TCGA-AK-3453        TCGA-AK-3455        TCGA-AK-3456 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-AK-3465        TCGA-AS-3777        TCGA-AS-3778        TCGA-B2-3923 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-B2-3924        TCGA-B2-4098        TCGA-B2-4099        TCGA-B2-4102 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-B8-4143        TCGA-B8-4148        TCGA-B8-4151        TCGA-B8-4154 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-B8-4619        TCGA-B8-4620        TCGA-BP-4161        TCGA-BP-4162 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-BP-4163        TCGA-BP-4164        TCGA-BP-4167        TCGA-CJ-4634 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-CJ-4636        TCGA-CJ-4637        TCGA-CJ-4638        TCGA-CJ-4639 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-CJ-4640        TCGA-CJ-4641        TCGA-CJ-4643        TCGA-CJ-4644 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  9Q GAIN MUTATED        0      1      0      0      0      0      1
  9Q GAIN WILD-TYPE     11     11      4     11     13      9      9
D18V2, multiclass
[1] "Remove cluster labels:" "9Q GAIN MUTATED"       
clus
  9Q GAIN MUTATED 9Q GAIN WILD-TYPE 
                2                68 
       TCGA-A3-3306        TCGA-A3-3307        TCGA-A3-3308        TCGA-A3-3311 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-A3-3313        TCGA-A3-3316        TCGA-A3-3317        TCGA-A3-3319 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-A3-3320        TCGA-A3-3322        TCGA-A3-3323        TCGA-A3-3324 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-A3-3325        TCGA-A3-3326        TCGA-A3-3331        TCGA-A3-3335 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-A3-3336        TCGA-A3-3343        TCGA-A3-3346        TCGA-A3-3347 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-A3-3349        TCGA-A3-3351        TCGA-A3-3352        TCGA-A3-3359 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-A3-3362        TCGA-A3-3363        TCGA-A3-3365        TCGA-A3-3372 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-A3-3378        TCGA-A3-3380        TCGA-A3-3382        TCGA-A3-3383 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-AK-3426        TCGA-AK-3427        TCGA-AK-3443        TCGA-AK-3444 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-AK-3447        TCGA-AK-3453        TCGA-AK-3455        TCGA-AK-3456 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-AK-3465        TCGA-AS-3777        TCGA-AS-3778        TCGA-B2-3923 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-B2-3924        TCGA-B2-4098        TCGA-B2-4099        TCGA-B2-4102 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-B8-4143        TCGA-B8-4148        TCGA-B8-4151        TCGA-B8-4154 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-B8-4619        TCGA-B8-4620        TCGA-BP-4161        TCGA-BP-4162 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-BP-4163        TCGA-BP-4164        TCGA-BP-4167        TCGA-CJ-4634 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-CJ-4636        TCGA-CJ-4637        TCGA-CJ-4638        TCGA-CJ-4639 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
       TCGA-CJ-4640        TCGA-CJ-4641        TCGA-CJ-4643        TCGA-CJ-4644 
"9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" "9Q GAIN WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  9Q GAIN MUTATED        1      3      1      0      3      5
  9Q GAIN WILD-TYPE     60     77    155     82     77     64
D18V3, multiclass
        clus
vv       9Q GAIN MUTATED 9Q GAIN WILD-TYPE
  CLUS_1               1                60
  CLUS_2               3                77
  CLUS_3               1               155
  CLUS_4               0                82
  CLUS_5               3                77
  CLUS_6               5                64
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  9Q GAIN MUTATED        3      2      3      1
  9Q GAIN WILD-TYPE     64     68     93     80
D18V4, multiclass
        clus
vv       9Q GAIN MUTATED 9Q GAIN WILD-TYPE
  CLUS_1               3                64
  CLUS_2               2                68
  CLUS_3               3                93
  CLUS_4               1                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 CLUS_5 CLUS_6
  9Q GAIN MUTATED        3      1      4      2      0      0
  9Q GAIN WILD-TYPE     85     85     86     80     92     33
D18V5, multiclass
        clus
vv       9Q GAIN MUTATED 9Q GAIN WILD-TYPE
  CLUS_1               3                85
  CLUS_2               1                85
  CLUS_3               4                86
  CLUS_4               2                80
  CLUS_5               0                92
  CLUS_6               0                33
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  9Q GAIN MUTATED        0      2      4      4
  9Q GAIN WILD-TYPE    135    110     81    135
D18V6, multiclass
        clus
vv       9Q GAIN MUTATED 9Q GAIN WILD-TYPE
  CLUS_1               0               135
  CLUS_2               2               110
  CLUS_3               4                81
  CLUS_4               4               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 CLUS_4 CLUS_5
  9Q GAIN MUTATED        3      4      2      4      0
  9Q GAIN WILD-TYPE     78    166     79    149     40
D18V7, multiclass
        clus
vv       9Q GAIN MUTATED 9Q GAIN WILD-TYPE
  CLUS_1               3                78
  CLUS_2               4               166
  CLUS_3               2                79
  CLUS_4               4               149
  CLUS_5               0                40
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  9Q GAIN MUTATED        0      0      4      4      2      3
  9Q GAIN WILD-TYPE    117     33    179    128     33     22
D18V8, multiclass
        clus
vv       9Q GAIN MUTATED 9Q GAIN WILD-TYPE
  CLUS_1               0               117
  CLUS_2               0                33
  CLUS_3               4               179
  CLUS_4               4               128
  CLUS_5               2                33
  CLUS_6               3                22
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  9Q GAIN MUTATED        3      1      3      6      0
  9Q GAIN WILD-TYPE     88     56    183    113     57
D18V9, multiclass
        clus
vv       9Q GAIN MUTATED 9Q GAIN WILD-TYPE
  CLUS_1               3                88
  CLUS_2               1                56
  CLUS_3               3               183
  CLUS_4               6               113
  CLUS_5               0                57
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  9Q GAIN MUTATED        3      4      6
  9Q GAIN WILD-TYPE    170    205    122
D18V10, multiclass
        clus
vv       9Q GAIN MUTATED 9Q GAIN WILD-TYPE
  CLUS_1               3               170
  CLUS_2               4               205
  CLUS_3               6               122
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  9Q GAIN MUTATED        1      1      2      1
  9Q GAIN WILD-TYPE     38     20     42     37
D18V11, multiclass
        clus
vv       9Q GAIN MUTATED 9Q GAIN WILD-TYPE
  CLUS_1               1                38
  CLUS_2               1                20
  CLUS_3               2                42
  CLUS_4               1                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
  9Q GAIN MUTATED        1      2      1      1
  9Q GAIN WILD-TYPE     39     50     27     21
D18V12, multiclass
        clus
vv       9Q GAIN MUTATED 9Q GAIN WILD-TYPE
  CLUS_1               1                39
  CLUS_2               2                50
  CLUS_3               1                27
  CLUS_4               1                21
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(19) Variable = 10P GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  10P GAIN MUTATED        0      1      1
  10P GAIN WILD-TYPE     31     24     13
D19V1, multiclass
[1] "Remove cluster labels:" "10P GAIN MUTATED"      
clus
  10P GAIN MUTATED 10P GAIN WILD-TYPE 
                 2                 68 
        TCGA-A3-3306         TCGA-A3-3307         TCGA-A3-3308 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-A3-3311         TCGA-A3-3313         TCGA-A3-3317 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-A3-3319         TCGA-A3-3320         TCGA-A3-3322 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-A3-3323         TCGA-A3-3324         TCGA-A3-3325 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-A3-3326         TCGA-A3-3331         TCGA-A3-3335 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-A3-3336         TCGA-A3-3343         TCGA-A3-3346 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-A3-3347         TCGA-A3-3349         TCGA-A3-3351 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-A3-3352         TCGA-A3-3359         TCGA-A3-3362 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-A3-3363         TCGA-A3-3365         TCGA-A3-3372 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-A3-3374         TCGA-A3-3378         TCGA-A3-3380 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-A3-3382         TCGA-A3-3383         TCGA-AK-3426 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-AK-3427         TCGA-AK-3440         TCGA-AK-3443 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-AK-3444         TCGA-AK-3447         TCGA-AK-3455 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-AK-3456         TCGA-AK-3465         TCGA-AS-3777 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-AS-3778         TCGA-B2-3923         TCGA-B2-3924 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-B2-4098         TCGA-B2-4099         TCGA-B2-4102 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-B8-4143         TCGA-B8-4148         TCGA-B8-4151 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-B8-4154         TCGA-B8-4619         TCGA-B8-4620 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-BP-4161         TCGA-BP-4162         TCGA-BP-4163 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-BP-4164         TCGA-BP-4167         TCGA-CJ-4634 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-CJ-4636         TCGA-CJ-4637         TCGA-CJ-4638 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-CJ-4639         TCGA-CJ-4640         TCGA-CJ-4641 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-CJ-4643         TCGA-CJ-4644 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  10P GAIN MUTATED        0      1      0      0      0      0      1
  10P GAIN WILD-TYPE     11     11      4     11     13      9      9
D19V2, multiclass
[1] "Remove cluster labels:" "10P GAIN MUTATED"      
clus
  10P GAIN MUTATED 10P GAIN WILD-TYPE 
                 2                 68 
        TCGA-A3-3306         TCGA-A3-3307         TCGA-A3-3308 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-A3-3311         TCGA-A3-3313         TCGA-A3-3317 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-A3-3319         TCGA-A3-3320         TCGA-A3-3322 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-A3-3323         TCGA-A3-3324         TCGA-A3-3325 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-A3-3326         TCGA-A3-3331         TCGA-A3-3335 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-A3-3336         TCGA-A3-3343         TCGA-A3-3346 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-A3-3347         TCGA-A3-3349         TCGA-A3-3351 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-A3-3352         TCGA-A3-3359         TCGA-A3-3362 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-A3-3363         TCGA-A3-3365         TCGA-A3-3372 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-A3-3374         TCGA-A3-3378         TCGA-A3-3380 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-A3-3382         TCGA-A3-3383         TCGA-AK-3426 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-AK-3427         TCGA-AK-3440         TCGA-AK-3443 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-AK-3444         TCGA-AK-3447         TCGA-AK-3455 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-AK-3456         TCGA-AK-3465         TCGA-AS-3777 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-AS-3778         TCGA-B2-3923         TCGA-B2-3924 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-B2-4098         TCGA-B2-4099         TCGA-B2-4102 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-B8-4143         TCGA-B8-4148         TCGA-B8-4151 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-B8-4154         TCGA-B8-4619         TCGA-B8-4620 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-BP-4161         TCGA-BP-4162         TCGA-BP-4163 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-BP-4164         TCGA-BP-4167         TCGA-CJ-4634 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-CJ-4636         TCGA-CJ-4637         TCGA-CJ-4638 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-CJ-4639         TCGA-CJ-4640         TCGA-CJ-4641 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-CJ-4643         TCGA-CJ-4644 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  10P GAIN MUTATED        3      1      9      0      3      0
  10P GAIN WILD-TYPE     58     79    147     82     77     69
D19V3, multiclass
        clus
vv       10P GAIN MUTATED 10P GAIN WILD-TYPE
  CLUS_1                3                 58
  CLUS_2                1                 79
  CLUS_3                9                147
  CLUS_4                0                 82
  CLUS_5                3                 77
  CLUS_6                0                 69
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  10P GAIN MUTATED        3      3      4      1
  10P GAIN WILD-TYPE     64     67     92     80
D19V4, multiclass
        clus
vv       10P GAIN MUTATED 10P GAIN WILD-TYPE
  CLUS_1                3                 64
  CLUS_2                3                 67
  CLUS_3                4                 92
  CLUS_4                1                 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 CLUS_5 CLUS_6
  10P GAIN MUTATED        1      1      8      2      2      1
  10P GAIN WILD-TYPE     87     85     82     80     90     32
D19V5, multiclass
        clus
vv       10P GAIN MUTATED 10P GAIN WILD-TYPE
  CLUS_1                1                 87
  CLUS_2                1                 85
  CLUS_3                8                 82
  CLUS_4                2                 80
  CLUS_5                2                 90
  CLUS_6                1                 32
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  10P GAIN MUTATED        1      5      5      4
  10P GAIN WILD-TYPE    134    107     80    135
D19V6, multiclass
        clus
vv       10P GAIN MUTATED 10P GAIN WILD-TYPE
  CLUS_1                1                134
  CLUS_2                5                107
  CLUS_3                5                 80
  CLUS_4                4                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 CLUS_4 CLUS_5
  10P GAIN MUTATED        3      0      2     11      0
  10P GAIN WILD-TYPE     78    170     79    142     40
D19V7, multiclass
        clus
vv       10P GAIN MUTATED 10P GAIN WILD-TYPE
  CLUS_1                3                 78
  CLUS_2                0                170
  CLUS_3                2                 79
  CLUS_4               11                142
  CLUS_5                0                 40
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- 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        2      1      0     11      2      0
  10P GAIN WILD-TYPE    115     32    183    121     33     25
D19V8, multiclass
        clus
vv       10P GAIN MUTATED 10P GAIN WILD-TYPE
  CLUS_1                2                115
  CLUS_2                1                 32
  CLUS_3                0                183
  CLUS_4               11                121
  CLUS_5                2                 33
  CLUS_6                0                 25
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  10P GAIN MUTATED        3      1      2      9      1
  10P GAIN WILD-TYPE     88     56    184    110     56
D19V9, multiclass
        clus
vv       10P GAIN MUTATED 10P GAIN WILD-TYPE
  CLUS_1                3                 88
  CLUS_2                1                 56
  CLUS_3                2                184
  CLUS_4                9                110
  CLUS_5                1                 56
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  10P GAIN MUTATED        7      2      7
  10P GAIN WILD-TYPE    166    207    121
D19V10, multiclass
        clus
vv       10P GAIN MUTATED 10P GAIN WILD-TYPE
  CLUS_1                7                166
  CLUS_2                2                207
  CLUS_3                7                121
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  10P GAIN MUTATED        0      0      0      2
  10P GAIN WILD-TYPE     39     21     44     36
D19V11, multiclass
[1] "Remove cluster labels:" "10P GAIN MUTATED"      
clus
  10P GAIN MUTATED 10P GAIN WILD-TYPE 
                 2                140 
        TCGA-3Z-A93Z         TCGA-6D-AA2E         TCGA-A3-3317 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-A3-3358         TCGA-A3-3387         TCGA-A3-A6NI 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-A3-A6NJ         TCGA-A3-A6NL         TCGA-A3-A8CQ 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-A3-A8OU         TCGA-A3-A8OV         TCGA-A3-A8OW 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-A3-A8OX         TCGA-AK-3440         TCGA-AK-3458 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-AK-3465         TCGA-B0-4698         TCGA-B0-4700 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-B0-4706         TCGA-B0-4710         TCGA-B0-4712 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-B0-4810         TCGA-B0-4811         TCGA-B0-4821 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-B0-4836         TCGA-B0-4837         TCGA-B0-4852 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-B0-5080         TCGA-B0-5085         TCGA-B0-5088 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-B0-5399         TCGA-B0-5691         TCGA-B0-5692 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-B0-5693         TCGA-B0-5694         TCGA-B0-5695 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-B0-5696         TCGA-B0-5699         TCGA-B0-5702 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-B0-5705         TCGA-B0-5709         TCGA-B2-3923 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-B2-3924         TCGA-B2-5633         TCGA-B2-5635 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-B2-5639         TCGA-B4-5377         TCGA-B4-5836 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-B8-4621         TCGA-B8-5545         TCGA-B8-5550 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-B8-5551         TCGA-B8-5552         TCGA-B8-5553 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-B8-A54H         TCGA-B8-A54I         TCGA-B8-A54J 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-B8-A54K         TCGA-B8-A7U6         TCGA-B8-A8YJ 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-BP-4173         TCGA-BP-4340         TCGA-BP-4761 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-BP-4770         TCGA-BP-4787         TCGA-BP-4789 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-BP-4790         TCGA-BP-4804         TCGA-BP-4807 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-BP-4959         TCGA-BP-4961         TCGA-BP-4967 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-BP-4968         TCGA-BP-4969         TCGA-BP-4970 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-BP-4974         TCGA-BP-4976         TCGA-BP-4981 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-BP-4982         TCGA-BP-4985         TCGA-BP-4988 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-BP-4989         TCGA-BP-4992         TCGA-BP-4995 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-BP-4998         TCGA-BP-5001         TCGA-BP-5008 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-BP-5009         TCGA-CJ-4870         TCGA-CJ-4875 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-CJ-4876         TCGA-CJ-4878         TCGA-CJ-4881 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-CJ-4887         TCGA-CJ-4889         TCGA-CJ-4890 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-CJ-4895         TCGA-CJ-4900         TCGA-CJ-5671 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-CJ-5675         TCGA-CJ-5676         TCGA-CJ-5681 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-CJ-5683         TCGA-CJ-5686         TCGA-CJ-6031 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-CJ-6032         TCGA-CW-5585         TCGA-CW-5589 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-CW-6087         TCGA-CW-6088         TCGA-CZ-4854 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-CZ-4857         TCGA-CZ-4860         TCGA-CZ-4864 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-CZ-5453         TCGA-CZ-5455         TCGA-CZ-5457 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-CZ-5459         TCGA-CZ-5462         TCGA-CZ-5463 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-CZ-5464         TCGA-CZ-5466         TCGA-CZ-5467 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-CZ-5469         TCGA-CZ-5470         TCGA-CZ-5989 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-DV-5565         TCGA-DV-5566         TCGA-DV-5569 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-DV-5573         TCGA-EU-5904         TCGA-G6-A5PC 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-G6-A8L6         TCGA-G6-A8L7         TCGA-G6-A8L8 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-GK-A6C7         TCGA-MM-A563         TCGA-MM-A564 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-MM-A84U         TCGA-T7-A92I 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  10P GAIN MUTATED        0      1      1      0
  10P GAIN WILD-TYPE     40     51     27     22
D19V12, multiclass
[1] "Remove cluster labels:" "10P GAIN MUTATED"      
clus
  10P GAIN MUTATED 10P GAIN WILD-TYPE 
                 2                140 
        TCGA-3Z-A93Z         TCGA-6D-AA2E         TCGA-A3-3317 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-A3-3358         TCGA-A3-3387         TCGA-A3-A6NI 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-A3-A6NJ         TCGA-A3-A6NL         TCGA-A3-A8CQ 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-A3-A8OU         TCGA-A3-A8OV         TCGA-A3-A8OW 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-A3-A8OX         TCGA-AK-3440         TCGA-AK-3458 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-AK-3465         TCGA-B0-4698         TCGA-B0-4700 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-B0-4706         TCGA-B0-4710         TCGA-B0-4712 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-B0-4810         TCGA-B0-4811         TCGA-B0-4821 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-B0-4836         TCGA-B0-4837         TCGA-B0-4852 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-B0-5080         TCGA-B0-5085         TCGA-B0-5088 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-B0-5399         TCGA-B0-5691         TCGA-B0-5692 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-B0-5693         TCGA-B0-5694         TCGA-B0-5695 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-B0-5696         TCGA-B0-5699         TCGA-B0-5702 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-B0-5705         TCGA-B0-5709         TCGA-B2-3923 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-B2-3924         TCGA-B2-5633         TCGA-B2-5635 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-B2-5639         TCGA-B4-5377         TCGA-B4-5836 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-B8-4621         TCGA-B8-5545         TCGA-B8-5550 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-B8-5551         TCGA-B8-5552         TCGA-B8-5553 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-B8-A54H         TCGA-B8-A54I         TCGA-B8-A54J 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-B8-A54K         TCGA-B8-A7U6         TCGA-B8-A8YJ 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-BP-4173         TCGA-BP-4340         TCGA-BP-4761 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-BP-4770         TCGA-BP-4787         TCGA-BP-4789 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-BP-4790         TCGA-BP-4804         TCGA-BP-4807 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-BP-4959         TCGA-BP-4961         TCGA-BP-4967 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-BP-4968         TCGA-BP-4969         TCGA-BP-4970 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-BP-4974         TCGA-BP-4976         TCGA-BP-4981 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-BP-4982         TCGA-BP-4985         TCGA-BP-4988 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-BP-4989         TCGA-BP-4992         TCGA-BP-4995 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-BP-4998         TCGA-BP-5001         TCGA-BP-5008 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-BP-5009         TCGA-CJ-4870         TCGA-CJ-4875 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-CJ-4876         TCGA-CJ-4878         TCGA-CJ-4881 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-CJ-4887         TCGA-CJ-4889         TCGA-CJ-4890 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-CJ-4895         TCGA-CJ-4900         TCGA-CJ-5671 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-CJ-5675         TCGA-CJ-5676         TCGA-CJ-5681 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-CJ-5683         TCGA-CJ-5686         TCGA-CJ-6031 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-CJ-6032         TCGA-CW-5585         TCGA-CW-5589 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-CW-6087         TCGA-CW-6088         TCGA-CZ-4854 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-CZ-4857         TCGA-CZ-4860         TCGA-CZ-4864 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-CZ-5453         TCGA-CZ-5455         TCGA-CZ-5457 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-CZ-5459         TCGA-CZ-5462         TCGA-CZ-5463 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-CZ-5464         TCGA-CZ-5466         TCGA-CZ-5467 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-CZ-5469         TCGA-CZ-5470         TCGA-CZ-5989 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-DV-5565         TCGA-DV-5566         TCGA-DV-5569 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-DV-5573         TCGA-EU-5904         TCGA-G6-A5PC 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-G6-A8L6         TCGA-G6-A8L7         TCGA-G6-A8L8 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-GK-A6C7         TCGA-MM-A563         TCGA-MM-A564 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 
        TCGA-MM-A84U         TCGA-T7-A92I 
"10P GAIN WILD-TYPE" "10P GAIN WILD-TYPE" 

Clustering(20) Variable = 10Q GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  10Q GAIN MUTATED        0      0      1
  10Q GAIN WILD-TYPE     31     25     13
D20V1, multiclass
[1] "Remove cluster labels:" "10Q GAIN MUTATED"      
clus
  10Q GAIN MUTATED 10Q GAIN WILD-TYPE 
                 1                 69 
        TCGA-A3-3306         TCGA-A3-3307         TCGA-A3-3308 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-A3-3311         TCGA-A3-3313         TCGA-A3-3316 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-A3-3317         TCGA-A3-3319         TCGA-A3-3320 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-A3-3322         TCGA-A3-3323         TCGA-A3-3324 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-A3-3325         TCGA-A3-3326         TCGA-A3-3331 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-A3-3335         TCGA-A3-3336         TCGA-A3-3343 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-A3-3346         TCGA-A3-3347         TCGA-A3-3349 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-A3-3351         TCGA-A3-3352         TCGA-A3-3359 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-A3-3362         TCGA-A3-3363         TCGA-A3-3365 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-A3-3372         TCGA-A3-3374         TCGA-A3-3378 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-A3-3380         TCGA-A3-3382         TCGA-A3-3383 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-AK-3426         TCGA-AK-3427         TCGA-AK-3440 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-AK-3443         TCGA-AK-3444         TCGA-AK-3447 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-AK-3455         TCGA-AK-3456         TCGA-AK-3465 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-AS-3777         TCGA-AS-3778         TCGA-B2-3923 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-B2-3924         TCGA-B2-4098         TCGA-B2-4099 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-B2-4102         TCGA-B8-4143         TCGA-B8-4148 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-B8-4151         TCGA-B8-4154         TCGA-B8-4619 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-B8-4620         TCGA-BP-4161         TCGA-BP-4162 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-BP-4163         TCGA-BP-4164         TCGA-BP-4167 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-CJ-4634         TCGA-CJ-4636         TCGA-CJ-4637 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-CJ-4638         TCGA-CJ-4639         TCGA-CJ-4640 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-CJ-4641         TCGA-CJ-4643         TCGA-CJ-4644 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  10Q GAIN MUTATED        0      0      0      0      0      0      1
  10Q GAIN WILD-TYPE     11     12      4     11     13      9      9
D20V2, multiclass
[1] "Remove cluster labels:" "10Q GAIN MUTATED"      
clus
  10Q GAIN MUTATED 10Q GAIN WILD-TYPE 
                 1                 69 
        TCGA-A3-3306         TCGA-A3-3307         TCGA-A3-3308 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-A3-3311         TCGA-A3-3313         TCGA-A3-3316 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-A3-3317         TCGA-A3-3319         TCGA-A3-3320 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-A3-3322         TCGA-A3-3323         TCGA-A3-3324 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-A3-3325         TCGA-A3-3326         TCGA-A3-3331 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-A3-3335         TCGA-A3-3336         TCGA-A3-3343 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-A3-3346         TCGA-A3-3347         TCGA-A3-3349 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-A3-3351         TCGA-A3-3352         TCGA-A3-3359 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-A3-3362         TCGA-A3-3363         TCGA-A3-3365 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-A3-3372         TCGA-A3-3374         TCGA-A3-3378 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-A3-3380         TCGA-A3-3382         TCGA-A3-3383 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-AK-3426         TCGA-AK-3427         TCGA-AK-3440 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-AK-3443         TCGA-AK-3444         TCGA-AK-3447 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-AK-3455         TCGA-AK-3456         TCGA-AK-3465 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-AS-3777         TCGA-AS-3778         TCGA-B2-3923 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-B2-3924         TCGA-B2-4098         TCGA-B2-4099 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-B2-4102         TCGA-B8-4143         TCGA-B8-4148 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-B8-4151         TCGA-B8-4154         TCGA-B8-4619 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-B8-4620         TCGA-BP-4161         TCGA-BP-4162 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-BP-4163         TCGA-BP-4164         TCGA-BP-4167 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-CJ-4634         TCGA-CJ-4636         TCGA-CJ-4637 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-CJ-4638         TCGA-CJ-4639         TCGA-CJ-4640 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-CJ-4641         TCGA-CJ-4643         TCGA-CJ-4644 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  10Q GAIN MUTATED        1      1      8      0      2      0
  10Q GAIN WILD-TYPE     60     79    148     82     78     69
D20V3, multiclass
        clus
vv       10Q GAIN MUTATED 10Q GAIN WILD-TYPE
  CLUS_1                1                 60
  CLUS_2                1                 79
  CLUS_3                8                148
  CLUS_4                0                 82
  CLUS_5                2                 78
  CLUS_6                0                 69
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  10Q GAIN MUTATED        3      2      3      0
  10Q GAIN WILD-TYPE     64     68     93     81
D20V4, multiclass
        clus
vv       10Q GAIN MUTATED 10Q GAIN WILD-TYPE
  CLUS_1                3                 64
  CLUS_2                2                 68
  CLUS_3                3                 93
  CLUS_4                0                 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 CLUS_5 CLUS_6
  10Q GAIN MUTATED        1      1      6      2      0      1
  10Q GAIN WILD-TYPE     87     85     84     80     92     32
D20V5, multiclass
        clus
vv       10Q GAIN MUTATED 10Q GAIN WILD-TYPE
  CLUS_1                1                 87
  CLUS_2                1                 85
  CLUS_3                6                 84
  CLUS_4                2                 80
  CLUS_5                0                 92
  CLUS_6                1                 32
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  10Q GAIN MUTATED        0      4      3      4
  10Q GAIN WILD-TYPE    135    108     82    135
D20V6, multiclass
        clus
vv       10Q GAIN MUTATED 10Q GAIN WILD-TYPE
  CLUS_1                0                135
  CLUS_2                4                108
  CLUS_3                3                 82
  CLUS_4                4                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 CLUS_4 CLUS_5
  10Q GAIN MUTATED        2      0      1      9      0
  10Q GAIN WILD-TYPE     79    170     80    144     40
D20V7, multiclass
        clus
vv       10Q GAIN MUTATED 10Q GAIN WILD-TYPE
  CLUS_1                2                 79
  CLUS_2                0                170
  CLUS_3                1                 80
  CLUS_4                9                144
  CLUS_5                0                 40
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  10Q GAIN MUTATED        1      1      0      9      1      0
  10Q GAIN WILD-TYPE    116     32    183    123     34     25
D20V8, multiclass
        clus
vv       10Q GAIN MUTATED 10Q GAIN WILD-TYPE
  CLUS_1                1                116
  CLUS_2                1                 32
  CLUS_3                0                183
  CLUS_4                9                123
  CLUS_5                1                 34
  CLUS_6                0                 25
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  10Q GAIN MUTATED        1      1      1      8      1
  10Q GAIN WILD-TYPE     90     56    185    111     56
D20V9, multiclass
        clus
vv       10Q GAIN MUTATED 10Q GAIN WILD-TYPE
  CLUS_1                1                 90
  CLUS_2                1                 56
  CLUS_3                1                185
  CLUS_4                8                111
  CLUS_5                1                 56
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  10Q GAIN MUTATED        5      2      5
  10Q GAIN WILD-TYPE    168    207    123
D20V10, multiclass
        clus
vv       10Q GAIN MUTATED 10Q GAIN WILD-TYPE
  CLUS_1                5                168
  CLUS_2                2                207
  CLUS_3                5                123
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  10Q GAIN MUTATED        0      0      0      1
  10Q GAIN WILD-TYPE     39     21     44     37
D20V11, multiclass
[1] "Remove cluster labels:" "10Q GAIN MUTATED"      
clus
  10Q GAIN MUTATED 10Q GAIN WILD-TYPE 
                 1                141 
        TCGA-3Z-A93Z         TCGA-6D-AA2E         TCGA-A3-3317 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-A3-3358         TCGA-A3-3387         TCGA-A3-A6NI 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-A3-A6NJ         TCGA-A3-A6NL         TCGA-A3-A8CQ 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-A3-A8OU         TCGA-A3-A8OV         TCGA-A3-A8OW 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-A3-A8OX         TCGA-AK-3440         TCGA-AK-3458 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-AK-3465         TCGA-B0-4698         TCGA-B0-4700 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-B0-4706         TCGA-B0-4710         TCGA-B0-4712 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-B0-4810         TCGA-B0-4811         TCGA-B0-4821 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-B0-4836         TCGA-B0-4837         TCGA-B0-4852 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-B0-5080         TCGA-B0-5085         TCGA-B0-5088 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-B0-5399         TCGA-B0-5691         TCGA-B0-5692 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-B0-5693         TCGA-B0-5694         TCGA-B0-5695 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-B0-5696         TCGA-B0-5699         TCGA-B0-5702 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-B0-5705         TCGA-B0-5709         TCGA-B2-3923 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-B2-3924         TCGA-B2-5633         TCGA-B2-5635 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-B2-5639         TCGA-B4-5377         TCGA-B4-5836 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-B8-4621         TCGA-B8-5545         TCGA-B8-5550 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-B8-5551         TCGA-B8-5552         TCGA-B8-5553 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-B8-A54H         TCGA-B8-A54I         TCGA-B8-A54J 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-B8-A54K         TCGA-B8-A7U6         TCGA-B8-A8YJ 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-BP-4173         TCGA-BP-4340         TCGA-BP-4761 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-BP-4770         TCGA-BP-4787         TCGA-BP-4789 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-BP-4790         TCGA-BP-4804         TCGA-BP-4807 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-BP-4959         TCGA-BP-4961         TCGA-BP-4967 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-BP-4968         TCGA-BP-4969         TCGA-BP-4970 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-BP-4974         TCGA-BP-4976         TCGA-BP-4981 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-BP-4982         TCGA-BP-4985         TCGA-BP-4988 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-BP-4989         TCGA-BP-4992         TCGA-BP-4995 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-BP-4998         TCGA-BP-5001         TCGA-BP-5008 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-BP-5009         TCGA-CJ-4870         TCGA-CJ-4875 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-CJ-4876         TCGA-CJ-4878         TCGA-CJ-4881 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-CJ-4887         TCGA-CJ-4889         TCGA-CJ-4890 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-CJ-4895         TCGA-CJ-4900         TCGA-CJ-5671 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-CJ-5675         TCGA-CJ-5676         TCGA-CJ-5681 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-CJ-5683         TCGA-CJ-5686         TCGA-CJ-6031 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-CJ-6032         TCGA-CW-5585         TCGA-CW-5589 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-CW-6087         TCGA-CW-6088         TCGA-CZ-4854 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-CZ-4857         TCGA-CZ-4860         TCGA-CZ-4864 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-CZ-5453         TCGA-CZ-5454         TCGA-CZ-5455 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-CZ-5457         TCGA-CZ-5459         TCGA-CZ-5462 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-CZ-5463         TCGA-CZ-5464         TCGA-CZ-5466 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-CZ-5467         TCGA-CZ-5469         TCGA-CZ-5470 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-CZ-5989         TCGA-DV-5565         TCGA-DV-5566 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-DV-5569         TCGA-DV-5573         TCGA-EU-5904 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-G6-A5PC         TCGA-G6-A8L6         TCGA-G6-A8L7 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-G6-A8L8         TCGA-GK-A6C7         TCGA-MM-A563 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-MM-A564         TCGA-MM-A84U         TCGA-T7-A92I 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  10Q GAIN MUTATED        0      1      0      0
  10Q GAIN WILD-TYPE     40     51     28     22
D20V12, multiclass
[1] "Remove cluster labels:" "10Q GAIN MUTATED"      
clus
  10Q GAIN MUTATED 10Q GAIN WILD-TYPE 
                 1                141 
        TCGA-3Z-A93Z         TCGA-6D-AA2E         TCGA-A3-3317 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-A3-3358         TCGA-A3-3387         TCGA-A3-A6NI 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-A3-A6NJ         TCGA-A3-A6NL         TCGA-A3-A8CQ 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-A3-A8OU         TCGA-A3-A8OV         TCGA-A3-A8OW 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-A3-A8OX         TCGA-AK-3440         TCGA-AK-3458 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-AK-3465         TCGA-B0-4698         TCGA-B0-4700 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-B0-4706         TCGA-B0-4710         TCGA-B0-4712 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-B0-4810         TCGA-B0-4811         TCGA-B0-4821 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-B0-4836         TCGA-B0-4837         TCGA-B0-4852 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-B0-5080         TCGA-B0-5085         TCGA-B0-5088 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-B0-5399         TCGA-B0-5691         TCGA-B0-5692 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-B0-5693         TCGA-B0-5694         TCGA-B0-5695 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-B0-5696         TCGA-B0-5699         TCGA-B0-5702 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-B0-5705         TCGA-B0-5709         TCGA-B2-3923 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-B2-3924         TCGA-B2-5633         TCGA-B2-5635 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-B2-5639         TCGA-B4-5377         TCGA-B4-5836 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-B8-4621         TCGA-B8-5545         TCGA-B8-5550 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-B8-5551         TCGA-B8-5552         TCGA-B8-5553 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-B8-A54H         TCGA-B8-A54I         TCGA-B8-A54J 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-B8-A54K         TCGA-B8-A7U6         TCGA-B8-A8YJ 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-BP-4173         TCGA-BP-4340         TCGA-BP-4761 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-BP-4770         TCGA-BP-4787         TCGA-BP-4789 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-BP-4790         TCGA-BP-4804         TCGA-BP-4807 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-BP-4959         TCGA-BP-4961         TCGA-BP-4967 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-BP-4968         TCGA-BP-4969         TCGA-BP-4970 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-BP-4974         TCGA-BP-4976         TCGA-BP-4981 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-BP-4982         TCGA-BP-4985         TCGA-BP-4988 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-BP-4989         TCGA-BP-4992         TCGA-BP-4995 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-BP-4998         TCGA-BP-5001         TCGA-BP-5008 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-BP-5009         TCGA-CJ-4870         TCGA-CJ-4875 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-CJ-4876         TCGA-CJ-4878         TCGA-CJ-4881 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-CJ-4887         TCGA-CJ-4889         TCGA-CJ-4890 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-CJ-4895         TCGA-CJ-4900         TCGA-CJ-5671 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-CJ-5675         TCGA-CJ-5676         TCGA-CJ-5681 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-CJ-5683         TCGA-CJ-5686         TCGA-CJ-6031 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-CJ-6032         TCGA-CW-5585         TCGA-CW-5589 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-CW-6087         TCGA-CW-6088         TCGA-CZ-4854 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-CZ-4857         TCGA-CZ-4860         TCGA-CZ-4864 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-CZ-5453         TCGA-CZ-5454         TCGA-CZ-5455 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-CZ-5457         TCGA-CZ-5459         TCGA-CZ-5462 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-CZ-5463         TCGA-CZ-5464         TCGA-CZ-5466 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-CZ-5467         TCGA-CZ-5469         TCGA-CZ-5470 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-CZ-5989         TCGA-DV-5565         TCGA-DV-5566 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-DV-5569         TCGA-DV-5573         TCGA-EU-5904 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-G6-A5PC         TCGA-G6-A8L6         TCGA-G6-A8L7 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-G6-A8L8         TCGA-GK-A6C7         TCGA-MM-A563 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 
        TCGA-MM-A564         TCGA-MM-A84U         TCGA-T7-A92I 
"10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" "10Q GAIN WILD-TYPE" 

Clustering(21) Variable = 11P GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  11P GAIN MUTATED        2      2      3
  11P GAIN WILD-TYPE     29     23     11
D21V1, multiclass
        clus
vv       11P GAIN MUTATED 11P GAIN WILD-TYPE
  CLUS_1                2                 29
  CLUS_2                2                 23
  CLUS_3                3                 11
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  11P GAIN MUTATED        0      1      1      1      1      1      2
  11P GAIN WILD-TYPE     11     11      3     10     12      8      8
D21V2, multiclass
        clus
vv       11P GAIN MUTATED 11P GAIN WILD-TYPE
  CLUS_1                0                 11
  CLUS_2                1                 11
  CLUS_3                1                  3
  CLUS_4                1                 10
  CLUS_5                1                 12
  CLUS_6                1                  8
  CLUS_7                2                  8
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  11P GAIN MUTATED        8      5      8      2      6      2
  11P GAIN WILD-TYPE     53     75    148     80     74     67
D21V3, multiclass
        clus
vv       11P GAIN MUTATED 11P GAIN WILD-TYPE
  CLUS_1                8                 53
  CLUS_2                5                 75
  CLUS_3                8                148
  CLUS_4                2                 80
  CLUS_5                6                 74
  CLUS_6                2                 67
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  11P GAIN MUTATED        5      2      7      3
  11P GAIN WILD-TYPE     62     68     89     78
D21V4, multiclass
        clus
vv       11P GAIN MUTATED 11P GAIN WILD-TYPE
  CLUS_1                5                 62
  CLUS_2                2                 68
  CLUS_3                7                 89
  CLUS_4                3                 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 CLUS_5 CLUS_6
  11P GAIN MUTATED        7      1      9      5      4      0
  11P GAIN WILD-TYPE     81     85     81     77     88     33
D21V5, multiclass
        clus
vv       11P GAIN MUTATED 11P GAIN WILD-TYPE
  CLUS_1                7                 81
  CLUS_2                1                 85
  CLUS_3                9                 81
  CLUS_4                5                 77
  CLUS_5                4                 88
  CLUS_6                0                 33
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  11P GAIN MUTATED        5      7      7      7
  11P GAIN WILD-TYPE    130    105     78    132
D21V6, multiclass
        clus
vv       11P GAIN MUTATED 11P GAIN WILD-TYPE
  CLUS_1                5                130
  CLUS_2                7                105
  CLUS_3                7                 78
  CLUS_4                7                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 CLUS_4 CLUS_5
  11P GAIN MUTATED        7      3      7     12      2
  11P GAIN WILD-TYPE     74    167     74    141     38
D21V7, multiclass
        clus
vv       11P GAIN MUTATED 11P GAIN WILD-TYPE
  CLUS_1                7                 74
  CLUS_2                3                167
  CLUS_3                7                 74
  CLUS_4               12                141
  CLUS_5                2                 38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  11P GAIN MUTATED        5      2      7     12      2      3
  11P GAIN WILD-TYPE    112     31    176    120     33     22
D21V8, multiclass
        clus
vv       11P GAIN MUTATED 11P GAIN WILD-TYPE
  CLUS_1                5                112
  CLUS_2                2                 31
  CLUS_3                7                176
  CLUS_4               12                120
  CLUS_5                2                 33
  CLUS_6                3                 22
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  11P GAIN MUTATED        5      2      7     13      4
  11P GAIN WILD-TYPE     86     55    179    106     53
D21V9, multiclass
        clus
vv       11P GAIN MUTATED 11P GAIN WILD-TYPE
  CLUS_1                5                 86
  CLUS_2                2                 55
  CLUS_3                7                179
  CLUS_4               13                106
  CLUS_5                4                 53
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  11P GAIN MUTATED       12     10      9
  11P GAIN WILD-TYPE    161    199    119
D21V10, multiclass
        clus
vv       11P GAIN MUTATED 11P GAIN WILD-TYPE
  CLUS_1               12                161
  CLUS_2               10                199
  CLUS_3                9                119
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  11P GAIN MUTATED        1      0      1      3
  11P GAIN WILD-TYPE     38     21     43     35
D21V11, multiclass
        clus
vv       11P GAIN MUTATED 11P GAIN WILD-TYPE
  CLUS_1                1                 38
  CLUS_2                0                 21
  CLUS_3                1                 43
  CLUS_4                3                 35
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  11P GAIN MUTATED        2      2      1      0
  11P GAIN WILD-TYPE     38     50     27     22
D21V12, multiclass
        clus
vv       11P GAIN MUTATED 11P GAIN WILD-TYPE
  CLUS_1                2                 38
  CLUS_2                2                 50
  CLUS_3                1                 27
  CLUS_4                0                 22
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(22) Variable = 11Q GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  11Q GAIN MUTATED        3      2      3
  11Q GAIN WILD-TYPE     28     23     11
D22V1, multiclass
        clus
vv       11Q GAIN MUTATED 11Q GAIN WILD-TYPE
  CLUS_1                3                 28
  CLUS_2                2                 23
  CLUS_3                3                 11
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  11Q GAIN MUTATED        1      1      1      1      1      1      2
  11Q GAIN WILD-TYPE     10     11      3     10     12      8      8
D22V2, multiclass
        clus
vv       11Q GAIN MUTATED 11Q GAIN WILD-TYPE
  CLUS_1                1                 10
  CLUS_2                1                 11
  CLUS_3                1                  3
  CLUS_4                1                 10
  CLUS_5                1                 12
  CLUS_6                1                  8
  CLUS_7                2                  8
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  11Q GAIN MUTATED        8      5      6      2      6      2
  11Q GAIN WILD-TYPE     53     75    150     80     74     67
D22V3, multiclass
        clus
vv       11Q GAIN MUTATED 11Q GAIN WILD-TYPE
  CLUS_1                8                 53
  CLUS_2                5                 75
  CLUS_3                6                150
  CLUS_4                2                 80
  CLUS_5                6                 74
  CLUS_6                2                 67
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  11Q GAIN MUTATED        5      1      6      3
  11Q GAIN WILD-TYPE     62     69     90     78
D22V4, multiclass
        clus
vv       11Q GAIN MUTATED 11Q GAIN WILD-TYPE
  CLUS_1                5                 62
  CLUS_2                1                 69
  CLUS_3                6                 90
  CLUS_4                3                 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 CLUS_5 CLUS_6
  11Q GAIN MUTATED        8      1      6      5      4      0
  11Q GAIN WILD-TYPE     80     85     84     77     88     33
D22V5, multiclass
        clus
vv       11Q GAIN MUTATED 11Q GAIN WILD-TYPE
  CLUS_1                8                 80
  CLUS_2                1                 85
  CLUS_3                6                 84
  CLUS_4                5                 77
  CLUS_5                4                 88
  CLUS_6                0                 33
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  11Q GAIN MUTATED        6      5      6      7
  11Q GAIN WILD-TYPE    129    107     79    132
D22V6, multiclass
        clus
vv       11Q GAIN MUTATED 11Q GAIN WILD-TYPE
  CLUS_1                6                129
  CLUS_2                5                107
  CLUS_3                6                 79
  CLUS_4                7                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 CLUS_4 CLUS_5
  11Q GAIN MUTATED        7      4      7      9      2
  11Q GAIN WILD-TYPE     74    166     74    144     38
D22V7, multiclass
        clus
vv       11Q GAIN MUTATED 11Q GAIN WILD-TYPE
  CLUS_1                7                 74
  CLUS_2                4                166
  CLUS_3                7                 74
  CLUS_4                9                144
  CLUS_5                2                 38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  11Q GAIN MUTATED        5      2      8      9      2      3
  11Q GAIN WILD-TYPE    112     31    175    123     33     22
D22V8, multiclass
        clus
vv       11Q GAIN MUTATED 11Q GAIN WILD-TYPE
  CLUS_1                5                112
  CLUS_2                2                 31
  CLUS_3                8                175
  CLUS_4                9                123
  CLUS_5                2                 33
  CLUS_6                3                 22
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  11Q GAIN MUTATED        5      2      8     10      4
  11Q GAIN WILD-TYPE     86     55    178    109     53
D22V9, multiclass
        clus
vv       11Q GAIN MUTATED 11Q GAIN WILD-TYPE
  CLUS_1                5                 86
  CLUS_2                2                 55
  CLUS_3                8                178
  CLUS_4               10                109
  CLUS_5                4                 53
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  11Q GAIN MUTATED       11     11      7
  11Q GAIN WILD-TYPE    162    198    121
D22V10, multiclass
        clus
vv       11Q GAIN MUTATED 11Q GAIN WILD-TYPE
  CLUS_1               11                162
  CLUS_2               11                198
  CLUS_3                7                121
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  11Q GAIN MUTATED        1      0      1      2
  11Q GAIN WILD-TYPE     38     21     43     36
D22V11, multiclass
        clus
vv       11Q GAIN MUTATED 11Q GAIN WILD-TYPE
  CLUS_1                1                 38
  CLUS_2                0                 21
  CLUS_3                1                 43
  CLUS_4                2                 36
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  11Q GAIN MUTATED        2      1      1      0
  11Q GAIN WILD-TYPE     38     51     27     22
D22V12, multiclass
        clus
vv       11Q GAIN MUTATED 11Q GAIN WILD-TYPE
  CLUS_1                2                 38
  CLUS_2                1                 51
  CLUS_3                1                 27
  CLUS_4                0                 22
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(23) Variable = 12P GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  12P GAIN MUTATED        3     10      2
  12P GAIN WILD-TYPE     28     15     12
D23V1, multiclass
        clus
vv       12P GAIN MUTATED 12P GAIN WILD-TYPE
  CLUS_1                3                 28
  CLUS_2               10                 15
  CLUS_3                2                 12
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  12P GAIN MUTATED        0      4      0      6      1      2      2
  12P GAIN WILD-TYPE     11      8      4      5     12      7      8
D23V2, multiclass
        clus
vv       12P GAIN MUTATED 12P GAIN WILD-TYPE
  CLUS_1                0                 11
  CLUS_2                4                  8
  CLUS_3                0                  4
  CLUS_4                6                  5
  CLUS_5                1                 12
  CLUS_6                2                  7
  CLUS_7                2                  8
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  12P GAIN MUTATED       20     25     40      7     23      6
  12P GAIN WILD-TYPE     41     55    116     75     57     63
D23V3, multiclass
        clus
vv       12P GAIN MUTATED 12P GAIN WILD-TYPE
  CLUS_1               20                 41
  CLUS_2               25                 55
  CLUS_3               40                116
  CLUS_4                7                 75
  CLUS_5               23                 57
  CLUS_6                6                 63
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  12P GAIN MUTATED       12     21     35      8
  12P GAIN WILD-TYPE     55     49     61     73
D23V4, multiclass
        clus
vv       12P GAIN MUTATED 12P GAIN WILD-TYPE
  CLUS_1               12                 55
  CLUS_2               21                 49
  CLUS_3               35                 61
  CLUS_4                8                 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 CLUS_5 CLUS_6
  12P GAIN MUTATED       16      3     47     20     19      2
  12P GAIN WILD-TYPE     72     83     43     62     73     31
D23V5, multiclass
        clus
vv       12P GAIN MUTATED 12P GAIN WILD-TYPE
  CLUS_1               16                 72
  CLUS_2                3                 83
  CLUS_3               47                 43
  CLUS_4               20                 62
  CLUS_5               19                 73
  CLUS_6                2                 31
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  12P GAIN MUTATED       21     37     31     18
  12P GAIN WILD-TYPE    114     75     54    121
D23V6, multiclass
        clus
vv       12P GAIN MUTATED 12P GAIN WILD-TYPE
  CLUS_1               21                114
  CLUS_2               37                 75
  CLUS_3               31                 54
  CLUS_4               18                121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  12P GAIN MUTATED       18     14     15     67      6
  12P GAIN WILD-TYPE     63    156     66     86     34
D23V7, multiclass
        clus
vv       12P GAIN MUTATED 12P GAIN WILD-TYPE
  CLUS_1               18                 63
  CLUS_2               14                156
  CLUS_3               15                 66
  CLUS_4               67                 86
  CLUS_5                6                 34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  12P GAIN MUTATED       22      5     19     58     11      5
  12P GAIN WILD-TYPE     95     28    164     74     24     20
D23V8, multiclass
        clus
vv       12P GAIN MUTATED 12P GAIN WILD-TYPE
  CLUS_1               22                 95
  CLUS_2                5                 28
  CLUS_3               19                164
  CLUS_4               58                 74
  CLUS_5               11                 24
  CLUS_6                5                 20
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  12P GAIN MUTATED       16     18     22     49     14
  12P GAIN WILD-TYPE     75     39    164     70     43
D23V9, multiclass
        clus
vv       12P GAIN MUTATED 12P GAIN WILD-TYPE
  CLUS_1               16                 75
  CLUS_2               18                 39
  CLUS_3               22                164
  CLUS_4               49                 70
  CLUS_5               14                 43
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  12P GAIN MUTATED       47     26     46
  12P GAIN WILD-TYPE    126    183     82
D23V10, multiclass
        clus
vv       12P GAIN MUTATED 12P GAIN WILD-TYPE
  CLUS_1               47                126
  CLUS_2               26                183
  CLUS_3               46                 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
  12P GAIN MUTATED        5      3      4     16
  12P GAIN WILD-TYPE     34     18     40     22
D23V11, multiclass
        clus
vv       12P GAIN MUTATED 12P GAIN WILD-TYPE
  CLUS_1                5                 34
  CLUS_2                3                 18
  CLUS_3                4                 40
  CLUS_4               16                 22
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  12P GAIN MUTATED        6     15      5      2
  12P GAIN WILD-TYPE     34     37     23     20
D23V12, multiclass
        clus
vv       12P GAIN MUTATED 12P GAIN WILD-TYPE
  CLUS_1                6                 34
  CLUS_2               15                 37
  CLUS_3                5                 23
  CLUS_4                2                 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"

Clustering(24) Variable = 12Q GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  12Q GAIN MUTATED        3     10      2
  12Q GAIN WILD-TYPE     28     15     12
D24V1, multiclass
        clus
vv       12Q GAIN MUTATED 12Q GAIN WILD-TYPE
  CLUS_1                3                 28
  CLUS_2               10                 15
  CLUS_3                2                 12
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  12Q GAIN MUTATED        0      4      0      6      1      2      2
  12Q GAIN WILD-TYPE     11      8      4      5     12      7      8
D24V2, multiclass
        clus
vv       12Q GAIN MUTATED 12Q GAIN WILD-TYPE
  CLUS_1                0                 11
  CLUS_2                4                  8
  CLUS_3                0                  4
  CLUS_4                6                  5
  CLUS_5                1                 12
  CLUS_6                2                  7
  CLUS_7                2                  8
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  12Q GAIN MUTATED       20     24     41      7     23      7
  12Q GAIN WILD-TYPE     41     56    115     75     57     62
D24V3, multiclass
        clus
vv       12Q GAIN MUTATED 12Q GAIN WILD-TYPE
  CLUS_1               20                 41
  CLUS_2               24                 56
  CLUS_3               41                115
  CLUS_4                7                 75
  CLUS_5               23                 57
  CLUS_6                7                 62
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  12Q GAIN MUTATED       12     20     36      8
  12Q GAIN WILD-TYPE     55     50     60     73
D24V4, multiclass
        clus
vv       12Q GAIN MUTATED 12Q GAIN WILD-TYPE
  CLUS_1               12                 55
  CLUS_2               20                 50
  CLUS_3               36                 60
  CLUS_4                8                 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 CLUS_5 CLUS_6
  12Q GAIN MUTATED       16      3     49     20     18      2
  12Q GAIN WILD-TYPE     72     83     41     62     74     31
D24V5, multiclass
        clus
vv       12Q GAIN MUTATED 12Q GAIN WILD-TYPE
  CLUS_1               16                 72
  CLUS_2                3                 83
  CLUS_3               49                 41
  CLUS_4               20                 62
  CLUS_5               18                 74
  CLUS_6                2                 31
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  12Q GAIN MUTATED       21     38     31     18
  12Q GAIN WILD-TYPE    114     74     54    121
D24V6, multiclass
        clus
vv       12Q GAIN MUTATED 12Q GAIN WILD-TYPE
  CLUS_1               21                114
  CLUS_2               38                 74
  CLUS_3               31                 54
  CLUS_4               18                121
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  12Q GAIN MUTATED       19     14     14     68      6
  12Q GAIN WILD-TYPE     62    156     67     85     34
D24V7, multiclass
        clus
vv       12Q GAIN MUTATED 12Q GAIN WILD-TYPE
  CLUS_1               19                 62
  CLUS_2               14                156
  CLUS_3               14                 67
  CLUS_4               68                 85
  CLUS_5                6                 34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  12Q GAIN MUTATED       22      5     19     59     11      5
  12Q GAIN WILD-TYPE     95     28    164     73     24     20
D24V8, multiclass
        clus
vv       12Q GAIN MUTATED 12Q GAIN WILD-TYPE
  CLUS_1               22                 95
  CLUS_2                5                 28
  CLUS_3               19                164
  CLUS_4               59                 73
  CLUS_5               11                 24
  CLUS_6                5                 20
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  12Q GAIN MUTATED       15     19     22     49     15
  12Q GAIN WILD-TYPE     76     38    164     70     42
D24V9, multiclass
        clus
vv       12Q GAIN MUTATED 12Q GAIN WILD-TYPE
  CLUS_1               15                 76
  CLUS_2               19                 38
  CLUS_3               22                164
  CLUS_4               49                 70
  CLUS_5               15                 42
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  12Q GAIN MUTATED       47     26     47
  12Q GAIN WILD-TYPE    126    183     81
D24V10, multiclass
        clus
vv       12Q GAIN MUTATED 12Q GAIN WILD-TYPE
  CLUS_1               47                126
  CLUS_2               26                183
  CLUS_3               47                 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
  12Q GAIN MUTATED        6      3      4     16
  12Q GAIN WILD-TYPE     33     18     40     22
D24V11, multiclass
        clus
vv       12Q GAIN MUTATED 12Q GAIN WILD-TYPE
  CLUS_1                6                 33
  CLUS_2                3                 18
  CLUS_3                4                 40
  CLUS_4               16                 22
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  12Q GAIN MUTATED        7     15      5      2
  12Q GAIN WILD-TYPE     33     37     23     20
D24V12, multiclass
        clus
vv       12Q GAIN MUTATED 12Q GAIN WILD-TYPE
  CLUS_1                7                 33
  CLUS_2               15                 37
  CLUS_3                5                 23
  CLUS_4                2                 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"

Clustering(25) Variable = 13Q GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  13Q GAIN MUTATED        1      0      1
  13Q GAIN WILD-TYPE     30     25     13
D25V1, multiclass
[1] "Remove cluster labels:" "13Q GAIN MUTATED"      
clus
  13Q GAIN MUTATED 13Q GAIN WILD-TYPE 
                 2                 68 
        TCGA-A3-3306         TCGA-A3-3307         TCGA-A3-3308 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-A3-3311         TCGA-A3-3313         TCGA-A3-3316 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-A3-3317         TCGA-A3-3319         TCGA-A3-3320 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-A3-3322         TCGA-A3-3323         TCGA-A3-3324 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-A3-3326         TCGA-A3-3331         TCGA-A3-3335 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-A3-3336         TCGA-A3-3343         TCGA-A3-3346 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-A3-3347         TCGA-A3-3349         TCGA-A3-3351 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-A3-3352         TCGA-A3-3359         TCGA-A3-3362 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-A3-3363         TCGA-A3-3365         TCGA-A3-3372 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-A3-3374         TCGA-A3-3378         TCGA-A3-3380 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-A3-3382         TCGA-A3-3383         TCGA-AK-3426 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-AK-3427         TCGA-AK-3440         TCGA-AK-3443 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-AK-3444         TCGA-AK-3447         TCGA-AK-3455 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-AK-3456         TCGA-AK-3465         TCGA-AS-3777 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-AS-3778         TCGA-B2-3923         TCGA-B2-3924 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-B2-4098         TCGA-B2-4099         TCGA-B2-4102 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-B8-4143         TCGA-B8-4148         TCGA-B8-4151 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-B8-4154         TCGA-B8-4619         TCGA-B8-4620 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-BP-4161         TCGA-BP-4162         TCGA-BP-4163 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-BP-4164         TCGA-BP-4167         TCGA-CJ-4634 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-CJ-4636         TCGA-CJ-4637         TCGA-CJ-4638 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-CJ-4639         TCGA-CJ-4640         TCGA-CJ-4641 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-CJ-4643         TCGA-CJ-4644 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  13Q GAIN MUTATED        0      0      0      0      0      1      1
  13Q GAIN WILD-TYPE     11     12      4     11     13      8      9
D25V2, multiclass
[1] "Remove cluster labels:" "13Q GAIN MUTATED"      
clus
  13Q GAIN MUTATED 13Q GAIN WILD-TYPE 
                 2                 68 
        TCGA-A3-3306         TCGA-A3-3307         TCGA-A3-3308 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-A3-3311         TCGA-A3-3313         TCGA-A3-3316 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-A3-3317         TCGA-A3-3319         TCGA-A3-3320 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-A3-3322         TCGA-A3-3323         TCGA-A3-3324 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-A3-3326         TCGA-A3-3331         TCGA-A3-3335 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-A3-3336         TCGA-A3-3343         TCGA-A3-3346 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-A3-3347         TCGA-A3-3349         TCGA-A3-3351 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-A3-3352         TCGA-A3-3359         TCGA-A3-3362 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-A3-3363         TCGA-A3-3365         TCGA-A3-3372 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-A3-3374         TCGA-A3-3378         TCGA-A3-3380 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-A3-3382         TCGA-A3-3383         TCGA-AK-3426 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-AK-3427         TCGA-AK-3440         TCGA-AK-3443 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-AK-3444         TCGA-AK-3447         TCGA-AK-3455 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-AK-3456         TCGA-AK-3465         TCGA-AS-3777 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-AS-3778         TCGA-B2-3923         TCGA-B2-3924 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-B2-4098         TCGA-B2-4099         TCGA-B2-4102 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-B8-4143         TCGA-B8-4148         TCGA-B8-4151 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-B8-4154         TCGA-B8-4619         TCGA-B8-4620 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-BP-4161         TCGA-BP-4162         TCGA-BP-4163 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-BP-4164         TCGA-BP-4167         TCGA-CJ-4634 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-CJ-4636         TCGA-CJ-4637         TCGA-CJ-4638 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-CJ-4639         TCGA-CJ-4640         TCGA-CJ-4641 
"13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" "13Q GAIN WILD-TYPE" 
        TCGA-CJ-4643         TCGA-CJ-4644 
"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        4      8      1      4      3      2
  13Q GAIN WILD-TYPE     57     72    155     78     77     67
D25V3, multiclass
        clus
vv       13Q GAIN MUTATED 13Q GAIN WILD-TYPE
  CLUS_1                4                 57
  CLUS_2                8                 72
  CLUS_3                1                155
  CLUS_4                4                 78
  CLUS_5                3                 77
  CLUS_6                2                 67
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  13Q GAIN MUTATED        2      1     11      4
  13Q GAIN WILD-TYPE     65     69     85     77
D25V4, multiclass
        clus
vv       13Q GAIN MUTATED 13Q GAIN WILD-TYPE
  CLUS_1                2                 65
  CLUS_2                1                 69
  CLUS_3               11                 85
  CLUS_4                4                 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 CLUS_5 CLUS_6
  13Q GAIN MUTATED        2      2      6      2      7      0
  13Q GAIN WILD-TYPE     86     84     84     80     85     33
D25V5, multiclass
        clus
vv       13Q GAIN MUTATED 13Q GAIN WILD-TYPE
  CLUS_1                2                 86
  CLUS_2                2                 84
  CLUS_3                6                 84
  CLUS_4                2                 80
  CLUS_5                7                 85
  CLUS_6                0                 33
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  13Q GAIN MUTATED        8      4      4      3
  13Q GAIN WILD-TYPE    127    108     81    136
D25V6, multiclass
        clus
vv       13Q GAIN MUTATED 13Q GAIN WILD-TYPE
  CLUS_1                8                127
  CLUS_2                4                108
  CLUS_3                4                 81
  CLUS_4                3                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 CLUS_4 CLUS_5
  13Q GAIN MUTATED        4      3      8      5      2
  13Q GAIN WILD-TYPE     77    167     73    148     38
D25V7, multiclass
        clus
vv       13Q GAIN MUTATED 13Q GAIN WILD-TYPE
  CLUS_1                4                 77
  CLUS_2                3                167
  CLUS_3                8                 73
  CLUS_4                5                148
  CLUS_5                2                 38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  13Q GAIN MUTATED        7      4      5      6      0      0
  13Q GAIN WILD-TYPE    110     29    178    126     35     25
D25V8, multiclass
        clus
vv       13Q GAIN MUTATED 13Q GAIN WILD-TYPE
  CLUS_1                7                110
  CLUS_2                4                 29
  CLUS_3                5                178
  CLUS_4                6                126
  CLUS_5                0                 35
  CLUS_6                0                 25
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  13Q GAIN MUTATED        4      0      6      4      7
  13Q GAIN WILD-TYPE     87     57    180    115     50
D25V9, multiclass
        clus
vv       13Q GAIN MUTATED 13Q GAIN WILD-TYPE
  CLUS_1                4                 87
  CLUS_2                0                 57
  CLUS_3                6                180
  CLUS_4                4                115
  CLUS_5                7                 50
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  13Q GAIN MUTATED        8     10      3
  13Q GAIN WILD-TYPE    165    199    125
D25V10, multiclass
        clus
vv       13Q GAIN MUTATED 13Q GAIN WILD-TYPE
  CLUS_1                8                165
  CLUS_2               10                199
  CLUS_3                3                125
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  13Q GAIN MUTATED        0      1      4      1
  13Q GAIN WILD-TYPE     39     20     40     37
D25V11, multiclass
        clus
vv       13Q GAIN MUTATED 13Q GAIN WILD-TYPE
  CLUS_1                0                 39
  CLUS_2                1                 20
  CLUS_3                4                 40
  CLUS_4                1                 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
  13Q GAIN MUTATED        0      3      2      1
  13Q GAIN WILD-TYPE     40     49     26     21
D25V12, multiclass
        clus
vv       13Q GAIN MUTATED 13Q GAIN WILD-TYPE
  CLUS_1                0                 40
  CLUS_2                3                 49
  CLUS_3                2                 26
  CLUS_4                1                 21
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(26) Variable = 14Q GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  14Q GAIN MUTATED        1      1      1
  14Q GAIN WILD-TYPE     30     24     13
D26V1, multiclass
        clus
vv       14Q GAIN MUTATED 14Q GAIN WILD-TYPE
  CLUS_1                1                 30
  CLUS_2                1                 24
  CLUS_3                1                 13
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  14Q GAIN MUTATED        0      1      0      0      0      1      1
  14Q GAIN WILD-TYPE     11     11      4     11     13      8      9
D26V2, multiclass
        clus
vv       14Q GAIN MUTATED 14Q GAIN WILD-TYPE
  CLUS_1                0                 11
  CLUS_2                1                 11
  CLUS_3                0                  4
  CLUS_4                0                 11
  CLUS_5                0                 13
  CLUS_6                1                  8
  CLUS_7                1                  9
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  14Q GAIN MUTATED        1      4      3      0      3      5
  14Q GAIN WILD-TYPE     60     76    153     82     77     64
D26V3, multiclass
        clus
vv       14Q GAIN MUTATED 14Q GAIN WILD-TYPE
  CLUS_1                1                 60
  CLUS_2                4                 76
  CLUS_3                3                153
  CLUS_4                0                 82
  CLUS_5                3                 77
  CLUS_6                5                 64
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  14Q GAIN MUTATED        3      3      4      0
  14Q GAIN WILD-TYPE     64     67     92     81
D26V4, multiclass
        clus
vv       14Q GAIN MUTATED 14Q GAIN WILD-TYPE
  CLUS_1                3                 64
  CLUS_2                3                 67
  CLUS_3                4                 92
  CLUS_4                0                 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 CLUS_5 CLUS_6
  14Q GAIN MUTATED        5      0      7      1      0      0
  14Q GAIN WILD-TYPE     83     86     83     81     92     33
D26V5, multiclass
        clus
vv       14Q GAIN MUTATED 14Q GAIN WILD-TYPE
  CLUS_1                5                 83
  CLUS_2                0                 86
  CLUS_3                7                 83
  CLUS_4                1                 81
  CLUS_5                0                 92
  CLUS_6                0                 33
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  14Q GAIN MUTATED        1      4      6      2
  14Q GAIN WILD-TYPE    134    108     79    137
D26V6, multiclass
        clus
vv       14Q GAIN MUTATED 14Q GAIN WILD-TYPE
  CLUS_1                1                134
  CLUS_2                4                108
  CLUS_3                6                 79
  CLUS_4                2                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 CLUS_4 CLUS_5
  14Q GAIN MUTATED        6      1      3      5      1
  14Q GAIN WILD-TYPE     75    169     78    148     39
D26V7, multiclass
        clus
vv       14Q GAIN MUTATED 14Q GAIN WILD-TYPE
  CLUS_1                6                 75
  CLUS_2                1                169
  CLUS_3                3                 78
  CLUS_4                5                148
  CLUS_5                1                 39
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  14Q GAIN MUTATED        3      0      1      7      0      5
  14Q GAIN WILD-TYPE    114     33    182    125     35     20
D26V8, multiclass
        clus
vv       14Q GAIN MUTATED 14Q GAIN WILD-TYPE
  CLUS_1                3                114
  CLUS_2                0                 33
  CLUS_3                1                182
  CLUS_4                7                125
  CLUS_5                0                 35
  CLUS_6                5                 20
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  14Q GAIN MUTATED        2      3      1      7      2
  14Q GAIN WILD-TYPE     89     54    185    112     55
D26V9, multiclass
        clus
vv       14Q GAIN MUTATED 14Q GAIN WILD-TYPE
  CLUS_1                2                 89
  CLUS_2                3                 54
  CLUS_3                1                185
  CLUS_4                7                112
  CLUS_5                2                 55
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  14Q GAIN MUTATED        6      2      7
  14Q GAIN WILD-TYPE    167    207    121
D26V10, multiclass
        clus
vv       14Q GAIN MUTATED 14Q GAIN WILD-TYPE
  CLUS_1                6                167
  CLUS_2                2                207
  CLUS_3                7                121
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  14Q GAIN MUTATED        1      1      0      0
  14Q GAIN WILD-TYPE     38     20     44     38
D26V11, multiclass
[1] "Remove cluster labels:" "14Q GAIN MUTATED"      
clus
  14Q GAIN MUTATED 14Q GAIN WILD-TYPE 
                 2                140 
        TCGA-3Z-A93Z         TCGA-6D-AA2E         TCGA-A3-3317 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-A3-3358         TCGA-A3-3387         TCGA-A3-A6NI 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-A3-A6NJ         TCGA-A3-A6NL         TCGA-A3-A8CQ 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-A3-A8OU         TCGA-A3-A8OV         TCGA-A3-A8OW 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-A3-A8OX         TCGA-AK-3458         TCGA-AK-3465 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-B0-4698         TCGA-B0-4700         TCGA-B0-4706 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-B0-4710         TCGA-B0-4712         TCGA-B0-4810 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-B0-4811         TCGA-B0-4821         TCGA-B0-4836 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-B0-4837         TCGA-B0-4852         TCGA-B0-5080 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-B0-5085         TCGA-B0-5088         TCGA-B0-5399 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-B0-5691         TCGA-B0-5692         TCGA-B0-5693 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-B0-5694         TCGA-B0-5695         TCGA-B0-5696 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-B0-5699         TCGA-B0-5702         TCGA-B0-5705 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-B0-5709         TCGA-B2-3923         TCGA-B2-3924 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-B2-5633         TCGA-B2-5635         TCGA-B2-5639 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-B4-5377         TCGA-B4-5836         TCGA-B8-4621 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-B8-5545         TCGA-B8-5550         TCGA-B8-5551 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-B8-5552         TCGA-B8-5553         TCGA-B8-A54H 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-B8-A54I         TCGA-B8-A54J         TCGA-B8-A54K 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-B8-A7U6         TCGA-B8-A8YJ         TCGA-BP-4173 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-BP-4340         TCGA-BP-4761         TCGA-BP-4787 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-BP-4789         TCGA-BP-4790         TCGA-BP-4804 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-BP-4807         TCGA-BP-4959         TCGA-BP-4961 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-BP-4967         TCGA-BP-4968         TCGA-BP-4969 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-BP-4970         TCGA-BP-4974         TCGA-BP-4976 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-BP-4981         TCGA-BP-4982         TCGA-BP-4985 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-BP-4988         TCGA-BP-4989         TCGA-BP-4992 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-BP-4995         TCGA-BP-4998         TCGA-BP-5001 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-BP-5008         TCGA-BP-5009         TCGA-CJ-4870 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-CJ-4875         TCGA-CJ-4876         TCGA-CJ-4878 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-CJ-4881         TCGA-CJ-4887         TCGA-CJ-4889 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-CJ-4890         TCGA-CJ-4895         TCGA-CJ-4900 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-CJ-5671         TCGA-CJ-5675         TCGA-CJ-5676 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-CJ-5681         TCGA-CJ-5683         TCGA-CJ-5686 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-CJ-6031         TCGA-CJ-6032         TCGA-CW-5585 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-CW-5589         TCGA-CW-6087         TCGA-CW-6088 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-CZ-4854         TCGA-CZ-4857         TCGA-CZ-4858 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-CZ-4860         TCGA-CZ-4864         TCGA-CZ-5453 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-CZ-5454         TCGA-CZ-5455         TCGA-CZ-5457 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-CZ-5459         TCGA-CZ-5462         TCGA-CZ-5463 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-CZ-5464         TCGA-CZ-5466         TCGA-CZ-5467 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-CZ-5469         TCGA-CZ-5470         TCGA-CZ-5989 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-DV-5565         TCGA-DV-5566         TCGA-DV-5569 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-DV-5573         TCGA-EU-5904         TCGA-G6-A5PC 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-G6-A8L6         TCGA-G6-A8L7         TCGA-G6-A8L8 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-GK-A6C7         TCGA-MM-A563         TCGA-MM-A564 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-MM-A84U         TCGA-T7-A92I 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  14Q GAIN MUTATED        1      1      0      0
  14Q GAIN WILD-TYPE     39     51     28     22
D26V12, multiclass
[1] "Remove cluster labels:" "14Q GAIN MUTATED"      
clus
  14Q GAIN MUTATED 14Q GAIN WILD-TYPE 
                 2                140 
        TCGA-3Z-A93Z         TCGA-6D-AA2E         TCGA-A3-3317 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-A3-3358         TCGA-A3-3387         TCGA-A3-A6NI 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-A3-A6NJ         TCGA-A3-A6NL         TCGA-A3-A8CQ 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-A3-A8OU         TCGA-A3-A8OV         TCGA-A3-A8OW 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-A3-A8OX         TCGA-AK-3458         TCGA-AK-3465 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-B0-4698         TCGA-B0-4700         TCGA-B0-4706 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-B0-4710         TCGA-B0-4712         TCGA-B0-4810 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-B0-4811         TCGA-B0-4821         TCGA-B0-4836 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-B0-4837         TCGA-B0-4852         TCGA-B0-5080 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-B0-5085         TCGA-B0-5088         TCGA-B0-5399 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-B0-5691         TCGA-B0-5692         TCGA-B0-5693 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-B0-5694         TCGA-B0-5695         TCGA-B0-5696 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-B0-5699         TCGA-B0-5702         TCGA-B0-5705 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-B0-5709         TCGA-B2-3923         TCGA-B2-3924 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-B2-5633         TCGA-B2-5635         TCGA-B2-5639 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-B4-5377         TCGA-B4-5836         TCGA-B8-4621 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-B8-5545         TCGA-B8-5550         TCGA-B8-5551 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-B8-5552         TCGA-B8-5553         TCGA-B8-A54H 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-B8-A54I         TCGA-B8-A54J         TCGA-B8-A54K 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-B8-A7U6         TCGA-B8-A8YJ         TCGA-BP-4173 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-BP-4340         TCGA-BP-4761         TCGA-BP-4787 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-BP-4789         TCGA-BP-4790         TCGA-BP-4804 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-BP-4807         TCGA-BP-4959         TCGA-BP-4961 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-BP-4967         TCGA-BP-4968         TCGA-BP-4969 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-BP-4970         TCGA-BP-4974         TCGA-BP-4976 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-BP-4981         TCGA-BP-4982         TCGA-BP-4985 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-BP-4988         TCGA-BP-4989         TCGA-BP-4992 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-BP-4995         TCGA-BP-4998         TCGA-BP-5001 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-BP-5008         TCGA-BP-5009         TCGA-CJ-4870 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-CJ-4875         TCGA-CJ-4876         TCGA-CJ-4878 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-CJ-4881         TCGA-CJ-4887         TCGA-CJ-4889 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-CJ-4890         TCGA-CJ-4895         TCGA-CJ-4900 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-CJ-5671         TCGA-CJ-5675         TCGA-CJ-5676 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-CJ-5681         TCGA-CJ-5683         TCGA-CJ-5686 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-CJ-6031         TCGA-CJ-6032         TCGA-CW-5585 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-CW-5589         TCGA-CW-6087         TCGA-CW-6088 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-CZ-4854         TCGA-CZ-4857         TCGA-CZ-4858 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-CZ-4860         TCGA-CZ-4864         TCGA-CZ-5453 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-CZ-5454         TCGA-CZ-5455         TCGA-CZ-5457 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-CZ-5459         TCGA-CZ-5462         TCGA-CZ-5463 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-CZ-5464         TCGA-CZ-5466         TCGA-CZ-5467 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-CZ-5469         TCGA-CZ-5470         TCGA-CZ-5989 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-DV-5565         TCGA-DV-5566         TCGA-DV-5569 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-DV-5573         TCGA-EU-5904         TCGA-G6-A5PC 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-G6-A8L6         TCGA-G6-A8L7         TCGA-G6-A8L8 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-GK-A6C7         TCGA-MM-A563         TCGA-MM-A564 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 
        TCGA-MM-A84U         TCGA-T7-A92I 
"14Q GAIN WILD-TYPE" "14Q GAIN WILD-TYPE" 

Clustering(27) Variable = 15Q GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  15Q GAIN MUTATED        2      1      0
  15Q GAIN WILD-TYPE     29     24     14
D27V1, multiclass
        clus
vv       15Q GAIN MUTATED 15Q GAIN WILD-TYPE
  CLUS_1                2                 29
  CLUS_2                1                 24
  CLUS_3                0                 14
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  15Q GAIN MUTATED        0      1      0      0      0      2      0
  15Q GAIN WILD-TYPE     11     11      4     11     13      7     10
D27V2, multiclass
        clus
vv       15Q GAIN MUTATED 15Q GAIN WILD-TYPE
  CLUS_1                0                 11
  CLUS_2                1                 11
  CLUS_3                0                  4
  CLUS_4                0                 11
  CLUS_5                0                 13
  CLUS_6                2                  7
  CLUS_7                0                 10
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  15Q GAIN MUTATED        7      4      3      0     10      2
  15Q GAIN WILD-TYPE     54     76    153     82     70     67
D27V3, multiclass
        clus
vv       15Q GAIN MUTATED 15Q GAIN WILD-TYPE
  CLUS_1                7                 54
  CLUS_2                4                 76
  CLUS_3                3                153
  CLUS_4                0                 82
  CLUS_5               10                 70
  CLUS_6                2                 67
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  15Q GAIN MUTATED        4      0      6      3
  15Q GAIN WILD-TYPE     63     70     90     78
D27V4, multiclass
        clus
vv       15Q GAIN MUTATED 15Q GAIN WILD-TYPE
  CLUS_1                4                 63
  CLUS_2                0                 70
  CLUS_3                6                 90
  CLUS_4                3                 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 CLUS_5 CLUS_6
  15Q GAIN MUTATED        5      2      9      4      1      1
  15Q GAIN WILD-TYPE     83     84     81     78     91     32
D27V5, multiclass
        clus
vv       15Q GAIN MUTATED 15Q GAIN WILD-TYPE
  CLUS_1                5                 83
  CLUS_2                2                 84
  CLUS_3                9                 81
  CLUS_4                4                 78
  CLUS_5                1                 91
  CLUS_6                1                 32
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  15Q GAIN MUTATED        0      7      6      9
  15Q GAIN WILD-TYPE    135    105     79    130
D27V6, multiclass
        clus
vv       15Q GAIN MUTATED 15Q GAIN WILD-TYPE
  CLUS_1                0                135
  CLUS_2                7                105
  CLUS_3                6                 79
  CLUS_4                9                130
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  15Q GAIN MUTATED        6      6      6      6      1
  15Q GAIN WILD-TYPE     75    164     75    147     39
D27V7, multiclass
        clus
vv       15Q GAIN MUTATED 15Q GAIN WILD-TYPE
  CLUS_1                6                 75
  CLUS_2                6                164
  CLUS_3                6                 75
  CLUS_4                6                147
  CLUS_5                1                 39
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  15Q GAIN MUTATED        5      0      8      5      3      4
  15Q GAIN WILD-TYPE    112     33    175    127     32     21
D27V8, multiclass
        clus
vv       15Q GAIN MUTATED 15Q GAIN WILD-TYPE
  CLUS_1                5                112
  CLUS_2                0                 33
  CLUS_3                8                175
  CLUS_4                5                127
  CLUS_5                3                 32
  CLUS_6                4                 21
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  15Q GAIN MUTATED        7      2      7      7      2
  15Q GAIN WILD-TYPE     84     55    179    112     55
D27V9, multiclass
        clus
vv       15Q GAIN MUTATED 15Q GAIN WILD-TYPE
  CLUS_1                7                 84
  CLUS_2                2                 55
  CLUS_3                7                179
  CLUS_4                7                112
  CLUS_5                2                 55
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  15Q GAIN MUTATED        9      7      9
  15Q GAIN WILD-TYPE    164    202    119
D27V10, multiclass
        clus
vv       15Q GAIN MUTATED 15Q GAIN WILD-TYPE
  CLUS_1                9                164
  CLUS_2                7                202
  CLUS_3                9                119
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  15Q GAIN MUTATED        1      1      2      0
  15Q GAIN WILD-TYPE     38     20     42     38
D27V11, multiclass
        clus
vv       15Q GAIN MUTATED 15Q GAIN WILD-TYPE
  CLUS_1                1                 38
  CLUS_2                1                 20
  CLUS_3                2                 42
  CLUS_4                0                 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
  15Q GAIN MUTATED        1      1      0      2
  15Q GAIN WILD-TYPE     39     51     28     20
D27V12, multiclass
        clus
vv       15Q GAIN MUTATED 15Q GAIN WILD-TYPE
  CLUS_1                1                 39
  CLUS_2                1                 51
  CLUS_3                0                 28
  CLUS_4                2                 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"

Clustering(28) Variable = 16P GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  16P GAIN MUTATED        4      7      3
  16P GAIN WILD-TYPE     27     18     11
D28V1, multiclass
        clus
vv       16P GAIN MUTATED 16P GAIN WILD-TYPE
  CLUS_1                4                 27
  CLUS_2                7                 18
  CLUS_3                3                 11
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  16P GAIN MUTATED        0      3      2      3      2      2      2
  16P GAIN WILD-TYPE     11      9      2      8     11      7      8
D28V2, multiclass
        clus
vv       16P GAIN MUTATED 16P GAIN WILD-TYPE
  CLUS_1                0                 11
  CLUS_2                3                  9
  CLUS_3                2                  2
  CLUS_4                3                  8
  CLUS_5                2                 11
  CLUS_6                2                  7
  CLUS_7                2                  8
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  16P GAIN MUTATED       25     21     30      6     19      6
  16P GAIN WILD-TYPE     36     59    126     76     61     63
D28V3, multiclass
        clus
vv       16P GAIN MUTATED 16P GAIN WILD-TYPE
  CLUS_1               25                 36
  CLUS_2               21                 59
  CLUS_3               30                126
  CLUS_4                6                 76
  CLUS_5               19                 61
  CLUS_6                6                 63
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  16P GAIN MUTATED       12     14     23     11
  16P GAIN WILD-TYPE     55     56     73     70
D28V4, multiclass
        clus
vv       16P GAIN MUTATED 16P GAIN WILD-TYPE
  CLUS_1               12                 55
  CLUS_2               14                 56
  CLUS_3               23                 73
  CLUS_4               11                 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 CLUS_5 CLUS_6
  16P GAIN MUTATED       23     10     23     22     13      4
  16P GAIN WILD-TYPE     65     76     67     60     79     29
D28V5, multiclass
        clus
vv       16P GAIN MUTATED 16P GAIN WILD-TYPE
  CLUS_1               23                 65
  CLUS_2               10                 76
  CLUS_3               23                 67
  CLUS_4               22                 60
  CLUS_5               13                 79
  CLUS_6                4                 29
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  16P GAIN MUTATED       20     26     22     27
  16P GAIN WILD-TYPE    115     86     63    112
D28V6, multiclass
        clus
vv       16P GAIN MUTATED 16P GAIN WILD-TYPE
  CLUS_1               20                115
  CLUS_2               26                 86
  CLUS_3               22                 63
  CLUS_4               27                112
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  16P GAIN MUTATED       22     18     16     44      7
  16P GAIN WILD-TYPE     59    152     65    109     33
D28V7, multiclass
        clus
vv       16P GAIN MUTATED 16P GAIN WILD-TYPE
  CLUS_1               22                 59
  CLUS_2               18                152
  CLUS_3               16                 65
  CLUS_4               44                109
  CLUS_5                7                 33
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  16P GAIN MUTATED       26     13     23     34      6      5
  16P GAIN WILD-TYPE     91     20    160     98     29     20
D28V8, multiclass
        clus
vv       16P GAIN MUTATED 16P GAIN WILD-TYPE
  CLUS_1               26                 91
  CLUS_2               13                 20
  CLUS_3               23                160
  CLUS_4               34                 98
  CLUS_5                6                 29
  CLUS_6                5                 20
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  16P GAIN MUTATED       18     17     28     32     11
  16P GAIN WILD-TYPE     73     40    158     87     46
D28V9, multiclass
        clus
vv       16P GAIN MUTATED 16P GAIN WILD-TYPE
  CLUS_1               18                 73
  CLUS_2               17                 40
  CLUS_3               28                158
  CLUS_4               32                 87
  CLUS_5               11                 46
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  16P GAIN MUTATED       32     35     39
  16P GAIN WILD-TYPE    141    174     89
D28V10, multiclass
        clus
vv       16P GAIN MUTATED 16P GAIN WILD-TYPE
  CLUS_1               32                141
  CLUS_2               35                174
  CLUS_3               39                 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
  16P GAIN MUTATED        4      4     11     10
  16P GAIN WILD-TYPE     35     17     33     28
D28V11, multiclass
        clus
vv       16P GAIN MUTATED 16P GAIN WILD-TYPE
  CLUS_1                4                 35
  CLUS_2                4                 17
  CLUS_3               11                 33
  CLUS_4               10                 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
  16P GAIN MUTATED        5     14      6      4
  16P GAIN WILD-TYPE     35     38     22     18
D28V12, multiclass
        clus
vv       16P GAIN MUTATED 16P GAIN WILD-TYPE
  CLUS_1                5                 35
  CLUS_2               14                 38
  CLUS_3                6                 22
  CLUS_4                4                 18
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(29) Variable = 16Q GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  16Q GAIN MUTATED        3      6      3
  16Q GAIN WILD-TYPE     28     19     11
D29V1, multiclass
        clus
vv       16Q GAIN MUTATED 16Q GAIN WILD-TYPE
  CLUS_1                3                 28
  CLUS_2                6                 19
  CLUS_3                3                 11
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  16Q GAIN MUTATED        0      2      2      3      2      1      2
  16Q GAIN WILD-TYPE     11     10      2      8     11      8      8
D29V2, multiclass
        clus
vv       16Q GAIN MUTATED 16Q GAIN WILD-TYPE
  CLUS_1                0                 11
  CLUS_2                2                 10
  CLUS_3                2                  2
  CLUS_4                3                  8
  CLUS_5                2                 11
  CLUS_6                1                  8
  CLUS_7                2                  8
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  16Q GAIN MUTATED       22     21     26      5     19      6
  16Q GAIN WILD-TYPE     39     59    130     77     61     63
D29V3, multiclass
        clus
vv       16Q GAIN MUTATED 16Q GAIN WILD-TYPE
  CLUS_1               22                 39
  CLUS_2               21                 59
  CLUS_3               26                130
  CLUS_4                5                 77
  CLUS_5               19                 61
  CLUS_6                6                 63
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  16Q GAIN MUTATED       12     13     22      8
  16Q GAIN WILD-TYPE     55     57     74     73
D29V4, multiclass
        clus
vv       16Q GAIN MUTATED 16Q GAIN WILD-TYPE
  CLUS_1               12                 55
  CLUS_2               13                 57
  CLUS_3               22                 74
  CLUS_4                8                 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 CLUS_5 CLUS_6
  16Q GAIN MUTATED       23      7     23     18     12      4
  16Q GAIN WILD-TYPE     65     79     67     64     80     29
D29V5, multiclass
        clus
vv       16Q GAIN MUTATED 16Q GAIN WILD-TYPE
  CLUS_1               23                 65
  CLUS_2                7                 79
  CLUS_3               23                 67
  CLUS_4               18                 64
  CLUS_5               12                 80
  CLUS_6                4                 29
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  16Q GAIN MUTATED       18     24     22     23
  16Q GAIN WILD-TYPE    117     88     63    116
D29V6, multiclass
        clus
vv       16Q GAIN MUTATED 16Q GAIN WILD-TYPE
  CLUS_1               18                117
  CLUS_2               24                 88
  CLUS_3               22                 63
  CLUS_4               23                116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  16Q GAIN MUTATED       19     16     15     42      7
  16Q GAIN WILD-TYPE     62    154     66    111     33
D29V7, multiclass
        clus
vv       16Q GAIN MUTATED 16Q GAIN WILD-TYPE
  CLUS_1               19                 62
  CLUS_2               16                154
  CLUS_3               15                 66
  CLUS_4               42                111
  CLUS_5                7                 33
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  16Q GAIN MUTATED       23     11     22     33      6      4
  16Q GAIN WILD-TYPE     94     22    161     99     29     21
D29V8, multiclass
        clus
vv       16Q GAIN MUTATED 16Q GAIN WILD-TYPE
  CLUS_1               23                 94
  CLUS_2               11                 22
  CLUS_3               22                161
  CLUS_4               33                 99
  CLUS_5                6                 29
  CLUS_6                4                 21
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  16Q GAIN MUTATED       18     17     22     30     11
  16Q GAIN WILD-TYPE     73     40    164     89     46
D29V9, multiclass
        clus
vv       16Q GAIN MUTATED 16Q GAIN WILD-TYPE
  CLUS_1               18                 73
  CLUS_2               17                 40
  CLUS_3               22                164
  CLUS_4               30                 89
  CLUS_5               11                 46
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  16Q GAIN MUTATED       32     33     33
  16Q GAIN WILD-TYPE    141    176     95
D29V10, multiclass
        clus
vv       16Q GAIN MUTATED 16Q GAIN WILD-TYPE
  CLUS_1               32                141
  CLUS_2               33                176
  CLUS_3               33                 95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  16Q GAIN MUTATED        4      4      9      9
  16Q GAIN WILD-TYPE     35     17     35     29
D29V11, multiclass
        clus
vv       16Q GAIN MUTATED 16Q GAIN WILD-TYPE
  CLUS_1                4                 35
  CLUS_2                4                 17
  CLUS_3                9                 35
  CLUS_4                9                 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
  16Q GAIN MUTATED        5     13      4      4
  16Q GAIN WILD-TYPE     35     39     24     18
D29V12, multiclass
        clus
vv       16Q GAIN MUTATED 16Q GAIN WILD-TYPE
  CLUS_1                5                 35
  CLUS_2               13                 39
  CLUS_3                4                 24
  CLUS_4                4                 18
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(30) Variable = 17P GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  17P GAIN MUTATED        1      0      3
  17P GAIN WILD-TYPE     30     25     11
D30V1, multiclass
        clus
vv       17P GAIN MUTATED 17P GAIN WILD-TYPE
  CLUS_1                1                 30
  CLUS_2                0                 25
  CLUS_3                3                 11
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  17P GAIN MUTATED        0      0      2      0      0      1      1
  17P GAIN WILD-TYPE     11     12      2     11     13      8      9
D30V2, multiclass
        clus
vv       17P GAIN MUTATED 17P GAIN WILD-TYPE
  CLUS_1                0                 11
  CLUS_2                0                 12
  CLUS_3                2                  2
  CLUS_4                0                 11
  CLUS_5                0                 13
  CLUS_6                1                  8
  CLUS_7                1                  9
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  17P GAIN MUTATED        4      5      9      1      4      3
  17P GAIN WILD-TYPE     57     75    147     81     76     66
D30V3, multiclass
        clus
vv       17P GAIN MUTATED 17P GAIN WILD-TYPE
  CLUS_1                4                 57
  CLUS_2                5                 75
  CLUS_3                9                147
  CLUS_4                1                 81
  CLUS_5                4                 76
  CLUS_6                3                 66
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  17P GAIN MUTATED        5      3      5      4
  17P GAIN WILD-TYPE     62     67     91     77
D30V4, multiclass
        clus
vv       17P GAIN MUTATED 17P GAIN WILD-TYPE
  CLUS_1                5                 62
  CLUS_2                3                 67
  CLUS_3                5                 91
  CLUS_4                4                 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 CLUS_5 CLUS_6
  17P GAIN MUTATED        8      1      5      3      2      2
  17P GAIN WILD-TYPE     80     85     85     79     90     31
D30V5, multiclass
        clus
vv       17P GAIN MUTATED 17P GAIN WILD-TYPE
  CLUS_1                8                 80
  CLUS_2                1                 85
  CLUS_3                5                 85
  CLUS_4                3                 79
  CLUS_5                2                 90
  CLUS_6                2                 31
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  17P GAIN MUTATED        2      5      7      7
  17P GAIN WILD-TYPE    133    107     78    132
D30V6, multiclass
        clus
vv       17P GAIN MUTATED 17P GAIN WILD-TYPE
  CLUS_1                2                133
  CLUS_2                5                107
  CLUS_3                7                 78
  CLUS_4                7                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 CLUS_4 CLUS_5
  17P GAIN MUTATED       11      4      1     10      0
  17P GAIN WILD-TYPE     70    166     80    143     40
D30V7, multiclass
        clus
vv       17P GAIN MUTATED 17P GAIN WILD-TYPE
  CLUS_1               11                 70
  CLUS_2                4                166
  CLUS_3                1                 80
  CLUS_4               10                143
  CLUS_5                0                 40
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  17P GAIN MUTATED        2      6      5     10      2      1
  17P GAIN WILD-TYPE    115     27    178    122     33     24
D30V8, multiclass
        clus
vv       17P GAIN MUTATED 17P GAIN WILD-TYPE
  CLUS_1                2                115
  CLUS_2                6                 27
  CLUS_3                5                178
  CLUS_4               10                122
  CLUS_5                2                 33
  CLUS_6                1                 24
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  17P GAIN MUTATED        4      2      5     11      3
  17P GAIN WILD-TYPE     87     55    181    108     54
D30V9, multiclass
        clus
vv       17P GAIN MUTATED 17P GAIN WILD-TYPE
  CLUS_1                4                 87
  CLUS_2                2                 55
  CLUS_3                5                181
  CLUS_4               11                108
  CLUS_5                3                 54
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  17P GAIN MUTATED        8      8      9
  17P GAIN WILD-TYPE    165    201    119
D30V10, multiclass
        clus
vv       17P GAIN MUTATED 17P GAIN WILD-TYPE
  CLUS_1                8                165
  CLUS_2                8                201
  CLUS_3                9                119
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  17P GAIN MUTATED        1      0      0      4
  17P GAIN WILD-TYPE     38     21     44     34
D30V11, multiclass
        clus
vv       17P GAIN MUTATED 17P GAIN WILD-TYPE
  CLUS_1                1                 38
  CLUS_2                0                 21
  CLUS_3                0                 44
  CLUS_4                4                 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
  17P GAIN MUTATED        1      3      1      0
  17P GAIN WILD-TYPE     39     49     27     22
D30V12, multiclass
        clus
vv       17P GAIN MUTATED 17P GAIN WILD-TYPE
  CLUS_1                1                 39
  CLUS_2                3                 49
  CLUS_3                1                 27
  CLUS_4                0                 22
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(31) Variable = 17Q GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  17Q GAIN MUTATED        1      1      3
  17Q GAIN WILD-TYPE     30     24     11
D31V1, multiclass
        clus
vv       17Q GAIN MUTATED 17Q GAIN WILD-TYPE
  CLUS_1                1                 30
  CLUS_2                1                 24
  CLUS_3                3                 11
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  17Q GAIN MUTATED        0      0      2      1      0      1      1
  17Q GAIN WILD-TYPE     11     12      2     10     13      8      9
D31V2, multiclass
        clus
vv       17Q GAIN MUTATED 17Q GAIN WILD-TYPE
  CLUS_1                0                 11
  CLUS_2                0                 12
  CLUS_3                2                  2
  CLUS_4                1                 10
  CLUS_5                0                 13
  CLUS_6                1                  8
  CLUS_7                1                  9
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  17Q GAIN MUTATED        5      6     13      1      5      3
  17Q GAIN WILD-TYPE     56     74    143     81     75     66
D31V3, multiclass
        clus
vv       17Q GAIN MUTATED 17Q GAIN WILD-TYPE
  CLUS_1                5                 56
  CLUS_2                6                 74
  CLUS_3               13                143
  CLUS_4                1                 81
  CLUS_5                5                 75
  CLUS_6                3                 66
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  17Q GAIN MUTATED        5      6      5      4
  17Q GAIN WILD-TYPE     62     64     91     77
D31V4, multiclass
        clus
vv       17Q GAIN MUTATED 17Q GAIN WILD-TYPE
  CLUS_1                5                 62
  CLUS_2                6                 64
  CLUS_3                5                 91
  CLUS_4                4                 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 CLUS_5 CLUS_6
  17Q GAIN MUTATED        8      1      8      4      4      3
  17Q GAIN WILD-TYPE     80     85     82     78     88     30
D31V5, multiclass
        clus
vv       17Q GAIN MUTATED 17Q GAIN WILD-TYPE
  CLUS_1                8                 80
  CLUS_2                1                 85
  CLUS_3                8                 82
  CLUS_4                4                 78
  CLUS_5                4                 88
  CLUS_6                3                 30
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  17Q GAIN MUTATED        5      6      9      8
  17Q GAIN WILD-TYPE    130    106     76    131
D31V6, multiclass
        clus
vv       17Q GAIN MUTATED 17Q GAIN WILD-TYPE
  CLUS_1                5                130
  CLUS_2                6                106
  CLUS_3                9                 76
  CLUS_4                8                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 CLUS_4 CLUS_5
  17Q GAIN MUTATED       13      5      1     14      0
  17Q GAIN WILD-TYPE     68    165     80    139     40
D31V7, multiclass
        clus
vv       17Q GAIN MUTATED 17Q GAIN WILD-TYPE
  CLUS_1               13                 68
  CLUS_2                5                165
  CLUS_3                1                 80
  CLUS_4               14                139
  CLUS_5                0                 40
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  17Q GAIN MUTATED        3      7      6     13      3      1
  17Q GAIN WILD-TYPE    114     26    177    119     32     24
D31V8, multiclass
        clus
vv       17Q GAIN MUTATED 17Q GAIN WILD-TYPE
  CLUS_1                3                114
  CLUS_2                7                 26
  CLUS_3                6                177
  CLUS_4               13                119
  CLUS_5                3                 32
  CLUS_6                1                 24
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  17Q GAIN MUTATED        7      2      6     15      2
  17Q GAIN WILD-TYPE     84     55    180    104     55
D31V9, multiclass
        clus
vv       17Q GAIN MUTATED 17Q GAIN WILD-TYPE
  CLUS_1                7                 84
  CLUS_2                2                 55
  CLUS_3                6                180
  CLUS_4               15                104
  CLUS_5                2                 55
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  17Q GAIN MUTATED       14      9      9
  17Q GAIN WILD-TYPE    159    200    119
D31V10, multiclass
        clus
vv       17Q GAIN MUTATED 17Q GAIN WILD-TYPE
  CLUS_1               14                159
  CLUS_2                9                200
  CLUS_3                9                119
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  17Q GAIN MUTATED        1      0      0      6
  17Q GAIN WILD-TYPE     38     21     44     32
D31V11, multiclass
        clus
vv       17Q GAIN MUTATED 17Q GAIN WILD-TYPE
  CLUS_1                1                 38
  CLUS_2                0                 21
  CLUS_3                0                 44
  CLUS_4                6                 32
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  17Q GAIN MUTATED        2      4      1      0
  17Q GAIN WILD-TYPE     38     48     27     22
D31V12, multiclass
        clus
vv       17Q GAIN MUTATED 17Q GAIN WILD-TYPE
  CLUS_1                2                 38
  CLUS_2                4                 48
  CLUS_3                1                 27
  CLUS_4                0                 22
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(32) Variable = 18P GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  18P GAIN MUTATED        1      3      0
  18P GAIN WILD-TYPE     30     22     14
D32V1, multiclass
        clus
vv       18P GAIN MUTATED 18P GAIN WILD-TYPE
  CLUS_1                1                 30
  CLUS_2                3                 22
  CLUS_3                0                 14
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  18P GAIN MUTATED        0      3      0      0      0      1      0
  18P GAIN WILD-TYPE     11      9      4     11     13      8     10
D32V2, multiclass
        clus
vv       18P GAIN MUTATED 18P GAIN WILD-TYPE
  CLUS_1                0                 11
  CLUS_2                3                  9
  CLUS_3                0                  4
  CLUS_4                0                 11
  CLUS_5                0                 13
  CLUS_6                1                  8
  CLUS_7                0                 10
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  18P GAIN MUTATED        3      3      4      6      5      4
  18P GAIN WILD-TYPE     58     77    152     76     75     65
D32V3, multiclass
        clus
vv       18P GAIN MUTATED 18P GAIN WILD-TYPE
  CLUS_1                3                 58
  CLUS_2                3                 77
  CLUS_3                4                152
  CLUS_4                6                 76
  CLUS_5                5                 75
  CLUS_6                4                 65
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  18P GAIN MUTATED        7      0      3      4
  18P GAIN WILD-TYPE     60     70     93     77
D32V4, multiclass
        clus
vv       18P GAIN MUTATED 18P GAIN WILD-TYPE
  CLUS_1                7                 60
  CLUS_2                0                 70
  CLUS_3                3                 93
  CLUS_4                4                 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 CLUS_5 CLUS_6
  18P GAIN MUTATED        3      6      5      3      4      1
  18P GAIN WILD-TYPE     85     80     85     79     88     32
D32V5, multiclass
        clus
vv       18P GAIN MUTATED 18P GAIN WILD-TYPE
  CLUS_1                3                 85
  CLUS_2                6                 80
  CLUS_3                5                 85
  CLUS_4                3                 79
  CLUS_5                4                 88
  CLUS_6                1                 32
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  18P GAIN MUTATED        5      7      2      8
  18P GAIN WILD-TYPE    130    105     83    131
D32V6, multiclass
        clus
vv       18P GAIN MUTATED 18P GAIN WILD-TYPE
  CLUS_1                5                130
  CLUS_2                7                105
  CLUS_3                2                 83
  CLUS_4                8                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 CLUS_4 CLUS_5
  18P GAIN MUTATED        4      6      8      5      2
  18P GAIN WILD-TYPE     77    164     73    148     38
D32V7, multiclass
        clus
vv       18P GAIN MUTATED 18P GAIN WILD-TYPE
  CLUS_1                4                 77
  CLUS_2                6                164
  CLUS_3                8                 73
  CLUS_4                5                148
  CLUS_5                2                 38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  18P GAIN MUTATED        6      0     10      5      1      3
  18P GAIN WILD-TYPE    111     33    173    127     34     22
D32V8, multiclass
        clus
vv       18P GAIN MUTATED 18P GAIN WILD-TYPE
  CLUS_1                6                111
  CLUS_2                0                 33
  CLUS_3               10                173
  CLUS_4                5                127
  CLUS_5                1                 34
  CLUS_6                3                 22
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  18P GAIN MUTATED        4      1      9      4      6
  18P GAIN WILD-TYPE     87     56    177    115     51
D32V9, multiclass
        clus
vv       18P GAIN MUTATED 18P GAIN WILD-TYPE
  CLUS_1                4                 87
  CLUS_2                1                 56
  CLUS_3                9                177
  CLUS_4                4                115
  CLUS_5                6                 51
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  18P GAIN MUTATED        9     12      3
  18P GAIN WILD-TYPE    164    197    125
D32V10, multiclass
        clus
vv       18P GAIN MUTATED 18P GAIN WILD-TYPE
  CLUS_1                9                164
  CLUS_2               12                197
  CLUS_3                3                125
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  18P GAIN MUTATED        1      1      5      1
  18P GAIN WILD-TYPE     38     20     39     37
D32V11, multiclass
        clus
vv       18P GAIN MUTATED 18P GAIN WILD-TYPE
  CLUS_1                1                 38
  CLUS_2                1                 20
  CLUS_3                5                 39
  CLUS_4                1                 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
  18P GAIN MUTATED        1      1      3      3
  18P GAIN WILD-TYPE     39     51     25     19
D32V12, multiclass
        clus
vv       18P GAIN MUTATED 18P GAIN WILD-TYPE
  CLUS_1                1                 39
  CLUS_2                1                 51
  CLUS_3                3                 25
  CLUS_4                3                 19
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(33) Variable = 18Q GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  18Q GAIN MUTATED        1      3      0
  18Q GAIN WILD-TYPE     30     22     14
D33V1, multiclass
        clus
vv       18Q GAIN MUTATED 18Q GAIN WILD-TYPE
  CLUS_1                1                 30
  CLUS_2                3                 22
  CLUS_3                0                 14
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  18Q GAIN MUTATED        0      3      0      0      0      1      0
  18Q GAIN WILD-TYPE     11      9      4     11     13      8     10
D33V2, multiclass
        clus
vv       18Q GAIN MUTATED 18Q GAIN WILD-TYPE
  CLUS_1                0                 11
  CLUS_2                3                  9
  CLUS_3                0                  4
  CLUS_4                0                 11
  CLUS_5                0                 13
  CLUS_6                1                  8
  CLUS_7                0                 10
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  18Q GAIN MUTATED        3      3      5      6      4      4
  18Q GAIN WILD-TYPE     58     77    151     76     76     65
D33V3, multiclass
        clus
vv       18Q GAIN MUTATED 18Q GAIN WILD-TYPE
  CLUS_1                3                 58
  CLUS_2                3                 77
  CLUS_3                5                151
  CLUS_4                6                 76
  CLUS_5                4                 76
  CLUS_6                4                 65
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  18Q GAIN MUTATED        7      0      4      4
  18Q GAIN WILD-TYPE     60     70     92     77
D33V4, multiclass
        clus
vv       18Q GAIN MUTATED 18Q GAIN WILD-TYPE
  CLUS_1                7                 60
  CLUS_2                0                 70
  CLUS_3                4                 92
  CLUS_4                4                 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 CLUS_5 CLUS_6
  18Q GAIN MUTATED        3      6      6      3      3      1
  18Q GAIN WILD-TYPE     85     80     84     79     89     32
D33V5, multiclass
        clus
vv       18Q GAIN MUTATED 18Q GAIN WILD-TYPE
  CLUS_1                3                 85
  CLUS_2                6                 80
  CLUS_3                6                 84
  CLUS_4                3                 79
  CLUS_5                3                 89
  CLUS_6                1                 32
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  18Q GAIN MUTATED        4      7      3      8
  18Q GAIN WILD-TYPE    131    105     82    131
D33V6, multiclass
        clus
vv       18Q GAIN MUTATED 18Q GAIN WILD-TYPE
  CLUS_1                4                131
  CLUS_2                7                105
  CLUS_3                3                 82
  CLUS_4                8                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 CLUS_4 CLUS_5
  18Q GAIN MUTATED        4      6      7      6      2
  18Q GAIN WILD-TYPE     77    164     74    147     38
D33V7, multiclass
        clus
vv       18Q GAIN MUTATED 18Q GAIN WILD-TYPE
  CLUS_1                4                 77
  CLUS_2                6                164
  CLUS_3                7                 74
  CLUS_4                6                147
  CLUS_5                2                 38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  18Q GAIN MUTATED        6      0     10      5      1      3
  18Q GAIN WILD-TYPE    111     33    173    127     34     22
D33V8, multiclass
        clus
vv       18Q GAIN MUTATED 18Q GAIN WILD-TYPE
  CLUS_1                6                111
  CLUS_2                0                 33
  CLUS_3               10                173
  CLUS_4                5                127
  CLUS_5                1                 34
  CLUS_6                3                 22
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  18Q GAIN MUTATED        4      1      9      5      5
  18Q GAIN WILD-TYPE     87     56    177    114     52
D33V9, multiclass
        clus
vv       18Q GAIN MUTATED 18Q GAIN WILD-TYPE
  CLUS_1                4                 87
  CLUS_2                1                 56
  CLUS_3                9                177
  CLUS_4                5                114
  CLUS_5                5                 52
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  18Q GAIN MUTATED        9     12      3
  18Q GAIN WILD-TYPE    164    197    125
D33V10, multiclass
        clus
vv       18Q GAIN MUTATED 18Q GAIN WILD-TYPE
  CLUS_1                9                164
  CLUS_2               12                197
  CLUS_3                3                125
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  18Q GAIN MUTATED        1      1      5      1
  18Q GAIN WILD-TYPE     38     20     39     37
D33V11, multiclass
        clus
vv       18Q GAIN MUTATED 18Q GAIN WILD-TYPE
  CLUS_1                1                 38
  CLUS_2                1                 20
  CLUS_3                5                 39
  CLUS_4                1                 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
  18Q GAIN MUTATED        1      1      3      3
  18Q GAIN WILD-TYPE     39     51     25     19
D33V12, multiclass
        clus
vv       18Q GAIN MUTATED 18Q GAIN WILD-TYPE
  CLUS_1                1                 39
  CLUS_2                1                 51
  CLUS_3                3                 25
  CLUS_4                3                 19
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(34) Variable = 19P GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  19P GAIN MUTATED        1      3      2
  19P GAIN WILD-TYPE     30     22     12
D34V1, multiclass
        clus
vv       19P GAIN MUTATED 19P GAIN WILD-TYPE
  CLUS_1                1                 30
  CLUS_2                3                 22
  CLUS_3                2                 12
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  19P GAIN MUTATED        0      2      0      1      0      1      2
  19P GAIN WILD-TYPE     11     10      4     10     13      8      8
D34V2, multiclass
        clus
vv       19P GAIN MUTATED 19P GAIN WILD-TYPE
  CLUS_1                0                 11
  CLUS_2                2                 10
  CLUS_3                0                  4
  CLUS_4                1                 10
  CLUS_5                0                 13
  CLUS_6                1                  8
  CLUS_7                2                  8
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  19P GAIN MUTATED        9      9     17      0     10      6
  19P GAIN WILD-TYPE     52     71    139     82     70     63
D34V3, multiclass
        clus
vv       19P GAIN MUTATED 19P GAIN WILD-TYPE
  CLUS_1                9                 52
  CLUS_2                9                 71
  CLUS_3               17                139
  CLUS_4                0                 82
  CLUS_5               10                 70
  CLUS_6                6                 63
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  19P GAIN MUTATED        9      3     19      3
  19P GAIN WILD-TYPE     58     67     77     78
D34V4, multiclass
        clus
vv       19P GAIN MUTATED 19P GAIN WILD-TYPE
  CLUS_1                9                 58
  CLUS_2                3                 67
  CLUS_3               19                 77
  CLUS_4                3                 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 CLUS_5 CLUS_6
  19P GAIN MUTATED       13      3     17      7      6      0
  19P GAIN WILD-TYPE     75     83     73     75     86     33
D34V5, multiclass
        clus
vv       19P GAIN MUTATED 19P GAIN WILD-TYPE
  CLUS_1               13                 75
  CLUS_2                3                 83
  CLUS_3               17                 73
  CLUS_4                7                 75
  CLUS_5                6                 86
  CLUS_6                0                 33
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  19P GAIN MUTATED        6     17     12     11
  19P GAIN WILD-TYPE    129     95     73    128
D34V6, multiclass
        clus
vv       19P GAIN MUTATED 19P GAIN WILD-TYPE
  CLUS_1                6                129
  CLUS_2               17                 95
  CLUS_3               12                 73
  CLUS_4               11                128
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  19P GAIN MUTATED       11      6      9     22      3
  19P GAIN WILD-TYPE     70    164     72    131     37
D34V7, multiclass
        clus
vv       19P GAIN MUTATED 19P GAIN WILD-TYPE
  CLUS_1               11                 70
  CLUS_2                6                164
  CLUS_3                9                 72
  CLUS_4               22                131
  CLUS_5                3                 37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  19P GAIN MUTATED       10      2      8     24      2      5
  19P GAIN WILD-TYPE    107     31    175    108     33     20
D34V8, multiclass
        clus
vv       19P GAIN MUTATED 19P GAIN WILD-TYPE
  CLUS_1               10                107
  CLUS_2                2                 31
  CLUS_3                8                175
  CLUS_4               24                108
  CLUS_5                2                 33
  CLUS_6                5                 20
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  19P GAIN MUTATED        8      7      7     19      9
  19P GAIN WILD-TYPE     83     50    179    100     48
D34V9, multiclass
        clus
vv       19P GAIN MUTATED 19P GAIN WILD-TYPE
  CLUS_1                8                 83
  CLUS_2                7                 50
  CLUS_3                7                179
  CLUS_4               19                100
  CLUS_5                9                 48
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  19P GAIN MUTATED       20     15     15
  19P GAIN WILD-TYPE    153    194    113
D34V10, multiclass
        clus
vv       19P GAIN MUTATED 19P GAIN WILD-TYPE
  CLUS_1               20                153
  CLUS_2               15                194
  CLUS_3               15                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
  19P GAIN MUTATED        2      2      4      3
  19P GAIN WILD-TYPE     37     19     40     35
D34V11, multiclass
        clus
vv       19P GAIN MUTATED 19P GAIN WILD-TYPE
  CLUS_1                2                 37
  CLUS_2                2                 19
  CLUS_3                4                 40
  CLUS_4                3                 35
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  19P GAIN MUTATED        2      6      2      1
  19P GAIN WILD-TYPE     38     46     26     21
D34V12, multiclass
        clus
vv       19P GAIN MUTATED 19P GAIN WILD-TYPE
  CLUS_1                2                 38
  CLUS_2                6                 46
  CLUS_3                2                 26
  CLUS_4                1                 21
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(35) Variable = 19Q GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  19Q GAIN MUTATED        1      3      3
  19Q GAIN WILD-TYPE     30     22     11
D35V1, multiclass
        clus
vv       19Q GAIN MUTATED 19Q GAIN WILD-TYPE
  CLUS_1                1                 30
  CLUS_2                3                 22
  CLUS_3                3                 11
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  19Q GAIN MUTATED        0      2      0      1      0      1      3
  19Q GAIN WILD-TYPE     11     10      4     10     13      8      7
D35V2, multiclass
        clus
vv       19Q GAIN MUTATED 19Q GAIN WILD-TYPE
  CLUS_1                0                 11
  CLUS_2                2                 10
  CLUS_3                0                  4
  CLUS_4                1                 10
  CLUS_5                0                 13
  CLUS_6                1                  8
  CLUS_7                3                  7
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  19Q GAIN MUTATED       10      9     20      2     10      6
  19Q GAIN WILD-TYPE     51     71    136     80     70     63
D35V3, multiclass
        clus
vv       19Q GAIN MUTATED 19Q GAIN WILD-TYPE
  CLUS_1               10                 51
  CLUS_2                9                 71
  CLUS_3               20                136
  CLUS_4                2                 80
  CLUS_5               10                 70
  CLUS_6                6                 63
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  19Q GAIN MUTATED        9      3     22      3
  19Q GAIN WILD-TYPE     58     67     74     78
D35V4, multiclass
        clus
vv       19Q GAIN MUTATED 19Q GAIN WILD-TYPE
  CLUS_1                9                 58
  CLUS_2                3                 67
  CLUS_3               22                 74
  CLUS_4                3                 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 CLUS_5 CLUS_6
  19Q GAIN MUTATED       13      3     23      7      6      0
  19Q GAIN WILD-TYPE     75     83     67     75     86     33
D35V5, multiclass
        clus
vv       19Q GAIN MUTATED 19Q GAIN WILD-TYPE
  CLUS_1               13                 75
  CLUS_2                3                 83
  CLUS_3               23                 67
  CLUS_4                7                 75
  CLUS_5                6                 86
  CLUS_6                0                 33
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  19Q GAIN MUTATED        6     20     15     11
  19Q GAIN WILD-TYPE    129     92     70    128
D35V6, multiclass
        clus
vv       19Q GAIN MUTATED 19Q GAIN WILD-TYPE
  CLUS_1                6                129
  CLUS_2               20                 92
  CLUS_3               15                 70
  CLUS_4               11                128
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  19Q GAIN MUTATED       11      6      9     26      4
  19Q GAIN WILD-TYPE     70    164     72    127     36
D35V7, multiclass
        clus
vv       19Q GAIN MUTATED 19Q GAIN WILD-TYPE
  CLUS_1               11                 70
  CLUS_2                6                164
  CLUS_3                9                 72
  CLUS_4               26                127
  CLUS_5                4                 36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  19Q GAIN MUTATED       11      2      8     28      2      5
  19Q GAIN WILD-TYPE    106     31    175    104     33     20
D35V8, multiclass
        clus
vv       19Q GAIN MUTATED 19Q GAIN WILD-TYPE
  CLUS_1               11                106
  CLUS_2                2                 31
  CLUS_3                8                175
  CLUS_4               28                104
  CLUS_5                2                 33
  CLUS_6                5                 20
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  19Q GAIN MUTATED        8      7      7     24      9
  19Q GAIN WILD-TYPE     83     50    179     95     48
D35V9, multiclass
        clus
vv       19Q GAIN MUTATED 19Q GAIN WILD-TYPE
  CLUS_1                8                 83
  CLUS_2                7                 50
  CLUS_3                7                179
  CLUS_4               24                 95
  CLUS_5                9                 48
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  19Q GAIN MUTATED       24     15     16
  19Q GAIN WILD-TYPE    149    194    112
D35V10, multiclass
        clus
vv       19Q GAIN MUTATED 19Q GAIN WILD-TYPE
  CLUS_1               24                149
  CLUS_2               15                194
  CLUS_3               16                112
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  19Q GAIN MUTATED        2      2      4      5
  19Q GAIN WILD-TYPE     37     19     40     33
D35V11, multiclass
        clus
vv       19Q GAIN MUTATED 19Q GAIN WILD-TYPE
  CLUS_1                2                 37
  CLUS_2                2                 19
  CLUS_3                4                 40
  CLUS_4                5                 33
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  19Q GAIN MUTATED        2      8      2      1
  19Q GAIN WILD-TYPE     38     44     26     21
D35V12, multiclass
        clus
vv       19Q GAIN MUTATED 19Q GAIN WILD-TYPE
  CLUS_1                2                 38
  CLUS_2                8                 44
  CLUS_3                2                 26
  CLUS_4                1                 21
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(36) Variable = 20P GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  20P GAIN MUTATED        3      6      4
  20P GAIN WILD-TYPE     28     19     10
D36V1, multiclass
        clus
vv       20P GAIN MUTATED 20P GAIN WILD-TYPE
  CLUS_1                3                 28
  CLUS_2                6                 19
  CLUS_3                4                 10
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  20P GAIN MUTATED        0      5      1      1      1      2      3
  20P GAIN WILD-TYPE     11      7      3     10     12      7      7
D36V2, multiclass
        clus
vv       20P GAIN MUTATED 20P GAIN WILD-TYPE
  CLUS_1                0                 11
  CLUS_2                5                  7
  CLUS_3                1                  3
  CLUS_4                1                 10
  CLUS_5                1                 12
  CLUS_6                2                  7
  CLUS_7                3                  7
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  20P GAIN MUTATED       16     27     41      3     19      6
  20P GAIN WILD-TYPE     45     53    115     79     61     63
D36V3, multiclass
        clus
vv       20P GAIN MUTATED 20P GAIN WILD-TYPE
  CLUS_1               16                 45
  CLUS_2               27                 53
  CLUS_3               41                115
  CLUS_4                3                 79
  CLUS_5               19                 61
  CLUS_6                6                 63
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  20P GAIN MUTATED       10     16     33      6
  20P GAIN WILD-TYPE     57     54     63     75
D36V4, multiclass
        clus
vv       20P GAIN MUTATED 20P GAIN WILD-TYPE
  CLUS_1               10                 57
  CLUS_2               16                 54
  CLUS_3               33                 63
  CLUS_4                6                 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 CLUS_5 CLUS_6
  20P GAIN MUTATED       19      5     45     11     19      2
  20P GAIN WILD-TYPE     69     81     45     71     73     31
D36V5, multiclass
        clus
vv       20P GAIN MUTATED 20P GAIN WILD-TYPE
  CLUS_1               19                 69
  CLUS_2                5                 81
  CLUS_3               45                 45
  CLUS_4               11                 71
  CLUS_5               19                 73
  CLUS_6                2                 31
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  20P GAIN MUTATED       18     35     34     14
  20P GAIN WILD-TYPE    117     77     51    125
D36V6, multiclass
        clus
vv       20P GAIN MUTATED 20P GAIN WILD-TYPE
  CLUS_1               18                117
  CLUS_2               35                 77
  CLUS_3               34                 51
  CLUS_4               14                125
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  20P GAIN MUTATED       18      9     20     60      5
  20P GAIN WILD-TYPE     63    161     61     93     35
D36V7, multiclass
        clus
vv       20P GAIN MUTATED 20P GAIN WILD-TYPE
  CLUS_1               18                 63
  CLUS_2                9                161
  CLUS_3               20                 61
  CLUS_4               60                 93
  CLUS_5                5                 35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  20P GAIN MUTATED       20      4     13     66      3      6
  20P GAIN WILD-TYPE     97     29    170     66     32     19
D36V8, multiclass
        clus
vv       20P GAIN MUTATED 20P GAIN WILD-TYPE
  CLUS_1               20                 97
  CLUS_2                4                 29
  CLUS_3               13                170
  CLUS_4               66                 66
  CLUS_5                3                 32
  CLUS_6                6                 19
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  20P GAIN MUTATED       18     13     16     48     16
  20P GAIN WILD-TYPE     73     44    170     71     41
D36V9, multiclass
        clus
vv       20P GAIN MUTATED 20P GAIN WILD-TYPE
  CLUS_1               18                 73
  CLUS_2               13                 44
  CLUS_3               16                170
  CLUS_4               48                 71
  CLUS_5               16                 41
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  20P GAIN MUTATED       55     23     33
  20P GAIN WILD-TYPE    118    186     95
D36V10, multiclass
        clus
vv       20P GAIN MUTATED 20P GAIN WILD-TYPE
  CLUS_1               55                118
  CLUS_2               23                186
  CLUS_3               33                 95
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  20P GAIN MUTATED        7      2      3     18
  20P GAIN WILD-TYPE     32     19     41     20
D36V11, multiclass
        clus
vv       20P GAIN MUTATED 20P GAIN WILD-TYPE
  CLUS_1                7                 32
  CLUS_2                2                 19
  CLUS_3                3                 41
  CLUS_4               18                 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
  20P GAIN MUTATED        8     17      4      1
  20P GAIN WILD-TYPE     32     35     24     21
D36V12, multiclass
        clus
vv       20P GAIN MUTATED 20P GAIN WILD-TYPE
  CLUS_1                8                 32
  CLUS_2               17                 35
  CLUS_3                4                 24
  CLUS_4                1                 21
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(37) Variable = 20Q GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  20Q GAIN MUTATED        3      8      4
  20Q GAIN WILD-TYPE     28     17     10
D37V1, multiclass
        clus
vv       20Q GAIN MUTATED 20Q GAIN WILD-TYPE
  CLUS_1                3                 28
  CLUS_2                8                 17
  CLUS_3                4                 10
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  20Q GAIN MUTATED        0      6      1      2      1      2      3
  20Q GAIN WILD-TYPE     11      6      3      9     12      7      7
D37V2, multiclass
        clus
vv       20Q GAIN MUTATED 20Q GAIN WILD-TYPE
  CLUS_1                0                 11
  CLUS_2                6                  6
  CLUS_3                1                  3
  CLUS_4                2                  9
  CLUS_5                1                 12
  CLUS_6                2                  7
  CLUS_7                3                  7
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  20Q GAIN MUTATED       16     26     44      4     19      6
  20Q GAIN WILD-TYPE     45     54    112     78     61     63
D37V3, multiclass
        clus
vv       20Q GAIN MUTATED 20Q GAIN WILD-TYPE
  CLUS_1               16                 45
  CLUS_2               26                 54
  CLUS_3               44                112
  CLUS_4                4                 78
  CLUS_5               19                 61
  CLUS_6                6                 63
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  20Q GAIN MUTATED       10     16     33      6
  20Q GAIN WILD-TYPE     57     54     63     75
D37V4, multiclass
        clus
vv       20Q GAIN MUTATED 20Q GAIN WILD-TYPE
  CLUS_1               10                 57
  CLUS_2               16                 54
  CLUS_3               33                 63
  CLUS_4                6                 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 CLUS_5 CLUS_6
  20Q GAIN MUTATED       19      5     47     12     19      2
  20Q GAIN WILD-TYPE     69     81     43     70     73     31
D37V5, multiclass
        clus
vv       20Q GAIN MUTATED 20Q GAIN WILD-TYPE
  CLUS_1               19                 69
  CLUS_2                5                 81
  CLUS_3               47                 43
  CLUS_4               12                 70
  CLUS_5               19                 73
  CLUS_6                2                 31
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  20Q GAIN MUTATED       18     38     34     14
  20Q GAIN WILD-TYPE    117     74     51    125
D37V6, multiclass
        clus
vv       20Q GAIN MUTATED 20Q GAIN WILD-TYPE
  CLUS_1               18                117
  CLUS_2               38                 74
  CLUS_3               34                 51
  CLUS_4               14                125
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  20Q GAIN MUTATED       18      9     19     64      5
  20Q GAIN WILD-TYPE     63    161     62     89     35
D37V7, multiclass
        clus
vv       20Q GAIN MUTATED 20Q GAIN WILD-TYPE
  CLUS_1               18                 63
  CLUS_2                9                161
  CLUS_3               19                 62
  CLUS_4               64                 89
  CLUS_5                5                 35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  20Q GAIN MUTATED       20      4     13     69      3      6
  20Q GAIN WILD-TYPE     97     29    170     63     32     19
D37V8, multiclass
        clus
vv       20Q GAIN MUTATED 20Q GAIN WILD-TYPE
  CLUS_1               20                 97
  CLUS_2                4                 29
  CLUS_3               13                170
  CLUS_4               69                 63
  CLUS_5                3                 32
  CLUS_6                6                 19
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  20Q GAIN MUTATED       18     13     16     51     16
  20Q GAIN WILD-TYPE     73     44    170     68     41
D37V9, multiclass
        clus
vv       20Q GAIN MUTATED 20Q GAIN WILD-TYPE
  CLUS_1               18                 73
  CLUS_2               13                 44
  CLUS_3               16                170
  CLUS_4               51                 68
  CLUS_5               16                 41
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  20Q GAIN MUTATED       57     23     34
  20Q GAIN WILD-TYPE    116    186     94
D37V10, multiclass
        clus
vv       20Q GAIN MUTATED 20Q GAIN WILD-TYPE
  CLUS_1               57                116
  CLUS_2               23                186
  CLUS_3               34                 94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  20Q GAIN MUTATED        7      2      3     19
  20Q GAIN WILD-TYPE     32     19     41     19
D37V11, multiclass
        clus
vv       20Q GAIN MUTATED 20Q GAIN WILD-TYPE
  CLUS_1                7                 32
  CLUS_2                2                 19
  CLUS_3                3                 41
  CLUS_4               19                 19
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  20Q GAIN MUTATED        8     18      4      1
  20Q GAIN WILD-TYPE     32     34     24     21
D37V12, multiclass
        clus
vv       20Q GAIN MUTATED 20Q GAIN WILD-TYPE
  CLUS_1                8                 32
  CLUS_2               18                 34
  CLUS_3                4                 24
  CLUS_4                1                 21
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(38) Variable = 21Q GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  21Q GAIN MUTATED        2      4      0
  21Q GAIN WILD-TYPE     29     21     14
D38V1, multiclass
        clus
vv       21Q GAIN MUTATED 21Q GAIN WILD-TYPE
  CLUS_1                2                 29
  CLUS_2                4                 21
  CLUS_3                0                 14
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  21Q GAIN MUTATED        0      2      0      2      0      2      0
  21Q GAIN WILD-TYPE     11     10      4      9     13      7     10
D38V2, multiclass
        clus
vv       21Q GAIN MUTATED 21Q GAIN WILD-TYPE
  CLUS_1                0                 11
  CLUS_2                2                 10
  CLUS_3                0                  4
  CLUS_4                2                  9
  CLUS_5                0                 13
  CLUS_6                2                  7
  CLUS_7                0                 10
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  21Q GAIN MUTATED        9      4     21      5      6      5
  21Q GAIN WILD-TYPE     52     76    135     77     74     64
D38V3, multiclass
        clus
vv       21Q GAIN MUTATED 21Q GAIN WILD-TYPE
  CLUS_1                9                 52
  CLUS_2                4                 76
  CLUS_3               21                135
  CLUS_4                5                 77
  CLUS_5                6                 74
  CLUS_6                5                 64
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  21Q GAIN MUTATED        3      6     18      3
  21Q GAIN WILD-TYPE     64     64     78     78
D38V4, multiclass
        clus
vv       21Q GAIN MUTATED 21Q GAIN WILD-TYPE
  CLUS_1                3                 64
  CLUS_2                6                 64
  CLUS_3               18                 78
  CLUS_4                3                 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 CLUS_5 CLUS_6
  21Q GAIN MUTATED        7      4     15      7      9      4
  21Q GAIN WILD-TYPE     81     82     75     75     83     29
D38V5, multiclass
        clus
vv       21Q GAIN MUTATED 21Q GAIN WILD-TYPE
  CLUS_1                7                 81
  CLUS_2                4                 82
  CLUS_3               15                 75
  CLUS_4                7                 75
  CLUS_5                9                 83
  CLUS_6                4                 29
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  21Q GAIN MUTATED        7     17      7     15
  21Q GAIN WILD-TYPE    128     95     78    124
D38V6, multiclass
        clus
vv       21Q GAIN MUTATED 21Q GAIN WILD-TYPE
  CLUS_1                7                128
  CLUS_2               17                 95
  CLUS_3                7                 78
  CLUS_4               15                124
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  21Q GAIN MUTATED        6      8      6     28      2
  21Q GAIN WILD-TYPE     75    162     75    125     38
D38V7, multiclass
        clus
vv       21Q GAIN MUTATED 21Q GAIN WILD-TYPE
  CLUS_1                6                 75
  CLUS_2                8                162
  CLUS_3                6                 75
  CLUS_4               28                125
  CLUS_5                2                 38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  21Q GAIN MUTATED       10      2      9     25      3      1
  21Q GAIN WILD-TYPE    107     31    174    107     32     24
D38V8, multiclass
        clus
vv       21Q GAIN MUTATED 21Q GAIN WILD-TYPE
  CLUS_1               10                107
  CLUS_2                2                 31
  CLUS_3                9                174
  CLUS_4               25                107
  CLUS_5                3                 32
  CLUS_6                1                 24
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  21Q GAIN MUTATED        5      5     11     20      9
  21Q GAIN WILD-TYPE     86     52    175     99     48
D38V9, multiclass
        clus
vv       21Q GAIN MUTATED 21Q GAIN WILD-TYPE
  CLUS_1                5                 86
  CLUS_2                5                 52
  CLUS_3               11                175
  CLUS_4               20                 99
  CLUS_5                9                 48
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  21Q GAIN MUTATED       17     15     18
  21Q GAIN WILD-TYPE    156    194    110
D38V10, multiclass
        clus
vv       21Q GAIN MUTATED 21Q GAIN WILD-TYPE
  CLUS_1               17                156
  CLUS_2               15                194
  CLUS_3               18                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
  21Q GAIN MUTATED        1      0      5      2
  21Q GAIN WILD-TYPE     38     21     39     36
D38V11, multiclass
        clus
vv       21Q GAIN MUTATED 21Q GAIN WILD-TYPE
  CLUS_1                1                 38
  CLUS_2                0                 21
  CLUS_3                5                 39
  CLUS_4                2                 36
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  21Q GAIN MUTATED        1      5      0      2
  21Q GAIN WILD-TYPE     39     47     28     20
D38V12, multiclass
        clus
vv       21Q GAIN MUTATED 21Q GAIN WILD-TYPE
  CLUS_1                1                 39
  CLUS_2                5                 47
  CLUS_3                0                 28
  CLUS_4                2                 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"

Clustering(39) Variable = 22Q GAIN MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  22Q GAIN MUTATED        1      3      1
  22Q GAIN WILD-TYPE     30     22     13
D39V1, multiclass
        clus
vv       22Q GAIN MUTATED 22Q GAIN WILD-TYPE
  CLUS_1                1                 30
  CLUS_2                3                 22
  CLUS_3                1                 13
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  22Q GAIN MUTATED        1      3      0      0      0      0      1
  22Q GAIN WILD-TYPE     10      9      4     11     13      9      9
D39V2, multiclass
        clus
vv       22Q GAIN MUTATED 22Q GAIN WILD-TYPE
  CLUS_1                1                 10
  CLUS_2                3                  9
  CLUS_3                0                  4
  CLUS_4                0                 11
  CLUS_5                0                 13
  CLUS_6                0                  9
  CLUS_7                1                  9
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  22Q GAIN MUTATED        7      8     10      1      7      7
  22Q GAIN WILD-TYPE     54     72    146     81     73     62
D39V3, multiclass
        clus
vv       22Q GAIN MUTATED 22Q GAIN WILD-TYPE
  CLUS_1                7                 54
  CLUS_2                8                 72
  CLUS_3               10                146
  CLUS_4                1                 81
  CLUS_5                7                 73
  CLUS_6                7                 62
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  22Q GAIN MUTATED        7      2      9      5
  22Q GAIN WILD-TYPE     60     68     87     76
D39V4, multiclass
        clus
vv       22Q GAIN MUTATED 22Q GAIN WILD-TYPE
  CLUS_1                7                 60
  CLUS_2                2                 68
  CLUS_3                9                 87
  CLUS_4                5                 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 CLUS_5 CLUS_6
  22Q GAIN MUTATED       10      3      7      7      7      2
  22Q GAIN WILD-TYPE     78     83     83     75     85     31
D39V5, multiclass
        clus
vv       22Q GAIN MUTATED 22Q GAIN WILD-TYPE
  CLUS_1               10                 78
  CLUS_2                3                 83
  CLUS_3                7                 83
  CLUS_4                7                 75
  CLUS_5                7                 85
  CLUS_6                2                 31
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  22Q GAIN MUTATED        7     10     10      9
  22Q GAIN WILD-TYPE    128    102     75    130
D39V6, multiclass
        clus
vv       22Q GAIN MUTATED 22Q GAIN WILD-TYPE
  CLUS_1                7                128
  CLUS_2               10                102
  CLUS_3               10                 75
  CLUS_4                9                130
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  22Q GAIN MUTATED        9      7      9     14      1
  22Q GAIN WILD-TYPE     72    163     72    139     39
D39V7, multiclass
        clus
vv       22Q GAIN MUTATED 22Q GAIN WILD-TYPE
  CLUS_1                9                 72
  CLUS_2                7                163
  CLUS_3                9                 72
  CLUS_4               14                139
  CLUS_5                1                 39
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- 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        5      1     10     17      2      5
  22Q GAIN WILD-TYPE    112     32    173    115     33     20
D39V8, multiclass
        clus
vv       22Q GAIN MUTATED 22Q GAIN WILD-TYPE
  CLUS_1                5                112
  CLUS_2                1                 32
  CLUS_3               10                173
  CLUS_4               17                115
  CLUS_5                2                 33
  CLUS_6                5                 20
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  22Q GAIN MUTATED        8      3      7     17      4
  22Q GAIN WILD-TYPE     83     54    179    102     53
D39V9, multiclass
        clus
vv       22Q GAIN MUTATED 22Q GAIN WILD-TYPE
  CLUS_1                8                 83
  CLUS_2                3                 54
  CLUS_3                7                179
  CLUS_4               17                102
  CLUS_5                4                 53
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  22Q GAIN MUTATED       14     14     11
  22Q GAIN WILD-TYPE    159    195    117
D39V10, multiclass
        clus
vv       22Q GAIN MUTATED 22Q GAIN WILD-TYPE
  CLUS_1               14                159
  CLUS_2               14                195
  CLUS_3               11                117
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  22Q GAIN MUTATED        1      1      1      1
  22Q GAIN WILD-TYPE     38     20     43     37
D39V11, multiclass
        clus
vv       22Q GAIN MUTATED 22Q GAIN WILD-TYPE
  CLUS_1                1                 38
  CLUS_2                1                 20
  CLUS_3                1                 43
  CLUS_4                1                 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
  22Q GAIN MUTATED        1      3      0      0
  22Q GAIN WILD-TYPE     39     49     28     22
D39V12, multiclass
        clus
vv       22Q GAIN MUTATED 22Q GAIN WILD-TYPE
  CLUS_1                1                 39
  CLUS_2                3                 49
  CLUS_3                0                 28
  CLUS_4                0                 22
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(40) Variable = XP GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  XP GAIN MUTATED        2      2      1
  XP GAIN WILD-TYPE     29     23     13
D40V1, multiclass
        clus
vv       XP GAIN MUTATED XP GAIN WILD-TYPE
  CLUS_1               2                29
  CLUS_2               2                23
  CLUS_3               1                13
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  XP GAIN MUTATED        0      2      0      0      2      0      1
  XP GAIN WILD-TYPE     11     10      4     11     11      9      9
D40V2, multiclass
        clus
vv       XP GAIN MUTATED XP GAIN WILD-TYPE
  CLUS_1               0                11
  CLUS_2               2                10
  CLUS_3               0                 4
  CLUS_4               0                11
  CLUS_5               2                11
  CLUS_6               0                 9
  CLUS_7               1                 9
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  XP GAIN MUTATED        9      5     10      1      3      4
  XP GAIN WILD-TYPE     52     75    146     81     77     65
D40V3, multiclass
        clus
vv       XP GAIN MUTATED XP GAIN WILD-TYPE
  CLUS_1               9                52
  CLUS_2               5                75
  CLUS_3              10               146
  CLUS_4               1                81
  CLUS_5               3                77
  CLUS_6               4                65
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  XP GAIN MUTATED        3      4      7      1
  XP GAIN WILD-TYPE     64     66     89     80
D40V4, multiclass
        clus
vv       XP GAIN MUTATED XP GAIN WILD-TYPE
  CLUS_1               3                64
  CLUS_2               4                66
  CLUS_3               7                89
  CLUS_4               1                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 CLUS_5 CLUS_6
  XP GAIN MUTATED       12      0     10      2      3      0
  XP GAIN WILD-TYPE     76     86     80     80     89     33
D40V5, multiclass
        clus
vv       XP GAIN MUTATED XP GAIN WILD-TYPE
  CLUS_1              12                76
  CLUS_2               0                86
  CLUS_3              10                80
  CLUS_4               2                80
  CLUS_5               3                89
  CLUS_6               0                33
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  XP GAIN MUTATED        5      6     13      3
  XP GAIN WILD-TYPE    130    106     72    136
D40V6, multiclass
        clus
vv       XP GAIN MUTATED XP GAIN WILD-TYPE
  CLUS_1               5               130
  CLUS_2               6               106
  CLUS_3              13                72
  CLUS_4               3               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 CLUS_4 CLUS_5
  XP GAIN MUTATED        7      5      3     16      1
  XP GAIN WILD-TYPE     74    165     78    137     39
D40V7, multiclass
        clus
vv       XP GAIN MUTATED XP GAIN WILD-TYPE
  CLUS_1               7                74
  CLUS_2               5               165
  CLUS_3               3                78
  CLUS_4              16               137
  CLUS_5               1                39
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  XP GAIN MUTATED        3      4      6     18      1      0
  XP GAIN WILD-TYPE    114     29    177    114     34     25
D40V8, multiclass
        clus
vv       XP GAIN MUTATED XP GAIN WILD-TYPE
  CLUS_1               3               114
  CLUS_2               4                29
  CLUS_3               6               177
  CLUS_4              18               114
  CLUS_5               1                34
  CLUS_6               0                25
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  XP GAIN MUTATED        6      4      6     14      2
  XP GAIN WILD-TYPE     85     53    180    105     55
D40V9, multiclass
        clus
vv       XP GAIN MUTATED XP GAIN WILD-TYPE
  CLUS_1               6                85
  CLUS_2               4                53
  CLUS_3               6               180
  CLUS_4              14               105
  CLUS_5               2                55
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  XP GAIN MUTATED       16      8      8
  XP GAIN WILD-TYPE    157    201    120
D40V10, multiclass
        clus
vv       XP GAIN MUTATED XP GAIN WILD-TYPE
  CLUS_1              16               157
  CLUS_2               8               201
  CLUS_3               8               120
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  XP GAIN MUTATED        1      2      1      4
  XP GAIN WILD-TYPE     38     19     43     34
D40V11, multiclass
        clus
vv       XP GAIN MUTATED XP GAIN WILD-TYPE
  CLUS_1               1                38
  CLUS_2               2                19
  CLUS_3               1                43
  CLUS_4               4                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 GAIN MUTATED        2      4      1      1
  XP GAIN WILD-TYPE     38     48     27     21
D40V12, multiclass
        clus
vv       XP GAIN MUTATED XP GAIN WILD-TYPE
  CLUS_1               2                38
  CLUS_2               4                48
  CLUS_3               1                27
  CLUS_4               1                21
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(41) Variable = XQ GAIN MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  XQ GAIN MUTATED        3      0      1
  XQ GAIN WILD-TYPE     28     25     13
D41V1, multiclass
        clus
vv       XQ GAIN MUTATED XQ GAIN WILD-TYPE
  CLUS_1               3                28
  CLUS_2               0                25
  CLUS_3               1                13
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  XQ GAIN MUTATED        1      0      0      0      2      0      1
  XQ GAIN WILD-TYPE     10     12      4     11     11      9      9
D41V2, multiclass
        clus
vv       XQ GAIN MUTATED XQ GAIN WILD-TYPE
  CLUS_1               1                10
  CLUS_2               0                12
  CLUS_3               0                 4
  CLUS_4               0                11
  CLUS_5               2                11
  CLUS_6               0                 9
  CLUS_7               1                 9
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  XQ GAIN MUTATED        9      4      6      1      4      7
  XQ GAIN WILD-TYPE     52     76    150     81     76     62
D41V3, multiclass
        clus
vv       XQ GAIN MUTATED XQ GAIN WILD-TYPE
  CLUS_1               9                52
  CLUS_2               4                76
  CLUS_3               6               150
  CLUS_4               1                81
  CLUS_5               4                76
  CLUS_6               7                62
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  XQ GAIN MUTATED        4      4      6      2
  XQ GAIN WILD-TYPE     63     66     90     79
D41V4, multiclass
        clus
vv       XQ GAIN MUTATED XQ GAIN WILD-TYPE
  CLUS_1               4                63
  CLUS_2               4                66
  CLUS_3               6                90
  CLUS_4               2                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 CLUS_5 CLUS_6
  XQ GAIN MUTATED        9      1      9      4      3      0
  XQ GAIN WILD-TYPE     79     85     81     78     89     33
D41V5, multiclass
        clus
vv       XQ GAIN MUTATED XQ GAIN WILD-TYPE
  CLUS_1               9                79
  CLUS_2               1                85
  CLUS_3               9                81
  CLUS_4               4                78
  CLUS_5               3                89
  CLUS_6               0                33
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  XQ GAIN MUTATED        5      6     10      5
  XQ GAIN WILD-TYPE    130    106     75    134
D41V6, multiclass
        clus
vv       XQ GAIN MUTATED XQ GAIN WILD-TYPE
  CLUS_1               5               130
  CLUS_2               6               106
  CLUS_3              10                75
  CLUS_4               5               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 CLUS_4 CLUS_5
  XQ GAIN MUTATED        7      7      2     13      2
  XQ GAIN WILD-TYPE     74    163     79    140     38
D41V7, multiclass
        clus
vv       XQ GAIN MUTATED XQ GAIN WILD-TYPE
  CLUS_1               7                74
  CLUS_2               7               163
  CLUS_3               2                79
  CLUS_4              13               140
  CLUS_5               2                38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  XQ GAIN MUTATED        4      3      8     14      2      0
  XQ GAIN WILD-TYPE    113     30    175    118     33     25
D41V8, multiclass
        clus
vv       XQ GAIN MUTATED XQ GAIN WILD-TYPE
  CLUS_1               4               113
  CLUS_2               3                30
  CLUS_3               8               175
  CLUS_4              14               118
  CLUS_5               2                33
  CLUS_6               0                25
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  XQ GAIN MUTATED        5      5      9     10      2
  XQ GAIN WILD-TYPE     86     52    177    109     55
D41V9, multiclass
        clus
vv       XQ GAIN MUTATED XQ GAIN WILD-TYPE
  CLUS_1               5                86
  CLUS_2               5                52
  CLUS_3               9               177
  CLUS_4              10               109
  CLUS_5               2                55
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  XQ GAIN MUTATED       13     10      8
  XQ GAIN WILD-TYPE    160    199    120
D41V10, multiclass
        clus
vv       XQ GAIN MUTATED XQ GAIN WILD-TYPE
  CLUS_1              13               160
  CLUS_2              10               199
  CLUS_3               8               120
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  XQ GAIN MUTATED        2      1      1      4
  XQ GAIN WILD-TYPE     37     20     43     34
D41V11, multiclass
        clus
vv       XQ GAIN MUTATED XQ GAIN WILD-TYPE
  CLUS_1               2                37
  CLUS_2               1                20
  CLUS_3               1                43
  CLUS_4               4                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
  XQ GAIN MUTATED        3      3      1      1
  XQ GAIN WILD-TYPE     37     49     27     21
D41V12, multiclass
        clus
vv       XQ GAIN MUTATED XQ GAIN WILD-TYPE
  CLUS_1               3                37
  CLUS_2               3                49
  CLUS_3               1                27
  CLUS_4               1                21
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(42) Variable = 1P LOSS MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  1P LOSS MUTATED        2      4      7
  1P LOSS WILD-TYPE     29     21      7
D42V1, multiclass
        clus
vv       1P LOSS MUTATED 1P LOSS WILD-TYPE
  CLUS_1               2                29
  CLUS_2               4                21
  CLUS_3               7                 7
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  1P LOSS MUTATED        0      2      2      1      1      1      6
  1P LOSS WILD-TYPE     11     10      2     10     12      8      4
D42V2, multiclass
        clus
vv       1P LOSS MUTATED 1P LOSS WILD-TYPE
  CLUS_1               0                11
  CLUS_2               2                10
  CLUS_3               2                 2
  CLUS_4               1                10
  CLUS_5               1                12
  CLUS_6               1                 8
  CLUS_7               6                 4
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  1P LOSS MUTATED        2      7     21      4     11     15
  1P LOSS WILD-TYPE     59     73    135     78     69     54
D42V3, multiclass
        clus
vv       1P LOSS MUTATED 1P LOSS WILD-TYPE
  CLUS_1               2                59
  CLUS_2               7                73
  CLUS_3              21               135
  CLUS_4               4                78
  CLUS_5              11                69
  CLUS_6              15                54
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  1P LOSS MUTATED        9      4     11      7
  1P LOSS WILD-TYPE     58     66     85     74
D42V4, multiclass
        clus
vv       1P LOSS MUTATED 1P LOSS WILD-TYPE
  CLUS_1               9                58
  CLUS_2               4                66
  CLUS_3              11                85
  CLUS_4               7                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 CLUS_5 CLUS_6
  1P LOSS MUTATED       19      7      9      9      4      4
  1P LOSS WILD-TYPE     69     79     81     73     88     29
D42V5, multiclass
        clus
vv       1P LOSS MUTATED 1P LOSS WILD-TYPE
  CLUS_1              19                69
  CLUS_2               7                79
  CLUS_3               9                81
  CLUS_4               9                73
  CLUS_5               4                88
  CLUS_6               4                29
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  1P LOSS MUTATED        6     14     15     17
  1P LOSS WILD-TYPE    129     98     70    122
D42V6, multiclass
        clus
vv       1P LOSS MUTATED 1P LOSS WILD-TYPE
  CLUS_1               6               129
  CLUS_2              14                98
  CLUS_3              15                70
  CLUS_4              17               122
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  1P LOSS MUTATED       22     16      2     18      2
  1P LOSS WILD-TYPE     59    154     79    135     38
D42V7, multiclass
        clus
vv       1P LOSS MUTATED 1P LOSS WILD-TYPE
  CLUS_1              22                59
  CLUS_2              16               154
  CLUS_3               2                79
  CLUS_4              18               135
  CLUS_5               2                38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  1P LOSS MUTATED        9      5     15     17      2     12
  1P LOSS WILD-TYPE    108     28    168    115     33     13
D42V8, multiclass
        clus
vv       1P LOSS MUTATED 1P LOSS WILD-TYPE
  CLUS_1               9               108
  CLUS_2               5                28
  CLUS_3              15               168
  CLUS_4              17               115
  CLUS_5               2                33
  CLUS_6              12                13
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  1P LOSS MUTATED       10      5     17     26      2
  1P LOSS WILD-TYPE     81     52    169     93     55
D42V9, multiclass
        clus
vv       1P LOSS MUTATED 1P LOSS WILD-TYPE
  CLUS_1              10                81
  CLUS_2               5                52
  CLUS_3              17               169
  CLUS_4              26                93
  CLUS_5               2                55
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  1P LOSS MUTATED       16     20     24
  1P LOSS WILD-TYPE    157    189    104
D42V10, multiclass
        clus
vv       1P LOSS MUTATED 1P LOSS WILD-TYPE
  CLUS_1              16               157
  CLUS_2              20               189
  CLUS_3              24               104
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  1P LOSS MUTATED        5      0      2      7
  1P LOSS WILD-TYPE     34     21     42     31
D42V11, multiclass
        clus
vv       1P LOSS MUTATED 1P LOSS WILD-TYPE
  CLUS_1               5                34
  CLUS_2               0                21
  CLUS_3               2                42
  CLUS_4               7                31
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  1P LOSS MUTATED        5      5      4      0
  1P LOSS WILD-TYPE     35     47     24     22
D42V12, multiclass
        clus
vv       1P LOSS MUTATED 1P LOSS WILD-TYPE
  CLUS_1               5                35
  CLUS_2               5                47
  CLUS_3               4                24
  CLUS_4               0                22
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(43) Variable = 1Q LOSS MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  1Q LOSS MUTATED        2      2      5
  1Q LOSS WILD-TYPE     29     23      9
D43V1, multiclass
        clus
vv       1Q LOSS MUTATED 1Q LOSS WILD-TYPE
  CLUS_1               2                29
  CLUS_2               2                23
  CLUS_3               5                 9
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  1Q LOSS MUTATED        0      1      1      0      1      1      5
  1Q LOSS WILD-TYPE     11     11      3     11     12      8      5
D43V2, multiclass
        clus
vv       1Q LOSS MUTATED 1Q LOSS WILD-TYPE
  CLUS_1               0                11
  CLUS_2               1                11
  CLUS_3               1                 3
  CLUS_4               0                11
  CLUS_5               1                12
  CLUS_6               1                 8
  CLUS_7               5                 5
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  1Q LOSS MUTATED        1      6      4      3     11     12
  1Q LOSS WILD-TYPE     60     74    152     79     69     57
D43V3, multiclass
        clus
vv       1Q LOSS MUTATED 1Q LOSS WILD-TYPE
  CLUS_1               1                60
  CLUS_2               6                74
  CLUS_3               4               152
  CLUS_4               3                79
  CLUS_5              11                69
  CLUS_6              12                57
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  1Q LOSS MUTATED        9      1      8      2
  1Q LOSS WILD-TYPE     58     69     88     79
D43V4, multiclass
        clus
vv       1Q LOSS MUTATED 1Q LOSS WILD-TYPE
  CLUS_1               9                58
  CLUS_2               1                69
  CLUS_3               8                88
  CLUS_4               2                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 CLUS_5 CLUS_6
  1Q LOSS MUTATED       13      4      8      3      2      2
  1Q LOSS WILD-TYPE     75     82     82     79     90     31
D43V5, multiclass
        clus
vv       1Q LOSS MUTATED 1Q LOSS WILD-TYPE
  CLUS_1              13                75
  CLUS_2               4                82
  CLUS_3               8                82
  CLUS_4               3                79
  CLUS_5               2                90
  CLUS_6               2                31
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  1Q LOSS MUTATED        3     10     12      7
  1Q LOSS WILD-TYPE    132    102     73    132
D43V6, multiclass
        clus
vv       1Q LOSS MUTATED 1Q LOSS WILD-TYPE
  CLUS_1               3               132
  CLUS_2              10               102
  CLUS_3              12                73
  CLUS_4               7               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 CLUS_4 CLUS_5
  1Q LOSS MUTATED       17      8      0     11      1
  1Q LOSS WILD-TYPE     64    162     81    142     39
D43V7, multiclass
        clus
vv       1Q LOSS MUTATED 1Q LOSS WILD-TYPE
  CLUS_1              17                64
  CLUS_2               8               162
  CLUS_3               0                81
  CLUS_4              11               142
  CLUS_5               1                39
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  1Q LOSS MUTATED        5      2      7     10      2     11
  1Q LOSS WILD-TYPE    112     31    176    122     33     14
D43V8, multiclass
        clus
vv       1Q LOSS MUTATED 1Q LOSS WILD-TYPE
  CLUS_1               5               112
  CLUS_2               2                31
  CLUS_3               7               176
  CLUS_4              10               122
  CLUS_5               2                33
  CLUS_6              11                14
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  1Q LOSS MUTATED        6      3      8     17      3
  1Q LOSS WILD-TYPE     85     54    178    102     54
D43V9, multiclass
        clus
vv       1Q LOSS MUTATED 1Q LOSS WILD-TYPE
  CLUS_1               6                85
  CLUS_2               3                54
  CLUS_3               8               178
  CLUS_4              17               102
  CLUS_5               3                54
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  1Q LOSS MUTATED       11      9     17
  1Q LOSS WILD-TYPE    162    200    111
D43V10, multiclass
        clus
vv       1Q LOSS MUTATED 1Q LOSS WILD-TYPE
  CLUS_1              11               162
  CLUS_2               9               200
  CLUS_3              17               111
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  1Q LOSS MUTATED        3      0      2      5
  1Q LOSS WILD-TYPE     36     21     42     33
D43V11, multiclass
        clus
vv       1Q LOSS MUTATED 1Q LOSS WILD-TYPE
  CLUS_1               3                36
  CLUS_2               0                21
  CLUS_3               2                42
  CLUS_4               5                33
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  1Q LOSS MUTATED        3      5      2      0
  1Q LOSS WILD-TYPE     37     47     26     22
D43V12, multiclass
        clus
vv       1Q LOSS MUTATED 1Q LOSS WILD-TYPE
  CLUS_1               3                37
  CLUS_2               5                47
  CLUS_3               2                26
  CLUS_4               0                22
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(44) Variable = 2P LOSS MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  2P LOSS MUTATED        0      1      6
  2P LOSS WILD-TYPE     31     24      8
D44V1, multiclass
        clus
vv       2P LOSS MUTATED 2P LOSS WILD-TYPE
  CLUS_1               0                31
  CLUS_2               1                24
  CLUS_3               6                 8
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  2P LOSS MUTATED        0      1      1      0      0      0      5
  2P LOSS WILD-TYPE     11     11      3     11     13      9      5
D44V2, multiclass
        clus
vv       2P LOSS MUTATED 2P LOSS WILD-TYPE
  CLUS_1               0                11
  CLUS_2               1                11
  CLUS_3               1                 3
  CLUS_4               0                11
  CLUS_5               0                13
  CLUS_6               0                 9
  CLUS_7               5                 5
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  2P LOSS MUTATED        0      3      2      1      2      6
  2P LOSS WILD-TYPE     61     77    154     81     78     63
D44V3, multiclass
        clus
vv       2P LOSS MUTATED 2P LOSS WILD-TYPE
  CLUS_1               0                61
  CLUS_2               3                77
  CLUS_3               2               154
  CLUS_4               1                81
  CLUS_5               2                78
  CLUS_6               6                63
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  2P LOSS MUTATED        4      0      2      0
  2P LOSS WILD-TYPE     63     70     94     81
D44V4, multiclass
        clus
vv       2P LOSS MUTATED 2P LOSS WILD-TYPE
  CLUS_1               4                63
  CLUS_2               0                70
  CLUS_3               2                94
  CLUS_4               0                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 CLUS_5 CLUS_6
  2P LOSS MUTATED        7      0      2      0      0      0
  2P LOSS WILD-TYPE     81     86     88     82     92     33
D44V5, multiclass
        clus
vv       2P LOSS MUTATED 2P LOSS WILD-TYPE
  CLUS_1               7                81
  CLUS_2               0                86
  CLUS_3               2                88
  CLUS_4               0                82
  CLUS_5               0                92
  CLUS_6               0                33
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  2P LOSS MUTATED        0      1      7      1
  2P LOSS WILD-TYPE    135    111     78    138
D44V6, multiclass
        clus
vv       2P LOSS MUTATED 2P LOSS WILD-TYPE
  CLUS_1               0               135
  CLUS_2               1               111
  CLUS_3               7                78
  CLUS_4               1               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 CLUS_4 CLUS_5
  2P LOSS MUTATED       12      0      0      2      0
  2P LOSS WILD-TYPE     69    170     81    151     40
D44V7, multiclass
        clus
vv       2P LOSS MUTATED 2P LOSS WILD-TYPE
  CLUS_1              12                69
  CLUS_2               0               170
  CLUS_3               0                81
  CLUS_4               2               151
  CLUS_5               0                40
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  2P LOSS MUTATED        0      2      1      2      0      9
  2P LOSS WILD-TYPE    117     31    182    130     35     16
D44V8, multiclass
        clus
vv       2P LOSS MUTATED 2P LOSS WILD-TYPE
  CLUS_1               0               117
  CLUS_2               2                31
  CLUS_3               1               182
  CLUS_4               2               130
  CLUS_5               0                35
  CLUS_6               9                16
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  2P LOSS MUTATED        2      1      0     11      0
  2P LOSS WILD-TYPE     89     56    186    108     57
D44V9, multiclass
        clus
vv       2P LOSS MUTATED 2P LOSS WILD-TYPE
  CLUS_1               2                89
  CLUS_2               1                56
  CLUS_3               0               186
  CLUS_4              11               108
  CLUS_5               0                57
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  2P LOSS MUTATED        1      1     12
  2P LOSS WILD-TYPE    172    208    116
D44V10, multiclass
        clus
vv       2P LOSS MUTATED 2P LOSS WILD-TYPE
  CLUS_1               1               172
  CLUS_2               1               208
  CLUS_3              12               116
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  2P LOSS MUTATED        3      0      0      1
  2P LOSS WILD-TYPE     36     21     44     37
D44V11, multiclass
        clus
vv       2P LOSS MUTATED 2P LOSS WILD-TYPE
  CLUS_1               3                36
  CLUS_2               0                21
  CLUS_3               0                44
  CLUS_4               1                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
  2P LOSS MUTATED        3      1      0      0
  2P LOSS WILD-TYPE     37     51     28     22
D44V12, multiclass
        clus
vv       2P LOSS MUTATED 2P LOSS WILD-TYPE
  CLUS_1               3                37
  CLUS_2               1                51
  CLUS_3               0                28
  CLUS_4               0                22
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(45) Variable = 2Q LOSS MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  2Q LOSS MUTATED        0      1      5
  2Q LOSS WILD-TYPE     31     24      9
D45V1, multiclass
        clus
vv       2Q LOSS MUTATED 2Q LOSS WILD-TYPE
  CLUS_1               0                31
  CLUS_2               1                24
  CLUS_3               5                 9
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  2Q LOSS MUTATED        0      1      0      0      0      0      5
  2Q LOSS WILD-TYPE     11     11      4     11     13      9      5
D45V2, multiclass
        clus
vv       2Q LOSS MUTATED 2Q LOSS WILD-TYPE
  CLUS_1               0                11
  CLUS_2               1                11
  CLUS_3               0                 4
  CLUS_4               0                11
  CLUS_5               0                13
  CLUS_6               0                 9
  CLUS_7               5                 5
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  2Q LOSS MUTATED        0      2      2      1      2      7
  2Q LOSS WILD-TYPE     61     78    154     81     78     62
D45V3, multiclass
        clus
vv       2Q LOSS MUTATED 2Q LOSS WILD-TYPE
  CLUS_1               0                61
  CLUS_2               2                78
  CLUS_3               2               154
  CLUS_4               1                81
  CLUS_5               2                78
  CLUS_6               7                62
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  2Q LOSS MUTATED        4      0      3      0
  2Q LOSS WILD-TYPE     63     70     93     81
D45V4, multiclass
        clus
vv       2Q LOSS MUTATED 2Q LOSS WILD-TYPE
  CLUS_1               4                63
  CLUS_2               0                70
  CLUS_3               3                93
  CLUS_4               0                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 CLUS_5 CLUS_6
  2Q LOSS MUTATED        6      0      3      0      0      0
  2Q LOSS WILD-TYPE     82     86     87     82     92     33
D45V5, multiclass
        clus
vv       2Q LOSS MUTATED 2Q LOSS WILD-TYPE
  CLUS_1               6                82
  CLUS_2               0                86
  CLUS_3               3                87
  CLUS_4               0                82
  CLUS_5               0                92
  CLUS_6               0                33
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  2Q LOSS MUTATED        0      1      7      1
  2Q LOSS WILD-TYPE    135    111     78    138
D45V6, multiclass
        clus
vv       2Q LOSS MUTATED 2Q LOSS WILD-TYPE
  CLUS_1               0               135
  CLUS_2               1               111
  CLUS_3               7                78
  CLUS_4               1               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 CLUS_4 CLUS_5
  2Q LOSS MUTATED       12      0      0      2      0
  2Q LOSS WILD-TYPE     69    170     81    151     40
D45V7, multiclass
        clus
vv       2Q LOSS MUTATED 2Q LOSS WILD-TYPE
  CLUS_1              12                69
  CLUS_2               0               170
  CLUS_3               0                81
  CLUS_4               2               151
  CLUS_5               0                40
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- 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      1      3      0      9
  2Q LOSS WILD-TYPE    117     32    182    129     35     16
D45V8, multiclass
        clus
vv       2Q LOSS MUTATED 2Q LOSS WILD-TYPE
  CLUS_1               0               117
  CLUS_2               1                32
  CLUS_3               1               182
  CLUS_4               3               129
  CLUS_5               0                35
  CLUS_6               9                16
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  2Q LOSS MUTATED        1      1      0     11      1
  2Q LOSS WILD-TYPE     90     56    186    108     56
D45V9, multiclass
        clus
vv       2Q LOSS MUTATED 2Q LOSS WILD-TYPE
  CLUS_1               1                90
  CLUS_2               1                56
  CLUS_3               0               186
  CLUS_4              11               108
  CLUS_5               1                56
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  2Q LOSS MUTATED        1      0     13
  2Q LOSS WILD-TYPE    172    209    115
D45V10, multiclass
        clus
vv       2Q LOSS MUTATED 2Q LOSS WILD-TYPE
  CLUS_1               1               172
  CLUS_2               0               209
  CLUS_3              13               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
  2Q LOSS MUTATED        3      0      0      1
  2Q LOSS WILD-TYPE     36     21     44     37
D45V11, multiclass
        clus
vv       2Q LOSS MUTATED 2Q LOSS WILD-TYPE
  CLUS_1               3                36
  CLUS_2               0                21
  CLUS_3               0                44
  CLUS_4               1                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
  2Q LOSS MUTATED        3      1      0      0
  2Q LOSS WILD-TYPE     37     51     28     22
D45V12, multiclass
        clus
vv       2Q LOSS MUTATED 2Q LOSS WILD-TYPE
  CLUS_1               3                37
  CLUS_2               1                51
  CLUS_3               0                28
  CLUS_4               0                22
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(46) Variable = 3P LOSS MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  3P LOSS MUTATED       20     20      4
  3P LOSS WILD-TYPE     11      5     10
D46V1, multiclass
        clus
vv       3P LOSS MUTATED 3P LOSS WILD-TYPE
  CLUS_1              20                11
  CLUS_2              20                 5
  CLUS_3               4                10
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  3P LOSS MUTATED        8      9      1     10      7      7      2
  3P LOSS WILD-TYPE      3      3      3      1      6      2      8
D46V2, multiclass
        clus
vv       3P LOSS MUTATED 3P LOSS WILD-TYPE
  CLUS_1               8                 3
  CLUS_2               9                 3
  CLUS_3               1                 3
  CLUS_4              10                 1
  CLUS_5               7                 6
  CLUS_6               7                 2
  CLUS_7               2                 8
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  3P LOSS MUTATED       50     33    137     69     38     52
  3P LOSS WILD-TYPE     11     47     19     13     42     17
D46V3, multiclass
        clus
vv       3P LOSS MUTATED 3P LOSS WILD-TYPE
  CLUS_1              50                11
  CLUS_2              33                47
  CLUS_3             137                19
  CLUS_4              69                13
  CLUS_5              38                42
  CLUS_6              52                17
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  3P LOSS MUTATED       41     50     72     69
  3P LOSS WILD-TYPE     26     20     24     12
D46V4, multiclass
        clus
vv       3P LOSS MUTATED 3P LOSS WILD-TYPE
  CLUS_1              41                26
  CLUS_2              50                20
  CLUS_3              72                24
  CLUS_4              69                12
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  3P LOSS MUTATED       52     70     63     65     62     26
  3P LOSS WILD-TYPE     36     16     27     17     30      7
D46V5, multiclass
        clus
vv       3P LOSS MUTATED 3P LOSS WILD-TYPE
  CLUS_1              52                36
  CLUS_2              70                16
  CLUS_3              63                27
  CLUS_4              65                17
  CLUS_5              62                30
  CLUS_6              26                 7
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  3P LOSS MUTATED       95     90     45    108
  3P LOSS WILD-TYPE     40     22     40     31
D46V6, multiclass
        clus
vv       3P LOSS MUTATED 3P LOSS WILD-TYPE
  CLUS_1              95                40
  CLUS_2              90                22
  CLUS_3              45                40
  CLUS_4             108                31
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  3P LOSS MUTATED       31    141     61    115     29
  3P LOSS WILD-TYPE     50     29     20     38     11
D46V7, multiclass
        clus
vv       3P LOSS MUTATED 3P LOSS WILD-TYPE
  CLUS_1              31                50
  CLUS_2             141                29
  CLUS_3              61                20
  CLUS_4             115                38
  CLUS_5              29                11
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  3P LOSS MUTATED       92     14    148     96     25      2
  3P LOSS WILD-TYPE     25     19     35     36     10     23
D46V8, multiclass
        clus
vv       3P LOSS MUTATED 3P LOSS WILD-TYPE
  CLUS_1              92                25
  CLUS_2              14                19
  CLUS_3             148                35
  CLUS_4              96                36
  CLUS_5              25                10
  CLUS_6               2                23
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  3P LOSS MUTATED       58     42    146     75     44
  3P LOSS WILD-TYPE     33     15     40     44     13
D46V9, multiclass
        clus
vv       3P LOSS MUTATED 3P LOSS WILD-TYPE
  CLUS_1              58                33
  CLUS_2              42                15
  CLUS_3             146                40
  CLUS_4              75                44
  CLUS_5              44                13
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  3P LOSS MUTATED      114    166     85
  3P LOSS WILD-TYPE     59     43     43
D46V10, multiclass
        clus
vv       3P LOSS MUTATED 3P LOSS WILD-TYPE
  CLUS_1             114                59
  CLUS_2             166                43
  CLUS_3              85                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
  3P LOSS MUTATED       26     10     36     22
  3P LOSS WILD-TYPE     13     11      8     16
D46V11, multiclass
        clus
vv       3P LOSS MUTATED 3P LOSS WILD-TYPE
  CLUS_1              26                13
  CLUS_2              10                11
  CLUS_3              36                 8
  CLUS_4              22                16
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  3P LOSS MUTATED       26     32     20     16
  3P LOSS WILD-TYPE     14     20      8      6
D46V12, multiclass
        clus
vv       3P LOSS MUTATED 3P LOSS WILD-TYPE
  CLUS_1              26                14
  CLUS_2              32                20
  CLUS_3              20                 8
  CLUS_4              16                 6
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(47) Variable = 3Q LOSS MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  3Q LOSS MUTATED        7      4      3
  3Q LOSS WILD-TYPE     24     21     11
D47V1, multiclass
        clus
vv       3Q LOSS MUTATED 3Q LOSS WILD-TYPE
  CLUS_1               7                24
  CLUS_2               4                21
  CLUS_3               3                11
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  3Q LOSS MUTATED        2      2      1      2      1      5      1
  3Q LOSS WILD-TYPE      9     10      3      9     12      4      9
D47V2, multiclass
        clus
vv       3Q LOSS MUTATED 3Q LOSS WILD-TYPE
  CLUS_1               2                 9
  CLUS_2               2                10
  CLUS_3               1                 3
  CLUS_4               2                 9
  CLUS_5               1                12
  CLUS_6               5                 4
  CLUS_7               1                 9
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  3Q LOSS MUTATED       16     14     34     24      3     11
  3Q LOSS WILD-TYPE     45     66    122     58     77     58
D47V3, multiclass
        clus
vv       3Q LOSS MUTATED 3Q LOSS WILD-TYPE
  CLUS_1              16                45
  CLUS_2              14                66
  CLUS_3              34               122
  CLUS_4              24                58
  CLUS_5               3                77
  CLUS_6              11                58
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  3Q LOSS MUTATED        8     14     22     16
  3Q LOSS WILD-TYPE     59     56     74     65
D47V4, multiclass
        clus
vv       3Q LOSS MUTATED 3Q LOSS WILD-TYPE
  CLUS_1               8                59
  CLUS_2              14                56
  CLUS_3              22                74
  CLUS_4              16                65
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  3Q LOSS MUTATED       17     11     15     23     19      8
  3Q LOSS WILD-TYPE     71     75     75     59     73     25
D47V5, multiclass
        clus
vv       3Q LOSS MUTATED 3Q LOSS WILD-TYPE
  CLUS_1              17                71
  CLUS_2              11                75
  CLUS_3              15                75
  CLUS_4              23                59
  CLUS_5              19                73
  CLUS_6               8                25
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  3Q LOSS MUTATED       25     30     10     28
  3Q LOSS WILD-TYPE    110     82     75    111
D47V6, multiclass
        clus
vv       3Q LOSS MUTATED 3Q LOSS WILD-TYPE
  CLUS_1              25               110
  CLUS_2              30                82
  CLUS_3              10                75
  CLUS_4              28               111
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  3Q LOSS MUTATED       12     26     22     36      6
  3Q LOSS WILD-TYPE     69    144     59    117     34
D47V7, multiclass
        clus
vv       3Q LOSS MUTATED 3Q LOSS WILD-TYPE
  CLUS_1              12                69
  CLUS_2              26               144
  CLUS_3              22                59
  CLUS_4              36               117
  CLUS_5               6                34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  3Q LOSS MUTATED       35      5     28     29      4      1
  3Q LOSS WILD-TYPE     82     28    155    103     31     24
D47V8, multiclass
        clus
vv       3Q LOSS MUTATED 3Q LOSS WILD-TYPE
  CLUS_1              35                82
  CLUS_2               5                28
  CLUS_3              28               155
  CLUS_4              29               103
  CLUS_5               4                31
  CLUS_6               1                24
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  3Q LOSS MUTATED       14      9     30     25     21
  3Q LOSS WILD-TYPE     77     48    156     94     36
D47V9, multiclass
        clus
vv       3Q LOSS MUTATED 3Q LOSS WILD-TYPE
  CLUS_1              14                77
  CLUS_2               9                48
  CLUS_3              30               156
  CLUS_4              25                94
  CLUS_5              21                36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  3Q LOSS MUTATED       32     42     25
  3Q LOSS WILD-TYPE    141    167    103
D47V10, multiclass
        clus
vv       3Q LOSS MUTATED 3Q LOSS WILD-TYPE
  CLUS_1              32               141
  CLUS_2              42               167
  CLUS_3              25               103
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  3Q LOSS MUTATED        5      4      6      5
  3Q LOSS WILD-TYPE     34     17     38     33
D47V11, multiclass
        clus
vv       3Q LOSS MUTATED 3Q LOSS WILD-TYPE
  CLUS_1               5                34
  CLUS_2               4                17
  CLUS_3               6                38
  CLUS_4               5                33
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  3Q LOSS MUTATED        4      8      7      1
  3Q LOSS WILD-TYPE     36     44     21     21
D47V12, multiclass
        clus
vv       3Q LOSS MUTATED 3Q LOSS WILD-TYPE
  CLUS_1               4                36
  CLUS_2               8                44
  CLUS_3               7                21
  CLUS_4               1                21
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(48) Variable = 4P LOSS MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  4P LOSS MUTATED        5      3      0
  4P LOSS WILD-TYPE     26     22     14
D48V1, multiclass
        clus
vv       4P LOSS MUTATED 4P LOSS WILD-TYPE
  CLUS_1               5                26
  CLUS_2               3                22
  CLUS_3               0                14
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  4P LOSS MUTATED        1      2      0      1      3      1      0
  4P LOSS WILD-TYPE     10     10      4     10     10      8     10
D48V2, multiclass
        clus
vv       4P LOSS MUTATED 4P LOSS WILD-TYPE
  CLUS_1               1                10
  CLUS_2               2                10
  CLUS_3               0                 4
  CLUS_4               1                10
  CLUS_5               3                10
  CLUS_6               1                 8
  CLUS_7               0                10
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  4P LOSS MUTATED        8     10     27      9     13      5
  4P LOSS WILD-TYPE     53     70    129     73     67     64
D48V3, multiclass
        clus
vv       4P LOSS MUTATED 4P LOSS WILD-TYPE
  CLUS_1               8                53
  CLUS_2              10                70
  CLUS_3              27               129
  CLUS_4               9                73
  CLUS_5              13                67
  CLUS_6               5                64
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  4P LOSS MUTATED        4     11     25     10
  4P LOSS WILD-TYPE     63     59     71     71
D48V4, multiclass
        clus
vv       4P LOSS MUTATED 4P LOSS WILD-TYPE
  CLUS_1               4                63
  CLUS_2              11                59
  CLUS_3              25                71
  CLUS_4              10                71
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  4P LOSS MUTATED        6     11     26     10     15      1
  4P LOSS WILD-TYPE     82     75     64     72     77     32
D48V5, multiclass
        clus
vv       4P LOSS MUTATED 4P LOSS WILD-TYPE
  CLUS_1               6                82
  CLUS_2              11                75
  CLUS_3              26                64
  CLUS_4              10                72
  CLUS_5              15                77
  CLUS_6               1                32
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  4P LOSS MUTATED       16     23     16     14
  4P LOSS WILD-TYPE    119     89     69    125
D48V6, multiclass
        clus
vv       4P LOSS MUTATED 4P LOSS WILD-TYPE
  CLUS_1              16               119
  CLUS_2              23                89
  CLUS_3              16                69
  CLUS_4              14               125
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  4P LOSS MUTATED        6     17     12     28      8
  4P LOSS WILD-TYPE     75    153     69    125     32
D48V7, multiclass
        clus
vv       4P LOSS MUTATED 4P LOSS WILD-TYPE
  CLUS_1               6                75
  CLUS_2              17               153
  CLUS_3              12                69
  CLUS_4              28               125
  CLUS_5               8                32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  4P LOSS MUTATED       16      1     19     31      4      0
  4P LOSS WILD-TYPE    101     32    164    101     31     25
D48V8, multiclass
        clus
vv       4P LOSS MUTATED 4P LOSS WILD-TYPE
  CLUS_1              16               101
  CLUS_2               1                32
  CLUS_3              19               164
  CLUS_4              31               101
  CLUS_5               4                31
  CLUS_6               0                25
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  4P LOSS MUTATED       12      5     21     22     10
  4P LOSS WILD-TYPE     79     52    165     97     47
D48V9, multiclass
        clus
vv       4P LOSS MUTATED 4P LOSS WILD-TYPE
  CLUS_1              12                79
  CLUS_2               5                52
  CLUS_3              21               165
  CLUS_4              22                97
  CLUS_5              10                47
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  4P LOSS MUTATED       31     27     12
  4P LOSS WILD-TYPE    142    182    116
D48V10, multiclass
        clus
vv       4P LOSS MUTATED 4P LOSS WILD-TYPE
  CLUS_1              31               142
  CLUS_2              27               182
  CLUS_3              12               116
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  4P LOSS MUTATED        1      2      8      7
  4P LOSS WILD-TYPE     38     19     36     31
D48V11, multiclass
        clus
vv       4P LOSS MUTATED 4P LOSS WILD-TYPE
  CLUS_1               1                38
  CLUS_2               2                19
  CLUS_3               8                36
  CLUS_4               7                31
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  4P LOSS MUTATED        2     12      3      1
  4P LOSS WILD-TYPE     38     40     25     21
D48V12, multiclass
        clus
vv       4P LOSS MUTATED 4P LOSS WILD-TYPE
  CLUS_1               2                38
  CLUS_2              12                40
  CLUS_3               3                25
  CLUS_4               1                21
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(49) Variable = 4Q LOSS MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  4Q LOSS MUTATED        4      4      0
  4Q LOSS WILD-TYPE     27     21     14
D49V1, multiclass
        clus
vv       4Q LOSS MUTATED 4Q LOSS WILD-TYPE
  CLUS_1               4                27
  CLUS_2               4                21
  CLUS_3               0                14
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  4Q LOSS MUTATED        1      3      0      1      2      1      0
  4Q LOSS WILD-TYPE     10      9      4     10     11      8     10
D49V2, multiclass
        clus
vv       4Q LOSS MUTATED 4Q LOSS WILD-TYPE
  CLUS_1               1                10
  CLUS_2               3                 9
  CLUS_3               0                 4
  CLUS_4               1                10
  CLUS_5               2                11
  CLUS_6               1                 8
  CLUS_7               0                10
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  4Q LOSS MUTATED        8     10     25      8     11      3
  4Q LOSS WILD-TYPE     53     70    131     74     69     66
D49V3, multiclass
        clus
vv       4Q LOSS MUTATED 4Q LOSS WILD-TYPE
  CLUS_1               8                53
  CLUS_2              10                70
  CLUS_3              25               131
  CLUS_4               8                74
  CLUS_5              11                69
  CLUS_6               3                66
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  4Q LOSS MUTATED        4      9     24      8
  4Q LOSS WILD-TYPE     63     61     72     73
D49V4, multiclass
        clus
vv       4Q LOSS MUTATED 4Q LOSS WILD-TYPE
  CLUS_1               4                63
  CLUS_2               9                61
  CLUS_3              24                72
  CLUS_4               8                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 CLUS_5 CLUS_6
  4Q LOSS MUTATED        7      8     26      9     12      1
  4Q LOSS WILD-TYPE     81     78     64     73     80     32
D49V5, multiclass
        clus
vv       4Q LOSS MUTATED 4Q LOSS WILD-TYPE
  CLUS_1               7                81
  CLUS_2               8                78
  CLUS_3              26                64
  CLUS_4               9                73
  CLUS_5              12                80
  CLUS_6               1                32
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  4Q LOSS MUTATED       12     21     17     13
  4Q LOSS WILD-TYPE    123     91     68    126
D49V6, multiclass
        clus
vv       4Q LOSS MUTATED 4Q LOSS WILD-TYPE
  CLUS_1              12               123
  CLUS_2              21                91
  CLUS_3              17                68
  CLUS_4              13               126
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  4Q LOSS MUTATED        4     13     13     28      7
  4Q LOSS WILD-TYPE     77    157     68    125     33
D49V7, multiclass
        clus
vv       4Q LOSS MUTATED 4Q LOSS WILD-TYPE
  CLUS_1               4                77
  CLUS_2              13               157
  CLUS_3              13                68
  CLUS_4              28               125
  CLUS_5               7                33
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  4Q LOSS MUTATED       15      0     14     32      4      0
  4Q LOSS WILD-TYPE    102     33    169    100     31     25
D49V8, multiclass
        clus
vv       4Q LOSS MUTATED 4Q LOSS WILD-TYPE
  CLUS_1              15               102
  CLUS_2               0                33
  CLUS_3              14               169
  CLUS_4              32               100
  CLUS_5               4                31
  CLUS_6               0                25
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  4Q LOSS MUTATED       11      6     17     20     10
  4Q LOSS WILD-TYPE     80     51    169     99     47
D49V9, multiclass
        clus
vv       4Q LOSS MUTATED 4Q LOSS WILD-TYPE
  CLUS_1              11                80
  CLUS_2               6                51
  CLUS_3              17               169
  CLUS_4              20                99
  CLUS_5              10                47
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  4Q LOSS MUTATED       30     22     12
  4Q LOSS WILD-TYPE    143    187    116
D49V10, multiclass
        clus
vv       4Q LOSS MUTATED 4Q LOSS WILD-TYPE
  CLUS_1              30               143
  CLUS_2              22               187
  CLUS_3              12               116
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  4Q LOSS MUTATED        2      2      6      6
  4Q LOSS WILD-TYPE     37     19     38     32
D49V11, multiclass
        clus
vv       4Q LOSS MUTATED 4Q LOSS WILD-TYPE
  CLUS_1               2                37
  CLUS_2               2                19
  CLUS_3               6                38
  CLUS_4               6                32
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  4Q LOSS MUTATED        2     11      3      0
  4Q LOSS WILD-TYPE     38     41     25     22
D49V12, multiclass
        clus
vv       4Q LOSS MUTATED 4Q LOSS WILD-TYPE
  CLUS_1               2                38
  CLUS_2              11                41
  CLUS_3               3                25
  CLUS_4               0                22
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(50) Variable = 5P LOSS MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  5P LOSS MUTATED        0      1      0
  5P LOSS WILD-TYPE     31     24     14
D50V1, multiclass
[1] "Remove cluster labels:" "5P LOSS MUTATED"       
clus
  5P LOSS MUTATED 5P LOSS WILD-TYPE 
                1                69 
       TCGA-A3-3306        TCGA-A3-3307        TCGA-A3-3308        TCGA-A3-3311 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-A3-3313        TCGA-A3-3316        TCGA-A3-3317        TCGA-A3-3319 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-A3-3320        TCGA-A3-3322        TCGA-A3-3323        TCGA-A3-3324 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-A3-3325        TCGA-A3-3326        TCGA-A3-3331        TCGA-A3-3335 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-A3-3336        TCGA-A3-3343        TCGA-A3-3346        TCGA-A3-3347 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-A3-3349        TCGA-A3-3351        TCGA-A3-3352        TCGA-A3-3359 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-A3-3362        TCGA-A3-3363        TCGA-A3-3365        TCGA-A3-3372 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-A3-3374        TCGA-A3-3378        TCGA-A3-3380        TCGA-A3-3382 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-A3-3383        TCGA-AK-3426        TCGA-AK-3427        TCGA-AK-3440 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-AK-3443        TCGA-AK-3444        TCGA-AK-3447        TCGA-AK-3453 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-AK-3455        TCGA-AK-3456        TCGA-AK-3465        TCGA-AS-3777 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-AS-3778        TCGA-B2-3923        TCGA-B2-3924        TCGA-B2-4098 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-B2-4099        TCGA-B2-4102        TCGA-B8-4148        TCGA-B8-4151 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-B8-4154        TCGA-B8-4619        TCGA-B8-4620        TCGA-BP-4161 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-BP-4162        TCGA-BP-4163        TCGA-BP-4164        TCGA-BP-4167 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-CJ-4634        TCGA-CJ-4636        TCGA-CJ-4637        TCGA-CJ-4638 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-CJ-4639        TCGA-CJ-4640        TCGA-CJ-4641        TCGA-CJ-4643 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-CJ-4644 
"5P LOSS WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  5P LOSS MUTATED        0      0      0      1      0      0      0
  5P LOSS WILD-TYPE     11     12      4     10     13      9     10
D50V2, multiclass
[1] "Remove cluster labels:" "5P LOSS MUTATED"       
clus
  5P LOSS MUTATED 5P LOSS WILD-TYPE 
                1                69 
       TCGA-A3-3306        TCGA-A3-3307        TCGA-A3-3308        TCGA-A3-3311 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-A3-3313        TCGA-A3-3316        TCGA-A3-3317        TCGA-A3-3319 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-A3-3320        TCGA-A3-3322        TCGA-A3-3323        TCGA-A3-3324 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-A3-3325        TCGA-A3-3326        TCGA-A3-3331        TCGA-A3-3335 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-A3-3336        TCGA-A3-3343        TCGA-A3-3346        TCGA-A3-3347 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-A3-3349        TCGA-A3-3351        TCGA-A3-3352        TCGA-A3-3359 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-A3-3362        TCGA-A3-3363        TCGA-A3-3365        TCGA-A3-3372 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-A3-3374        TCGA-A3-3378        TCGA-A3-3380        TCGA-A3-3382 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-A3-3383        TCGA-AK-3426        TCGA-AK-3427        TCGA-AK-3440 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-AK-3443        TCGA-AK-3444        TCGA-AK-3447        TCGA-AK-3453 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-AK-3455        TCGA-AK-3456        TCGA-AK-3465        TCGA-AS-3777 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-AS-3778        TCGA-B2-3923        TCGA-B2-3924        TCGA-B2-4098 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-B2-4099        TCGA-B2-4102        TCGA-B8-4148        TCGA-B8-4151 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-B8-4154        TCGA-B8-4619        TCGA-B8-4620        TCGA-BP-4161 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-BP-4162        TCGA-BP-4163        TCGA-BP-4164        TCGA-BP-4167 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-CJ-4634        TCGA-CJ-4636        TCGA-CJ-4637        TCGA-CJ-4638 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-CJ-4639        TCGA-CJ-4640        TCGA-CJ-4641        TCGA-CJ-4643 
"5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" "5P LOSS WILD-TYPE" 
       TCGA-CJ-4644 
"5P LOSS WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  5P LOSS MUTATED        0      2      4      0      1      1
  5P LOSS WILD-TYPE     61     78    152     82     79     68
D50V3, multiclass
        clus
vv       5P LOSS MUTATED 5P LOSS WILD-TYPE
  CLUS_1               0                61
  CLUS_2               2                78
  CLUS_3               4               152
  CLUS_4               0                82
  CLUS_5               1                79
  CLUS_6               1                68
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  5P LOSS MUTATED        1      1      4      0
  5P LOSS WILD-TYPE     66     69     92     81
D50V4, multiclass
        clus
vv       5P LOSS MUTATED 5P LOSS WILD-TYPE
  CLUS_1               1                66
  CLUS_2               1                69
  CLUS_3               4                92
  CLUS_4               0                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 CLUS_5 CLUS_6
  5P LOSS MUTATED        0      0      6      0      1      0
  5P LOSS WILD-TYPE     88     86     84     82     91     33
D50V5, multiclass
        clus
vv       5P LOSS MUTATED 5P LOSS WILD-TYPE
  CLUS_1               0                88
  CLUS_2               0                86
  CLUS_3               6                84
  CLUS_4               0                82
  CLUS_5               1                91
  CLUS_6               0                33
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  5P LOSS MUTATED        1      2      4      0
  5P LOSS WILD-TYPE    134    110     81    139
D50V6, multiclass
        clus
vv       5P LOSS MUTATED 5P LOSS WILD-TYPE
  CLUS_1               1               134
  CLUS_2               2               110
  CLUS_3               4                81
  CLUS_4               0               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 CLUS_4 CLUS_5
  5P LOSS MUTATED        1      0      2      5      0
  5P LOSS WILD-TYPE     80    170     79    148     40
D50V7, multiclass
        clus
vv       5P LOSS MUTATED 5P LOSS WILD-TYPE
  CLUS_1               1                80
  CLUS_2               0               170
  CLUS_3               2                79
  CLUS_4               5               148
  CLUS_5               0                40
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  5P LOSS MUTATED        0      0      0      6      1      1
  5P LOSS WILD-TYPE    117     33    183    126     34     24
D50V8, multiclass
        clus
vv       5P LOSS MUTATED 5P LOSS WILD-TYPE
  CLUS_1               0               117
  CLUS_2               0                33
  CLUS_3               0               183
  CLUS_4               6               126
  CLUS_5               1                34
  CLUS_6               1                24
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  5P LOSS MUTATED        2      1      0      5      0
  5P LOSS WILD-TYPE     89     56    186    114     57
D50V9, multiclass
        clus
vv       5P LOSS MUTATED 5P LOSS WILD-TYPE
  CLUS_1               2                89
  CLUS_2               1                56
  CLUS_3               0               186
  CLUS_4               5               114
  CLUS_5               0                57
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  5P LOSS MUTATED        5      0      3
  5P LOSS WILD-TYPE    168    209    125
D50V10, multiclass
        clus
vv       5P LOSS MUTATED 5P LOSS WILD-TYPE
  CLUS_1               5               168
  CLUS_2               0               209
  CLUS_3               3               125
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  5P LOSS MUTATED        1      1      0      1
  5P LOSS WILD-TYPE     38     20     44     37
D50V11, multiclass
        clus
vv       5P LOSS MUTATED 5P LOSS WILD-TYPE
  CLUS_1               1                38
  CLUS_2               1                20
  CLUS_3               0                44
  CLUS_4               1                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
  5P LOSS MUTATED        1      2      0      0
  5P LOSS WILD-TYPE     39     50     28     22
D50V12, multiclass
        clus
vv       5P LOSS MUTATED 5P LOSS WILD-TYPE
  CLUS_1               1                39
  CLUS_2               2                50
  CLUS_3               0                28
  CLUS_4               0                22
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(51) Variable = 5Q LOSS MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  5Q LOSS MUTATED        0      1      0
  5Q LOSS WILD-TYPE     31     24     14
D51V1, multiclass
[1] "Remove cluster labels:" "5Q LOSS MUTATED"       
clus
  5Q LOSS MUTATED 5Q LOSS WILD-TYPE 
                1                69 
       TCGA-A3-3306        TCGA-A3-3307        TCGA-A3-3308        TCGA-A3-3311 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-A3-3313        TCGA-A3-3316        TCGA-A3-3317        TCGA-A3-3319 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-A3-3320        TCGA-A3-3322        TCGA-A3-3323        TCGA-A3-3324 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-A3-3325        TCGA-A3-3326        TCGA-A3-3331        TCGA-A3-3335 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-A3-3336        TCGA-A3-3343        TCGA-A3-3346        TCGA-A3-3347 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-A3-3349        TCGA-A3-3351        TCGA-A3-3352        TCGA-A3-3359 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-A3-3362        TCGA-A3-3363        TCGA-A3-3365        TCGA-A3-3372 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-A3-3374        TCGA-A3-3378        TCGA-A3-3380        TCGA-A3-3382 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-A3-3383        TCGA-AK-3426        TCGA-AK-3427        TCGA-AK-3440 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-AK-3443        TCGA-AK-3444        TCGA-AK-3447        TCGA-AK-3453 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-AK-3455        TCGA-AK-3456        TCGA-AK-3465        TCGA-AS-3777 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-AS-3778        TCGA-B2-3923        TCGA-B2-3924        TCGA-B2-4098 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-B2-4099        TCGA-B2-4102        TCGA-B8-4148        TCGA-B8-4151 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-B8-4154        TCGA-B8-4619        TCGA-B8-4620        TCGA-BP-4161 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-BP-4162        TCGA-BP-4163        TCGA-BP-4164        TCGA-BP-4167 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-CJ-4634        TCGA-CJ-4636        TCGA-CJ-4637        TCGA-CJ-4638 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-CJ-4639        TCGA-CJ-4640        TCGA-CJ-4641        TCGA-CJ-4643 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-CJ-4644 
"5Q LOSS WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  5Q LOSS MUTATED        0      0      0      1      0      0      0
  5Q LOSS WILD-TYPE     11     12      4     10     13      9     10
D51V2, multiclass
[1] "Remove cluster labels:" "5Q LOSS MUTATED"       
clus
  5Q LOSS MUTATED 5Q LOSS WILD-TYPE 
                1                69 
       TCGA-A3-3306        TCGA-A3-3307        TCGA-A3-3308        TCGA-A3-3311 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-A3-3313        TCGA-A3-3316        TCGA-A3-3317        TCGA-A3-3319 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-A3-3320        TCGA-A3-3322        TCGA-A3-3323        TCGA-A3-3324 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-A3-3325        TCGA-A3-3326        TCGA-A3-3331        TCGA-A3-3335 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-A3-3336        TCGA-A3-3343        TCGA-A3-3346        TCGA-A3-3347 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-A3-3349        TCGA-A3-3351        TCGA-A3-3352        TCGA-A3-3359 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-A3-3362        TCGA-A3-3363        TCGA-A3-3365        TCGA-A3-3372 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-A3-3374        TCGA-A3-3378        TCGA-A3-3380        TCGA-A3-3382 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-A3-3383        TCGA-AK-3426        TCGA-AK-3427        TCGA-AK-3440 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-AK-3443        TCGA-AK-3444        TCGA-AK-3447        TCGA-AK-3453 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-AK-3455        TCGA-AK-3456        TCGA-AK-3465        TCGA-AS-3777 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-AS-3778        TCGA-B2-3923        TCGA-B2-3924        TCGA-B2-4098 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-B2-4099        TCGA-B2-4102        TCGA-B8-4148        TCGA-B8-4151 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-B8-4154        TCGA-B8-4619        TCGA-B8-4620        TCGA-BP-4161 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-BP-4162        TCGA-BP-4163        TCGA-BP-4164        TCGA-BP-4167 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-CJ-4634        TCGA-CJ-4636        TCGA-CJ-4637        TCGA-CJ-4638 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-CJ-4639        TCGA-CJ-4640        TCGA-CJ-4641        TCGA-CJ-4643 
"5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" "5Q LOSS WILD-TYPE" 
       TCGA-CJ-4644 
"5Q LOSS WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  5Q LOSS MUTATED        0      2      4      0      0      1
  5Q LOSS WILD-TYPE     61     78    152     82     80     68
D51V3, multiclass
        clus
vv       5Q LOSS MUTATED 5Q LOSS WILD-TYPE
  CLUS_1               0                61
  CLUS_2               2                78
  CLUS_3               4               152
  CLUS_4               0                82
  CLUS_5               0                80
  CLUS_6               1                68
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  5Q LOSS MUTATED        1      1      3      0
  5Q LOSS WILD-TYPE     66     69     93     81
D51V4, multiclass
        clus
vv       5Q LOSS MUTATED 5Q LOSS WILD-TYPE
  CLUS_1               1                66
  CLUS_2               1                69
  CLUS_3               3                93
  CLUS_4               0                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 CLUS_5 CLUS_6
  5Q LOSS MUTATED        0      0      5      0      1      0
  5Q LOSS WILD-TYPE     88     86     85     82     91     33
D51V5, multiclass
        clus
vv       5Q LOSS MUTATED 5Q LOSS WILD-TYPE
  CLUS_1               0                88
  CLUS_2               0                86
  CLUS_3               5                85
  CLUS_4               0                82
  CLUS_5               1                91
  CLUS_6               0                33
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  5Q LOSS MUTATED        1      2      3      0
  5Q LOSS WILD-TYPE    134    110     82    139
D51V6, multiclass
        clus
vv       5Q LOSS MUTATED 5Q LOSS WILD-TYPE
  CLUS_1               1               134
  CLUS_2               2               110
  CLUS_3               3                82
  CLUS_4               0               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 CLUS_4 CLUS_5
  5Q LOSS MUTATED        1      0      2      4      0
  5Q LOSS WILD-TYPE     80    170     79    149     40
D51V7, multiclass
        clus
vv       5Q LOSS MUTATED 5Q LOSS WILD-TYPE
  CLUS_1               1                80
  CLUS_2               0               170
  CLUS_3               2                79
  CLUS_4               4               149
  CLUS_5               0                40
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- 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        0      0      0      6      0      1
  5Q LOSS WILD-TYPE    117     33    183    126     35     24
D51V8, multiclass
        clus
vv       5Q LOSS MUTATED 5Q LOSS WILD-TYPE
  CLUS_1               0               117
  CLUS_2               0                33
  CLUS_3               0               183
  CLUS_4               6               126
  CLUS_5               0                35
  CLUS_6               1                24
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  5Q LOSS MUTATED        2      1      0      4      0
  5Q LOSS WILD-TYPE     89     56    186    115     57
D51V9, multiclass
        clus
vv       5Q LOSS MUTATED 5Q LOSS WILD-TYPE
  CLUS_1               2                89
  CLUS_2               1                56
  CLUS_3               0               186
  CLUS_4               4               115
  CLUS_5               0                57
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  5Q LOSS MUTATED        5      0      2
  5Q LOSS WILD-TYPE    168    209    126
D51V10, multiclass
        clus
vv       5Q LOSS MUTATED 5Q LOSS WILD-TYPE
  CLUS_1               5               168
  CLUS_2               0               209
  CLUS_3               2               126
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger 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      1      0      1
  5Q LOSS WILD-TYPE     38     20     44     37
D51V11, multiclass
        clus
vv       5Q LOSS MUTATED 5Q LOSS WILD-TYPE
  CLUS_1               1                38
  CLUS_2               1                20
  CLUS_3               0                44
  CLUS_4               1                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
  5Q LOSS MUTATED        1      2      0      0
  5Q LOSS WILD-TYPE     39     50     28     22
D51V12, multiclass
        clus
vv       5Q LOSS MUTATED 5Q LOSS WILD-TYPE
  CLUS_1               1                39
  CLUS_2               2                50
  CLUS_3               0                28
  CLUS_4               0                22
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(52) Variable = 6P LOSS MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  6P LOSS MUTATED        4     10      6
  6P LOSS WILD-TYPE     27     15      8
D52V1, multiclass
        clus
vv       6P LOSS MUTATED 6P LOSS WILD-TYPE
  CLUS_1               4                27
  CLUS_2              10                15
  CLUS_3               6                 8
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  6P LOSS MUTATED        2      7      0      3      1      1      6
  6P LOSS WILD-TYPE      9      5      4      8     12      8      4
D52V2, multiclass
        clus
vv       6P LOSS MUTATED 6P LOSS WILD-TYPE
  CLUS_1               2                 9
  CLUS_2               7                 5
  CLUS_3               0                 4
  CLUS_4               3                 8
  CLUS_5               1                12
  CLUS_6               1                 8
  CLUS_7               6                 4
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  6P LOSS MUTATED        7     10     61      0     14      8
  6P LOSS WILD-TYPE     54     70     95     82     66     61
D52V3, multiclass
        clus
vv       6P LOSS MUTATED 6P LOSS WILD-TYPE
  CLUS_1               7                54
  CLUS_2              10                70
  CLUS_3              61                95
  CLUS_4               0                82
  CLUS_5              14                66
  CLUS_6               8                61
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  6P LOSS MUTATED        9     13     25      5
  6P LOSS WILD-TYPE     58     57     71     76
D52V4, multiclass
        clus
vv       6P LOSS MUTATED 6P LOSS WILD-TYPE
  CLUS_1               9                58
  CLUS_2              13                57
  CLUS_3              25                71
  CLUS_4               5                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 CLUS_5 CLUS_6
  6P LOSS MUTATED       16      9     37     17      7      4
  6P LOSS WILD-TYPE     72     77     53     65     85     29
D52V5, multiclass
        clus
vv       6P LOSS MUTATED 6P LOSS WILD-TYPE
  CLUS_1              16                72
  CLUS_2               9                77
  CLUS_3              37                53
  CLUS_4              17                65
  CLUS_5               7                85
  CLUS_6               4                29
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  6P LOSS MUTATED       10     40     27     13
  6P LOSS WILD-TYPE    125     72     58    126
D52V6, multiclass
        clus
vv       6P LOSS MUTATED 6P LOSS WILD-TYPE
  CLUS_1              10               125
  CLUS_2              40                72
  CLUS_3              27                58
  CLUS_4              13               126
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  6P LOSS MUTATED       16     15      9     53      5
  6P LOSS WILD-TYPE     65    155     72    100     35
D52V7, multiclass
        clus
vv       6P LOSS MUTATED 6P LOSS WILD-TYPE
  CLUS_1              16                65
  CLUS_2              15               155
  CLUS_3               9                72
  CLUS_4              53               100
  CLUS_5               5                35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  6P LOSS MUTATED       19      1     12     51      6      9
  6P LOSS WILD-TYPE     98     32    171     81     29     16
D52V8, multiclass
        clus
vv       6P LOSS MUTATED 6P LOSS WILD-TYPE
  CLUS_1              19                98
  CLUS_2               1                32
  CLUS_3              12               171
  CLUS_4              51                81
  CLUS_5               6                29
  CLUS_6               9                16
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  6P LOSS MUTATED       15     15     15     40     11
  6P LOSS WILD-TYPE     76     42    171     79     46
D52V9, multiclass
        clus
vv       6P LOSS MUTATED 6P LOSS WILD-TYPE
  CLUS_1              15                76
  CLUS_2              15                42
  CLUS_3              15               171
  CLUS_4              40                79
  CLUS_5              11                46
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  6P LOSS MUTATED       44     14     38
  6P LOSS WILD-TYPE    129    195     90
D52V10, multiclass
        clus
vv       6P LOSS MUTATED 6P LOSS WILD-TYPE
  CLUS_1              44               129
  CLUS_2              14               195
  CLUS_3              38                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
  6P LOSS MUTATED        5      2      4     10
  6P LOSS WILD-TYPE     34     19     40     28
D52V11, multiclass
        clus
vv       6P LOSS MUTATED 6P LOSS WILD-TYPE
  CLUS_1               5                34
  CLUS_2               2                19
  CLUS_3               4                40
  CLUS_4              10                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
  6P LOSS MUTATED        5     13      3      0
  6P LOSS WILD-TYPE     35     39     25     22
D52V12, multiclass
        clus
vv       6P LOSS MUTATED 6P LOSS WILD-TYPE
  CLUS_1               5                35
  CLUS_2              13                39
  CLUS_3               3                25
  CLUS_4               0                22
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(53) Variable = 6Q LOSS MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  6Q LOSS MUTATED        7     11      7
  6Q LOSS WILD-TYPE     24     14      7
D53V1, multiclass
        clus
vv       6Q LOSS MUTATED 6Q LOSS WILD-TYPE
  CLUS_1               7                24
  CLUS_2              11                14
  CLUS_3               7                 7
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  6Q LOSS MUTATED        2      7      0      4      3      2      7
  6Q LOSS WILD-TYPE      9      5      4      7     10      7      3
D53V2, multiclass
        clus
vv       6Q LOSS MUTATED 6Q LOSS WILD-TYPE
  CLUS_1               2                 9
  CLUS_2               7                 5
  CLUS_3               0                 4
  CLUS_4               4                 7
  CLUS_5               3                10
  CLUS_6               2                 7
  CLUS_7               7                 3
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  6Q LOSS MUTATED        7     10     85      0     16     10
  6Q LOSS WILD-TYPE     54     70     71     82     64     59
D53V3, multiclass
        clus
vv       6Q LOSS MUTATED 6Q LOSS WILD-TYPE
  CLUS_1               7                54
  CLUS_2              10                70
  CLUS_3              85                71
  CLUS_4               0                82
  CLUS_5              16                64
  CLUS_6              10                59
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  6Q LOSS MUTATED       10     17     28     13
  6Q LOSS WILD-TYPE     57     53     68     68
D53V4, multiclass
        clus
vv       6Q LOSS MUTATED 6Q LOSS WILD-TYPE
  CLUS_1              10                57
  CLUS_2              17                53
  CLUS_3              28                68
  CLUS_4              13                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 CLUS_5 CLUS_6
  6Q LOSS MUTATED       18     21     39     25      7      5
  6Q LOSS WILD-TYPE     70     65     51     57     85     28
D53V5, multiclass
        clus
vv       6Q LOSS MUTATED 6Q LOSS WILD-TYPE
  CLUS_1              18                70
  CLUS_2              21                65
  CLUS_3              39                51
  CLUS_4              25                57
  CLUS_5               7                85
  CLUS_6               5                28
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  6Q LOSS MUTATED       13     45     29     28
  6Q LOSS WILD-TYPE    122     67     56    111
D53V6, multiclass
        clus
vv       6Q LOSS MUTATED 6Q LOSS WILD-TYPE
  CLUS_1              13               122
  CLUS_2              45                67
  CLUS_3              29                56
  CLUS_4              28               111
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  6Q LOSS MUTATED       19     33     11     58      5
  6Q LOSS WILD-TYPE     62    137     70     95     35
D53V7, multiclass
        clus
vv       6Q LOSS MUTATED 6Q LOSS WILD-TYPE
  CLUS_1              19                62
  CLUS_2              33               137
  CLUS_3              11                70
  CLUS_4              58                95
  CLUS_5               5                35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  6Q LOSS MUTATED       22      5     29     53      8      9
  6Q LOSS WILD-TYPE     95     28    154     79     27     16
D53V8, multiclass
        clus
vv       6Q LOSS MUTATED 6Q LOSS WILD-TYPE
  CLUS_1              22                95
  CLUS_2               5                28
  CLUS_3              29               154
  CLUS_4              53                79
  CLUS_5               8                27
  CLUS_6               9                16
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  6Q LOSS MUTATED       20     17     31     44     12
  6Q LOSS WILD-TYPE     71     40    155     75     45
D53V9, multiclass
        clus
vv       6Q LOSS MUTATED 6Q LOSS WILD-TYPE
  CLUS_1              20                71
  CLUS_2              17                40
  CLUS_3              31               155
  CLUS_4              44                75
  CLUS_5              12                45
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  6Q LOSS MUTATED       50     31     43
  6Q LOSS WILD-TYPE    123    178     85
D53V10, multiclass
        clus
vv       6Q LOSS MUTATED 6Q LOSS WILD-TYPE
  CLUS_1              50               123
  CLUS_2              31               178
  CLUS_3              43                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
  6Q LOSS MUTATED        6      3      8     12
  6Q LOSS WILD-TYPE     33     18     36     26
D53V11, multiclass
        clus
vv       6Q LOSS MUTATED 6Q LOSS WILD-TYPE
  CLUS_1               6                33
  CLUS_2               3                18
  CLUS_3               8                36
  CLUS_4              12                26
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  6Q LOSS MUTATED        6     17      5      1
  6Q LOSS WILD-TYPE     34     35     23     21
D53V12, multiclass
        clus
vv       6Q LOSS MUTATED 6Q LOSS WILD-TYPE
  CLUS_1               6                34
  CLUS_2              17                35
  CLUS_3               5                23
  CLUS_4               1                21
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(54) Variable = 8P LOSS MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  8P LOSS MUTATED        5      6      6
  8P LOSS WILD-TYPE     26     19      8
D54V1, multiclass
        clus
vv       8P LOSS MUTATED 8P LOSS WILD-TYPE
  CLUS_1               5                26
  CLUS_2               6                19
  CLUS_3               6                 8
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  8P LOSS MUTATED        0      3      0      3      3      3      5
  8P LOSS WILD-TYPE     11      9      4      8     10      6      5
D54V2, multiclass
        clus
vv       8P LOSS MUTATED 8P LOSS WILD-TYPE
  CLUS_1               0                11
  CLUS_2               3                 9
  CLUS_3               0                 4
  CLUS_4               3                 8
  CLUS_5               3                10
  CLUS_6               3                 6
  CLUS_7               5                 5
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  8P LOSS MUTATED       14     22     53     14     15     19
  8P LOSS WILD-TYPE     47     58    103     68     65     50
D54V3, multiclass
        clus
vv       8P LOSS MUTATED 8P LOSS WILD-TYPE
  CLUS_1              14                47
  CLUS_2              22                58
  CLUS_3              53               103
  CLUS_4              14                68
  CLUS_5              15                65
  CLUS_6              19                50
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  8P LOSS MUTATED       13     17     28     17
  8P LOSS WILD-TYPE     54     53     68     64
D54V4, multiclass
        clus
vv       8P LOSS MUTATED 8P LOSS WILD-TYPE
  CLUS_1              13                54
  CLUS_2              17                53
  CLUS_3              28                68
  CLUS_4              17                64
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  8P LOSS MUTATED       23     13     31     25     22      9
  8P LOSS WILD-TYPE     65     73     59     57     70     24
D54V5, multiclass
        clus
vv       8P LOSS MUTATED 8P LOSS WILD-TYPE
  CLUS_1              23                65
  CLUS_2              13                73
  CLUS_3              31                59
  CLUS_4              25                57
  CLUS_5              22                70
  CLUS_6               9                24
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  8P LOSS MUTATED       37     28     22     36
  8P LOSS WILD-TYPE     98     84     63    103
D54V6, multiclass
        clus
vv       8P LOSS MUTATED 8P LOSS WILD-TYPE
  CLUS_1              37                98
  CLUS_2              28                84
  CLUS_3              22                63
  CLUS_4              36               103
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  8P LOSS MUTATED       15     40     16     53     12
  8P LOSS WILD-TYPE     66    130     65    100     28
D54V7, multiclass
        clus
vv       8P LOSS MUTATED 8P LOSS WILD-TYPE
  CLUS_1              15                66
  CLUS_2              40               130
  CLUS_3              16                65
  CLUS_4              53               100
  CLUS_5              12                28
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  8P LOSS MUTATED       28      3     47     50      4      4
  8P LOSS WILD-TYPE     89     30    136     82     31     21
D54V8, multiclass
        clus
vv       8P LOSS MUTATED 8P LOSS WILD-TYPE
  CLUS_1              28                89
  CLUS_2               3                30
  CLUS_3              47               136
  CLUS_4              50                82
  CLUS_5               4                31
  CLUS_6               4                21
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  8P LOSS MUTATED       25     14     40     42     13
  8P LOSS WILD-TYPE     66     43    146     77     44
D54V9, multiclass
        clus
vv       8P LOSS MUTATED 8P LOSS WILD-TYPE
  CLUS_1              25                66
  CLUS_2              14                43
  CLUS_3              40               146
  CLUS_4              42                77
  CLUS_5              13                44
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  8P LOSS MUTATED       59     46     29
  8P LOSS WILD-TYPE    114    163     99
D54V10, multiclass
        clus
vv       8P LOSS MUTATED 8P LOSS WILD-TYPE
  CLUS_1              59               114
  CLUS_2              46               163
  CLUS_3              29                99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  8P LOSS MUTATED        7      4     10     14
  8P LOSS WILD-TYPE     32     17     34     24
D54V11, multiclass
        clus
vv       8P LOSS MUTATED 8P LOSS WILD-TYPE
  CLUS_1               7                32
  CLUS_2               4                17
  CLUS_3              10                34
  CLUS_4              14                24
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  8P LOSS MUTATED        7     16      5      7
  8P LOSS WILD-TYPE     33     36     23     15
D54V12, multiclass
        clus
vv       8P LOSS MUTATED 8P LOSS WILD-TYPE
  CLUS_1               7                33
  CLUS_2              16                36
  CLUS_3               5                23
  CLUS_4               7                15
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(55) Variable = 8Q LOSS MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  8Q LOSS MUTATED        1      2      3
  8Q LOSS WILD-TYPE     30     23     11
D55V1, multiclass
        clus
vv       8Q LOSS MUTATED 8Q LOSS WILD-TYPE
  CLUS_1               1                30
  CLUS_2               2                23
  CLUS_3               3                11
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  8Q LOSS MUTATED        0      0      0      2      0      2      2
  8Q LOSS WILD-TYPE     11     12      4      9     13      7      8
D55V2, multiclass
        clus
vv       8Q LOSS MUTATED 8Q LOSS WILD-TYPE
  CLUS_1               0                11
  CLUS_2               0                12
  CLUS_3               0                 4
  CLUS_4               2                 9
  CLUS_5               0                13
  CLUS_6               2                 7
  CLUS_7               2                 8
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  8Q LOSS MUTATED        8     12     13     13      9     10
  8Q LOSS WILD-TYPE     53     68    143     69     71     59
D55V3, multiclass
        clus
vv       8Q LOSS MUTATED 8Q LOSS WILD-TYPE
  CLUS_1               8                53
  CLUS_2              12                68
  CLUS_3              13               143
  CLUS_4              13                69
  CLUS_5               9                71
  CLUS_6              10                59
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  8Q LOSS MUTATED       11      1     14     10
  8Q LOSS WILD-TYPE     56     69     82     71
D55V4, multiclass
        clus
vv       8Q LOSS MUTATED 8Q LOSS WILD-TYPE
  CLUS_1              11                56
  CLUS_2               1                69
  CLUS_3              14                82
  CLUS_4              10                71
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  8Q LOSS MUTATED       13      3     13     16      9      5
  8Q LOSS WILD-TYPE     75     83     77     66     83     28
D55V5, multiclass
        clus
vv       8Q LOSS MUTATED 8Q LOSS WILD-TYPE
  CLUS_1              13                75
  CLUS_2               3                83
  CLUS_3              13                77
  CLUS_4              16                66
  CLUS_5               9                83
  CLUS_6               5                28
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  8Q LOSS MUTATED       16     10     11     22
  8Q LOSS WILD-TYPE    119    102     74    117
D55V6, multiclass
        clus
vv       8Q LOSS MUTATED 8Q LOSS WILD-TYPE
  CLUS_1              16               119
  CLUS_2              10               102
  CLUS_3              11                74
  CLUS_4              22               117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  8Q LOSS MUTATED       10     23      9     18      5
  8Q LOSS WILD-TYPE     71    147     72    135     35
D55V7, multiclass
        clus
vv       8Q LOSS MUTATED 8Q LOSS WILD-TYPE
  CLUS_1              10                71
  CLUS_2              23               147
  CLUS_3               9                72
  CLUS_4              18               135
  CLUS_5               5                35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  8Q LOSS MUTATED       17      1     27     16      1      3
  8Q LOSS WILD-TYPE    100     32    156    116     34     22
D55V8, multiclass
        clus
vv       8Q LOSS MUTATED 8Q LOSS WILD-TYPE
  CLUS_1              17               100
  CLUS_2               1                32
  CLUS_3              27               156
  CLUS_4              16               116
  CLUS_5               1                34
  CLUS_6               3                22
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  8Q LOSS MUTATED       15      5     19     20      6
  8Q LOSS WILD-TYPE     76     52    167     99     51
D55V9, multiclass
        clus
vv       8Q LOSS MUTATED 8Q LOSS WILD-TYPE
  CLUS_1              15                76
  CLUS_2               5                52
  CLUS_3              19               167
  CLUS_4              20                99
  CLUS_5               6                51
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  8Q LOSS MUTATED       26     25     14
  8Q LOSS WILD-TYPE    147    184    114
D55V10, multiclass
        clus
vv       8Q LOSS MUTATED 8Q LOSS WILD-TYPE
  CLUS_1              26               147
  CLUS_2              25               184
  CLUS_3              14               114
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  8Q LOSS MUTATED        3      2      6      6
  8Q LOSS WILD-TYPE     36     19     38     32
D55V11, multiclass
        clus
vv       8Q LOSS MUTATED 8Q LOSS WILD-TYPE
  CLUS_1               3                36
  CLUS_2               2                19
  CLUS_3               6                38
  CLUS_4               6                32
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  8Q LOSS MUTATED        2      9      3      3
  8Q LOSS WILD-TYPE     38     43     25     19
D55V12, multiclass
        clus
vv       8Q LOSS MUTATED 8Q LOSS WILD-TYPE
  CLUS_1               2                38
  CLUS_2               9                43
  CLUS_3               3                25
  CLUS_4               3                19
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(56) Variable = 9P LOSS MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  9P LOSS MUTATED        5     12      1
  9P LOSS WILD-TYPE     26     13     13
D56V1, multiclass
        clus
vv       9P LOSS MUTATED 9P LOSS WILD-TYPE
  CLUS_1               5                26
  CLUS_2              12                13
  CLUS_3               1                13
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  9P LOSS MUTATED        2      7      0      5      1      2      1
  9P LOSS WILD-TYPE      9      5      4      6     12      7      9
D56V2, multiclass
        clus
vv       9P LOSS MUTATED 9P LOSS WILD-TYPE
  CLUS_1               2                 9
  CLUS_2               7                 5
  CLUS_3               0                 4
  CLUS_4               5                 6
  CLUS_5               1                12
  CLUS_6               2                 7
  CLUS_7               1                 9
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  9P LOSS MUTATED        6     21     85     17     20      0
  9P LOSS WILD-TYPE     55     59     71     65     60     69
D56V3, multiclass
        clus
vv       9P LOSS MUTATED 9P LOSS WILD-TYPE
  CLUS_1               6                55
  CLUS_2              21                59
  CLUS_3              85                71
  CLUS_4              17                65
  CLUS_5              20                60
  CLUS_6               0                69
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  9P LOSS MUTATED        9     24     56      4
  9P LOSS WILD-TYPE     58     46     40     77
D56V4, multiclass
        clus
vv       9P LOSS MUTATED 9P LOSS WILD-TYPE
  CLUS_1               9                58
  CLUS_2              24                46
  CLUS_3              56                40
  CLUS_4               4                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 CLUS_5 CLUS_6
  9P LOSS MUTATED       16     15     54     22     25      6
  9P LOSS WILD-TYPE     72     71     36     60     67     27
D56V5, multiclass
        clus
vv       9P LOSS MUTATED 9P LOSS WILD-TYPE
  CLUS_1              16                72
  CLUS_2              15                71
  CLUS_3              54                36
  CLUS_4              22                60
  CLUS_5              25                67
  CLUS_6               6                27
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  9P LOSS MUTATED       25     52     36     25
  9P LOSS WILD-TYPE    110     60     49    114
D56V6, multiclass
        clus
vv       9P LOSS MUTATED 9P LOSS WILD-TYPE
  CLUS_1              25               110
  CLUS_2              52                60
  CLUS_3              36                49
  CLUS_4              25               114
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  9P LOSS MUTATED       14     16     23     88      7
  9P LOSS WILD-TYPE     67    154     58     65     33
D56V7, multiclass
        clus
vv       9P LOSS MUTATED 9P LOSS WILD-TYPE
  CLUS_1              14                67
  CLUS_2              16               154
  CLUS_3              23                58
  CLUS_4              88                65
  CLUS_5               7                33
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  9P LOSS MUTATED       31      2     16     82     13      4
  9P LOSS WILD-TYPE     86     31    167     50     22     21
D56V8, multiclass
        clus
vv       9P LOSS MUTATED 9P LOSS WILD-TYPE
  CLUS_1              31                86
  CLUS_2               2                31
  CLUS_3              16               167
  CLUS_4              82                50
  CLUS_5              13                22
  CLUS_6               4                21
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  9P LOSS MUTATED       21     23     27     60     13
  9P LOSS WILD-TYPE     70     34    159     59     44
D56V9, multiclass
        clus
vv       9P LOSS MUTATED 9P LOSS WILD-TYPE
  CLUS_1              21                70
  CLUS_2              23                34
  CLUS_3              27               159
  CLUS_4              60                59
  CLUS_5              13                44
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  9P LOSS MUTATED       70     25     49
  9P LOSS WILD-TYPE    103    184     79
D56V10, multiclass
        clus
vv       9P LOSS MUTATED 9P LOSS WILD-TYPE
  CLUS_1              70               103
  CLUS_2              25               184
  CLUS_3              49                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 LOSS MUTATED        8      4      4     15
  9P LOSS WILD-TYPE     31     17     40     23
D56V11, multiclass
        clus
vv       9P LOSS MUTATED 9P LOSS WILD-TYPE
  CLUS_1               8                31
  CLUS_2               4                17
  CLUS_3               4                40
  CLUS_4              15                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
  9P LOSS MUTATED        9     17      3      2
  9P LOSS WILD-TYPE     31     35     25     20
D56V12, multiclass
        clus
vv       9P LOSS MUTATED 9P LOSS WILD-TYPE
  CLUS_1               9                31
  CLUS_2              17                35
  CLUS_3               3                25
  CLUS_4               2                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"

Clustering(57) Variable = 9Q LOSS MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  9Q LOSS MUTATED        5     12      2
  9Q LOSS WILD-TYPE     26     13     12
D57V1, multiclass
        clus
vv       9Q LOSS MUTATED 9Q LOSS WILD-TYPE
  CLUS_1               5                26
  CLUS_2              12                13
  CLUS_3               2                12
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  9Q LOSS MUTATED        2      7      1      5      1      2      1
  9Q LOSS WILD-TYPE      9      5      3      6     12      7      9
D57V2, multiclass
        clus
vv       9Q LOSS MUTATED 9Q LOSS WILD-TYPE
  CLUS_1               2                 9
  CLUS_2               7                 5
  CLUS_3               1                 3
  CLUS_4               5                 6
  CLUS_5               1                12
  CLUS_6               2                 7
  CLUS_7               1                 9
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  9Q LOSS MUTATED        6     20     86     18     21      0
  9Q LOSS WILD-TYPE     55     60     70     64     59     69
D57V3, multiclass
        clus
vv       9Q LOSS MUTATED 9Q LOSS WILD-TYPE
  CLUS_1               6                55
  CLUS_2              20                60
  CLUS_3              86                70
  CLUS_4              18                64
  CLUS_5              21                59
  CLUS_6               0                69
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  9Q LOSS MUTATED        9     25     54      3
  9Q LOSS WILD-TYPE     58     45     42     78
D57V4, multiclass
        clus
vv       9Q LOSS MUTATED 9Q LOSS WILD-TYPE
  CLUS_1               9                58
  CLUS_2              25                45
  CLUS_3              54                42
  CLUS_4               3                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 CLUS_5 CLUS_6
  9Q LOSS MUTATED       18     14     52     24     26      6
  9Q LOSS WILD-TYPE     70     72     38     58     66     27
D57V5, multiclass
        clus
vv       9Q LOSS MUTATED 9Q LOSS WILD-TYPE
  CLUS_1              18                70
  CLUS_2              14                72
  CLUS_3              52                38
  CLUS_4              24                58
  CLUS_5              26                66
  CLUS_6               6                27
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  9Q LOSS MUTATED       26     52     36     26
  9Q LOSS WILD-TYPE    109     60     49    113
D57V6, multiclass
        clus
vv       9Q LOSS MUTATED 9Q LOSS WILD-TYPE
  CLUS_1              26               109
  CLUS_2              52                60
  CLUS_3              36                49
  CLUS_4              26               113
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  9Q LOSS MUTATED       15     17     23     88      7
  9Q LOSS WILD-TYPE     66    153     58     65     33
D57V7, multiclass
        clus
vv       9Q LOSS MUTATED 9Q LOSS WILD-TYPE
  CLUS_1              15                66
  CLUS_2              17               153
  CLUS_3              23                58
  CLUS_4              88                65
  CLUS_5               7                33
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  9Q LOSS MUTATED       32      3     16     82     13      4
  9Q LOSS WILD-TYPE     85     30    167     50     22     21
D57V8, multiclass
        clus
vv       9Q LOSS MUTATED 9Q LOSS WILD-TYPE
  CLUS_1              32                85
  CLUS_2               3                30
  CLUS_3              16               167
  CLUS_4              82                50
  CLUS_5              13                22
  CLUS_6               4                21
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  9Q LOSS MUTATED       20     23     26     62     14
  9Q LOSS WILD-TYPE     71     34    160     57     43
D57V9, multiclass
        clus
vv       9Q LOSS MUTATED 9Q LOSS WILD-TYPE
  CLUS_1              20                71
  CLUS_2              23                34
  CLUS_3              26               160
  CLUS_4              62                57
  CLUS_5              14                43
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  9Q LOSS MUTATED       69     25     51
  9Q LOSS WILD-TYPE    104    184     77
D57V10, multiclass
        clus
vv       9Q LOSS MUTATED 9Q LOSS WILD-TYPE
  CLUS_1              69               104
  CLUS_2              25               184
  CLUS_3              51                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
  9Q LOSS MUTATED        6      4      5     17
  9Q LOSS WILD-TYPE     33     17     39     21
D57V11, multiclass
        clus
vv       9Q LOSS MUTATED 9Q LOSS WILD-TYPE
  CLUS_1               6                33
  CLUS_2               4                17
  CLUS_3               5                39
  CLUS_4              17                21
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  9Q LOSS MUTATED        7     18      4      3
  9Q LOSS WILD-TYPE     33     34     24     19
D57V12, multiclass
        clus
vv       9Q LOSS MUTATED 9Q LOSS WILD-TYPE
  CLUS_1               7                33
  CLUS_2              18                34
  CLUS_3               4                24
  CLUS_4               3                19
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(58) Variable = 10P LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  10P LOSS MUTATED        3      4      4
  10P LOSS WILD-TYPE     28     21     10
D58V1, multiclass
        clus
vv       10P LOSS MUTATED 10P LOSS WILD-TYPE
  CLUS_1                3                 28
  CLUS_2                4                 21
  CLUS_3                4                 10
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  10P LOSS MUTATED        1      3      0      1      1      1      4
  10P LOSS WILD-TYPE     10      9      4     10     12      8      6
D58V2, multiclass
        clus
vv       10P LOSS MUTATED 10P LOSS WILD-TYPE
  CLUS_1                1                 10
  CLUS_2                3                  9
  CLUS_3                0                  4
  CLUS_4                1                 10
  CLUS_5                1                 12
  CLUS_6                1                  8
  CLUS_7                4                  6
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  10P LOSS MUTATED        5     11     25      5     10     12
  10P LOSS WILD-TYPE     56     69    131     77     70     57
D58V3, multiclass
        clus
vv       10P LOSS MUTATED 10P LOSS WILD-TYPE
  CLUS_1                5                 56
  CLUS_2               11                 69
  CLUS_3               25                131
  CLUS_4                5                 77
  CLUS_5               10                 70
  CLUS_6               12                 57
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  10P LOSS MUTATED        8      9     17      7
  10P LOSS WILD-TYPE     59     61     79     74
D58V4, multiclass
        clus
vv       10P LOSS MUTATED 10P LOSS WILD-TYPE
  CLUS_1                8                 59
  CLUS_2                9                 61
  CLUS_3               17                 79
  CLUS_4                7                 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 CLUS_5 CLUS_6
  10P LOSS MUTATED       12      8     15     14      8      3
  10P LOSS WILD-TYPE     76     78     75     68     84     30
D58V5, multiclass
        clus
vv       10P LOSS MUTATED 10P LOSS WILD-TYPE
  CLUS_1               12                 76
  CLUS_2                8                 78
  CLUS_3               15                 75
  CLUS_4               14                 68
  CLUS_5                8                 84
  CLUS_6                3                 30
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  10P LOSS MUTATED        9     18     17     16
  10P LOSS WILD-TYPE    126     94     68    123
D58V6, multiclass
        clus
vv       10P LOSS MUTATED 10P LOSS WILD-TYPE
  CLUS_1                9                126
  CLUS_2               18                 94
  CLUS_3               17                 68
  CLUS_4               16                123
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  10P LOSS MUTATED       16     14      8     24      6
  10P LOSS WILD-TYPE     65    156     73    129     34
D58V7, multiclass
        clus
vv       10P LOSS MUTATED 10P LOSS WILD-TYPE
  CLUS_1               16                 65
  CLUS_2               14                156
  CLUS_3                8                 73
  CLUS_4               24                129
  CLUS_5                6                 34
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  10P LOSS MUTATED       16      3     13     25      2      9
  10P LOSS WILD-TYPE    101     30    170    107     33     16
D58V8, multiclass
        clus
vv       10P LOSS MUTATED 10P LOSS WILD-TYPE
  CLUS_1               16                101
  CLUS_2                3                 30
  CLUS_3               13                170
  CLUS_4               25                107
  CLUS_5                2                 33
  CLUS_6                9                 16
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  10P LOSS MUTATED       11      4     16     27      8
  10P LOSS WILD-TYPE     80     53    170     92     49
D58V9, multiclass
        clus
vv       10P LOSS MUTATED 10P LOSS WILD-TYPE
  CLUS_1               11                 80
  CLUS_2                4                 53
  CLUS_3               16                170
  CLUS_4               27                 92
  CLUS_5                8                 49
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  10P LOSS MUTATED       25     18     23
  10P LOSS WILD-TYPE    148    191    105
D58V10, multiclass
        clus
vv       10P LOSS MUTATED 10P LOSS WILD-TYPE
  CLUS_1               25                148
  CLUS_2               18                191
  CLUS_3               23                105
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  10P LOSS MUTATED        4      3      4      5
  10P LOSS WILD-TYPE     35     18     40     33
D58V11, multiclass
        clus
vv       10P LOSS MUTATED 10P LOSS WILD-TYPE
  CLUS_1                4                 35
  CLUS_2                3                 18
  CLUS_3                4                 40
  CLUS_4                5                 33
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  10P LOSS MUTATED        4      9      2      1
  10P LOSS WILD-TYPE     36     43     26     21
D58V12, multiclass
        clus
vv       10P LOSS MUTATED 10P LOSS WILD-TYPE
  CLUS_1                4                 36
  CLUS_2                9                 43
  CLUS_3                2                 26
  CLUS_4                1                 21
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(59) Variable = 10Q LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  10Q LOSS MUTATED        4      5      4
  10Q LOSS WILD-TYPE     27     20     10
D59V1, multiclass
        clus
vv       10Q LOSS MUTATED 10Q LOSS WILD-TYPE
  CLUS_1                4                 27
  CLUS_2                5                 20
  CLUS_3                4                 10
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  10Q LOSS MUTATED        1      4      0      1      2      1      4
  10Q LOSS WILD-TYPE     10      8      4     10     11      8      6
D59V2, multiclass
        clus
vv       10Q LOSS MUTATED 10Q LOSS WILD-TYPE
  CLUS_1                1                 10
  CLUS_2                4                  8
  CLUS_3                0                  4
  CLUS_4                1                 10
  CLUS_5                2                 11
  CLUS_6                1                  8
  CLUS_7                4                  6
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  10Q LOSS MUTATED        6     11     35      7     14     16
  10Q LOSS WILD-TYPE     55     69    121     75     66     53
D59V3, multiclass
        clus
vv       10Q LOSS MUTATED 10Q LOSS WILD-TYPE
  CLUS_1                6                 55
  CLUS_2               11                 69
  CLUS_3               35                121
  CLUS_4                7                 75
  CLUS_5               14                 66
  CLUS_6               16                 53
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  10Q LOSS MUTATED        8     10     25     12
  10Q LOSS WILD-TYPE     59     60     71     69
D59V4, multiclass
        clus
vv       10Q LOSS MUTATED 10Q LOSS WILD-TYPE
  CLUS_1                8                 59
  CLUS_2               10                 60
  CLUS_3               25                 71
  CLUS_4               12                 69
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- 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       16     14     18     14     12      7
  10Q LOSS WILD-TYPE     72     72     72     68     80     26
D59V5, multiclass
        clus
vv       10Q LOSS MUTATED 10Q LOSS WILD-TYPE
  CLUS_1               16                 72
  CLUS_2               14                 72
  CLUS_3               18                 72
  CLUS_4               14                 68
  CLUS_5               12                 80
  CLUS_6                7                 26
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  10Q LOSS MUTATED       14     24     21     22
  10Q LOSS WILD-TYPE    121     88     64    117
D59V6, multiclass
        clus
vv       10Q LOSS MUTATED 10Q LOSS WILD-TYPE
  CLUS_1               14                121
  CLUS_2               24                 88
  CLUS_3               21                 64
  CLUS_4               22                117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  10Q LOSS MUTATED       18     21     13     29      8
  10Q LOSS WILD-TYPE     63    149     68    124     32
D59V7, multiclass
        clus
vv       10Q LOSS MUTATED 10Q LOSS WILD-TYPE
  CLUS_1               18                 63
  CLUS_2               21                149
  CLUS_3               13                 68
  CLUS_4               29                124
  CLUS_5                8                 32
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  10Q LOSS MUTATED       22      3     20     32      3      9
  10Q LOSS WILD-TYPE     95     30    163    100     32     16
D59V8, multiclass
        clus
vv       10Q LOSS MUTATED 10Q LOSS WILD-TYPE
  CLUS_1               22                 95
  CLUS_2                3                 30
  CLUS_3               20                163
  CLUS_4               32                100
  CLUS_5                3                 32
  CLUS_6                9                 16
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  10Q LOSS MUTATED       14      4     24     33     12
  10Q LOSS WILD-TYPE     77     53    162     86     45
D59V9, multiclass
        clus
vv       10Q LOSS MUTATED 10Q LOSS WILD-TYPE
  CLUS_1               14                 77
  CLUS_2                4                 53
  CLUS_3               24                162
  CLUS_4               33                 86
  CLUS_5               12                 45
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  10Q LOSS MUTATED       34     23     30
  10Q LOSS WILD-TYPE    139    186     98
D59V10, multiclass
        clus
vv       10Q LOSS MUTATED 10Q LOSS WILD-TYPE
  CLUS_1               34                139
  CLUS_2               23                186
  CLUS_3               30                 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
  10Q LOSS MUTATED        5      3      6      7
  10Q LOSS WILD-TYPE     34     18     38     31
D59V11, multiclass
        clus
vv       10Q LOSS MUTATED 10Q LOSS WILD-TYPE
  CLUS_1                5                 34
  CLUS_2                3                 18
  CLUS_3                6                 38
  CLUS_4                7                 31
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  10Q LOSS MUTATED        5     11      3      2
  10Q LOSS WILD-TYPE     35     41     25     20
D59V12, multiclass
        clus
vv       10Q LOSS MUTATED 10Q LOSS WILD-TYPE
  CLUS_1                5                 35
  CLUS_2               11                 41
  CLUS_3                3                 25
  CLUS_4                2                 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"

Clustering(60) Variable = 11P LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  11P LOSS MUTATED        0      1      1
  11P LOSS WILD-TYPE     31     24     13
D60V1, multiclass
[1] "Remove cluster labels:" "11P LOSS MUTATED"      
clus
  11P LOSS MUTATED 11P LOSS WILD-TYPE 
                 2                 68 
        TCGA-A3-3306         TCGA-A3-3307         TCGA-A3-3308 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-A3-3311         TCGA-A3-3313         TCGA-A3-3317 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-A3-3319         TCGA-A3-3320         TCGA-A3-3322 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-A3-3323         TCGA-A3-3324         TCGA-A3-3325 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-A3-3326         TCGA-A3-3331         TCGA-A3-3335 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-A3-3336         TCGA-A3-3343         TCGA-A3-3346 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-A3-3347         TCGA-A3-3349         TCGA-A3-3351 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-A3-3352         TCGA-A3-3359         TCGA-A3-3362 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-A3-3363         TCGA-A3-3365         TCGA-A3-3372 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-A3-3374         TCGA-A3-3378         TCGA-A3-3380 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-A3-3382         TCGA-A3-3383         TCGA-AK-3426 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-AK-3427         TCGA-AK-3440         TCGA-AK-3443 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-AK-3444         TCGA-AK-3447         TCGA-AK-3453 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-AK-3455         TCGA-AK-3456         TCGA-AS-3777 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-AS-3778         TCGA-B2-3923         TCGA-B2-3924 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-B2-4098         TCGA-B2-4099         TCGA-B2-4102 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-B8-4143         TCGA-B8-4148         TCGA-B8-4151 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-B8-4154         TCGA-B8-4619         TCGA-B8-4620 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-BP-4161         TCGA-BP-4162         TCGA-BP-4163 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-BP-4164         TCGA-BP-4167         TCGA-CJ-4634 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-CJ-4636         TCGA-CJ-4637         TCGA-CJ-4638 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-CJ-4639         TCGA-CJ-4640         TCGA-CJ-4641 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-CJ-4643         TCGA-CJ-4644 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  11P LOSS MUTATED        0      1      0      0      0      0      1
  11P LOSS WILD-TYPE     11     11      4     11     13      9      9
D60V2, multiclass
[1] "Remove cluster labels:" "11P LOSS MUTATED"      
clus
  11P LOSS MUTATED 11P LOSS WILD-TYPE 
                 2                 68 
        TCGA-A3-3306         TCGA-A3-3307         TCGA-A3-3308 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-A3-3311         TCGA-A3-3313         TCGA-A3-3317 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-A3-3319         TCGA-A3-3320         TCGA-A3-3322 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-A3-3323         TCGA-A3-3324         TCGA-A3-3325 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-A3-3326         TCGA-A3-3331         TCGA-A3-3335 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-A3-3336         TCGA-A3-3343         TCGA-A3-3346 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-A3-3347         TCGA-A3-3349         TCGA-A3-3351 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-A3-3352         TCGA-A3-3359         TCGA-A3-3362 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-A3-3363         TCGA-A3-3365         TCGA-A3-3372 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-A3-3374         TCGA-A3-3378         TCGA-A3-3380 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-A3-3382         TCGA-A3-3383         TCGA-AK-3426 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-AK-3427         TCGA-AK-3440         TCGA-AK-3443 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-AK-3444         TCGA-AK-3447         TCGA-AK-3453 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-AK-3455         TCGA-AK-3456         TCGA-AS-3777 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-AS-3778         TCGA-B2-3923         TCGA-B2-3924 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-B2-4098         TCGA-B2-4099         TCGA-B2-4102 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-B8-4143         TCGA-B8-4148         TCGA-B8-4151 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-B8-4154         TCGA-B8-4619         TCGA-B8-4620 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-BP-4161         TCGA-BP-4162         TCGA-BP-4163 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-BP-4164         TCGA-BP-4167         TCGA-CJ-4634 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-CJ-4636         TCGA-CJ-4637         TCGA-CJ-4638 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-CJ-4639         TCGA-CJ-4640         TCGA-CJ-4641 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
        TCGA-CJ-4643         TCGA-CJ-4644 
"11P LOSS WILD-TYPE" "11P LOSS WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  11P LOSS MUTATED        1      3      9      1      2      2
  11P LOSS WILD-TYPE     60     77    147     81     78     67
D60V3, multiclass
        clus
vv       11P LOSS MUTATED 11P LOSS WILD-TYPE
  CLUS_1                1                 60
  CLUS_2                3                 77
  CLUS_3                9                147
  CLUS_4                1                 81
  CLUS_5                2                 78
  CLUS_6                2                 67
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  11P LOSS MUTATED        2      2      7      1
  11P LOSS WILD-TYPE     65     68     89     80
D60V4, multiclass
        clus
vv       11P LOSS MUTATED 11P LOSS WILD-TYPE
  CLUS_1                2                 65
  CLUS_2                2                 68
  CLUS_3                7                 89
  CLUS_4                1                 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 CLUS_5 CLUS_6
  11P LOSS MUTATED        2      2      7      2      3      1
  11P LOSS WILD-TYPE     86     84     83     80     89     32
D60V5, multiclass
        clus
vv       11P LOSS MUTATED 11P LOSS WILD-TYPE
  CLUS_1                2                 86
  CLUS_2                2                 84
  CLUS_3                7                 83
  CLUS_4                2                 80
  CLUS_5                3                 89
  CLUS_6                1                 32
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  11P LOSS MUTATED        2      7      5      3
  11P LOSS WILD-TYPE    133    105     80    136
D60V6, multiclass
        clus
vv       11P LOSS MUTATED 11P LOSS WILD-TYPE
  CLUS_1                2                133
  CLUS_2                7                105
  CLUS_3                5                 80
  CLUS_4                3                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 CLUS_4 CLUS_5
  11P LOSS MUTATED        6      3      1      8      0
  11P LOSS WILD-TYPE     75    167     80    145     40
D60V7, multiclass
        clus
vv       11P LOSS MUTATED 11P LOSS WILD-TYPE
  CLUS_1                6                 75
  CLUS_2                3                167
  CLUS_3                1                 80
  CLUS_4                8                145
  CLUS_5                0                 40
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- 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        3      1      2     11      1      0
  11P LOSS WILD-TYPE    114     32    181    121     34     25
D60V8, multiclass
        clus
vv       11P LOSS MUTATED 11P LOSS WILD-TYPE
  CLUS_1                3                114
  CLUS_2                1                 32
  CLUS_3                2                181
  CLUS_4               11                121
  CLUS_5                1                 34
  CLUS_6                0                 25
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  11P LOSS MUTATED        5      0      4      7      2
  11P LOSS WILD-TYPE     86     57    182    112     55
D60V9, multiclass
        clus
vv       11P LOSS MUTATED 11P LOSS WILD-TYPE
  CLUS_1                5                 86
  CLUS_2                0                 57
  CLUS_3                4                182
  CLUS_4                7                112
  CLUS_5                2                 55
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  11P LOSS MUTATED       11      3      4
  11P LOSS WILD-TYPE    162    206    124
D60V10, multiclass
        clus
vv       11P LOSS MUTATED 11P LOSS WILD-TYPE
  CLUS_1               11                162
  CLUS_2                3                206
  CLUS_3                4                124
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  11P LOSS MUTATED        1      1      0      2
  11P LOSS WILD-TYPE     38     20     44     36
D60V11, multiclass
        clus
vv       11P LOSS MUTATED 11P LOSS WILD-TYPE
  CLUS_1                1                 38
  CLUS_2                1                 20
  CLUS_3                0                 44
  CLUS_4                2                 36
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  11P LOSS MUTATED        1      3      0      0
  11P LOSS WILD-TYPE     39     49     28     22
D60V12, multiclass
        clus
vv       11P LOSS MUTATED 11P LOSS WILD-TYPE
  CLUS_1                1                 39
  CLUS_2                3                 49
  CLUS_3                0                 28
  CLUS_4                0                 22
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(61) Variable = 11Q LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  11Q LOSS MUTATED        0      2      1
  11Q LOSS WILD-TYPE     31     23     13
D61V1, multiclass
        clus
vv       11Q LOSS MUTATED 11Q LOSS WILD-TYPE
  CLUS_1                0                 31
  CLUS_2                2                 23
  CLUS_3                1                 13
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  11Q LOSS MUTATED        0      2      0      0      0      0      1
  11Q LOSS WILD-TYPE     11     10      4     11     13      9      9
D61V2, multiclass
        clus
vv       11Q LOSS MUTATED 11Q LOSS WILD-TYPE
  CLUS_1                0                 11
  CLUS_2                2                 10
  CLUS_3                0                  4
  CLUS_4                0                 11
  CLUS_5                0                 13
  CLUS_6                0                  9
  CLUS_7                1                  9
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  11Q LOSS MUTATED        1      3     14      1      2      2
  11Q LOSS WILD-TYPE     60     77    142     81     78     67
D61V3, multiclass
        clus
vv       11Q LOSS MUTATED 11Q LOSS WILD-TYPE
  CLUS_1                1                 60
  CLUS_2                3                 77
  CLUS_3               14                142
  CLUS_4                1                 81
  CLUS_5                2                 78
  CLUS_6                2                 67
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  11Q LOSS MUTATED        2      4      8      1
  11Q LOSS WILD-TYPE     65     66     88     80
D61V4, multiclass
        clus
vv       11Q LOSS MUTATED 11Q LOSS WILD-TYPE
  CLUS_1                2                 65
  CLUS_2                4                 66
  CLUS_3                8                 88
  CLUS_4                1                 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 CLUS_5 CLUS_6
  11Q LOSS MUTATED        3      2      9      2      3      2
  11Q LOSS WILD-TYPE     85     84     81     80     89     31
D61V5, multiclass
        clus
vv       11Q LOSS MUTATED 11Q LOSS WILD-TYPE
  CLUS_1                3                 85
  CLUS_2                2                 84
  CLUS_3                9                 81
  CLUS_4                2                 80
  CLUS_5                3                 89
  CLUS_6                2                 31
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  11Q LOSS MUTATED        2     10      6      3
  11Q LOSS WILD-TYPE    133    102     79    136
D61V6, multiclass
        clus
vv       11Q LOSS MUTATED 11Q LOSS WILD-TYPE
  CLUS_1                2                133
  CLUS_2               10                102
  CLUS_3                6                 79
  CLUS_4                3                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 CLUS_4 CLUS_5
  11Q LOSS MUTATED        6      3      1     13      0
  11Q LOSS WILD-TYPE     75    167     80    140     40
D61V7, multiclass
        clus
vv       11Q LOSS MUTATED 11Q LOSS WILD-TYPE
  CLUS_1                6                 75
  CLUS_2                3                167
  CLUS_3                1                 80
  CLUS_4               13                140
  CLUS_5                0                 40
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  11Q LOSS MUTATED        3      1      2     16      1      0
  11Q LOSS WILD-TYPE    114     32    181    116     34     25
D61V8, multiclass
        clus
vv       11Q LOSS MUTATED 11Q LOSS WILD-TYPE
  CLUS_1                3                114
  CLUS_2                1                 32
  CLUS_3                2                181
  CLUS_4               16                116
  CLUS_5                1                 34
  CLUS_6                0                 25
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  11Q LOSS MUTATED        7      0      4     10      2
  11Q LOSS WILD-TYPE     84     57    182    109     55
D61V9, multiclass
        clus
vv       11Q LOSS MUTATED 11Q LOSS WILD-TYPE
  CLUS_1                7                 84
  CLUS_2                0                 57
  CLUS_3                4                182
  CLUS_4               10                109
  CLUS_5                2                 55
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  11Q LOSS MUTATED       13      3      7
  11Q LOSS WILD-TYPE    160    206    121
D61V10, multiclass
        clus
vv       11Q LOSS MUTATED 11Q LOSS WILD-TYPE
  CLUS_1               13                160
  CLUS_2                3                206
  CLUS_3                7                121
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  11Q LOSS MUTATED        1      1      0      2
  11Q LOSS WILD-TYPE     38     20     44     36
D61V11, multiclass
        clus
vv       11Q LOSS MUTATED 11Q LOSS WILD-TYPE
  CLUS_1                1                 38
  CLUS_2                1                 20
  CLUS_3                0                 44
  CLUS_4                2                 36
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  11Q LOSS MUTATED        1      3      0      0
  11Q LOSS WILD-TYPE     39     49     28     22
D61V12, multiclass
        clus
vv       11Q LOSS MUTATED 11Q LOSS WILD-TYPE
  CLUS_1                1                 39
  CLUS_2                3                 49
  CLUS_3                0                 28
  CLUS_4                0                 22
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(62) Variable = 12P LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  12P LOSS MUTATED        0      0      0
  12P LOSS WILD-TYPE     31     25     14
D62V1, multiclass
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  12P LOSS MUTATED        0      0      0      0      0      0      0
  12P LOSS WILD-TYPE     11     12      4     11     13      9     10
D62V2, multiclass
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  12P LOSS MUTATED        0      0      0      0      1      3
  12P LOSS WILD-TYPE     61     80    156     82     79     66
D62V3, multiclass
        clus
vv       12P LOSS MUTATED 12P LOSS WILD-TYPE
  CLUS_1                0                 61
  CLUS_2                0                 80
  CLUS_3                0                156
  CLUS_4                0                 82
  CLUS_5                1                 79
  CLUS_6                3                 66
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  12P LOSS MUTATED        0      0      0      2
  12P LOSS WILD-TYPE     67     70     96     79
D62V4, multiclass
[1] "Remove cluster labels:" "12P LOSS MUTATED"      
clus
  12P LOSS MUTATED 12P LOSS WILD-TYPE 
                 2                312 
        TCGA-3Z-A93Z         TCGA-6D-AA2E         TCGA-A3-3357 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-A3-3358         TCGA-A3-3367         TCGA-A3-3370 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-A3-3373         TCGA-A3-3376         TCGA-A3-3385 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-A3-3387         TCGA-A3-A6NI         TCGA-A3-A6NJ 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-A3-A6NL         TCGA-A3-A6NN         TCGA-A3-A8CQ 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-A3-A8OU         TCGA-A3-A8OV         TCGA-A3-A8OW 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-A3-A8OX         TCGA-AK-3425         TCGA-AK-3428 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-AK-3431         TCGA-AK-3433         TCGA-AK-3434 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-AK-3440         TCGA-AK-3445         TCGA-AK-3450 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-AK-3453         TCGA-AK-3454         TCGA-AK-3458 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-AK-3460         TCGA-AK-3461         TCGA-B0-4688 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B0-4690         TCGA-B0-4691         TCGA-B0-4693 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B0-4694         TCGA-B0-4696         TCGA-B0-4697 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B0-4698         TCGA-B0-4699         TCGA-B0-4700 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B0-4701         TCGA-B0-4703         TCGA-B0-4706 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B0-4707         TCGA-B0-4710         TCGA-B0-4712 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B0-4713         TCGA-B0-4714         TCGA-B0-4718 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B0-4810         TCGA-B0-4811         TCGA-B0-4813 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B0-4814         TCGA-B0-4815         TCGA-B0-4816 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B0-4817         TCGA-B0-4818         TCGA-B0-4819 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B0-4821         TCGA-B0-4822         TCGA-B0-4823 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B0-4824         TCGA-B0-4827         TCGA-B0-4828 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B0-4841         TCGA-B0-4842         TCGA-B0-4843 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B0-4844         TCGA-B0-4845         TCGA-B0-4846 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B0-4847         TCGA-B0-4848         TCGA-B0-4849 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B0-4852         TCGA-B0-4945         TCGA-B0-5080 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B0-5092         TCGA-B0-5094         TCGA-B0-5095 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B0-5096         TCGA-B0-5097         TCGA-B0-5098 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B0-5099         TCGA-B0-5100         TCGA-B0-5102 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B0-5104         TCGA-B0-5106         TCGA-B0-5107 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B0-5108         TCGA-B0-5109         TCGA-B0-5110 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B0-5113         TCGA-B0-5115         TCGA-B0-5116 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B0-5117         TCGA-B0-5119         TCGA-B0-5120 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B0-5121         TCGA-B0-5399         TCGA-B0-5400 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B0-5402         TCGA-B0-5690         TCGA-B0-5691 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B0-5692         TCGA-B0-5693         TCGA-B0-5694 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B0-5695         TCGA-B0-5696         TCGA-B0-5697 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B0-5698         TCGA-B0-5699         TCGA-B0-5701 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B0-5702         TCGA-B0-5703         TCGA-B0-5705 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B0-5706         TCGA-B0-5709         TCGA-B0-5710 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B0-5711         TCGA-B0-5712         TCGA-B0-5713 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B0-5812         TCGA-B2-3924         TCGA-B2-4101 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B2-5633         TCGA-B2-5635         TCGA-B2-5639 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B2-5641         TCGA-B2-A4SR         TCGA-B4-5377 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B4-5378         TCGA-B4-5832         TCGA-B4-5834 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B4-5835         TCGA-B4-5836         TCGA-B4-5838 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B4-5843         TCGA-B4-5844         TCGA-B8-4146 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B8-4153         TCGA-B8-4621         TCGA-B8-4622 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B8-5158         TCGA-B8-5159         TCGA-B8-5162 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B8-5163         TCGA-B8-5164         TCGA-B8-5165 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B8-5545         TCGA-B8-5546         TCGA-B8-5549 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B8-5550         TCGA-B8-5551         TCGA-B8-5552 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B8-5553         TCGA-B8-A54D         TCGA-B8-A54E 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B8-A54F         TCGA-B8-A54G         TCGA-B8-A54H 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B8-A54I         TCGA-B8-A54J         TCGA-B8-A54K 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B8-A7U6         TCGA-B8-A8YJ         TCGA-BP-4177 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BP-4760         TCGA-BP-4770         TCGA-BP-4782 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BP-4795         TCGA-BP-4801         TCGA-BP-4993 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BP-5010         TCGA-BP-5168         TCGA-BP-5169 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BP-5170         TCGA-BP-5173         TCGA-BP-5174 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BP-5175         TCGA-BP-5176         TCGA-BP-5177 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BP-5178         TCGA-BP-5180         TCGA-BP-5181 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BP-5182         TCGA-BP-5183         TCGA-BP-5184 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BP-5185         TCGA-BP-5186         TCGA-BP-5187 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BP-5189         TCGA-BP-5190         TCGA-BP-5191 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BP-5192         TCGA-BP-5194         TCGA-BP-5195 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BP-5196         TCGA-BP-5198         TCGA-BP-5199 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BP-5200         TCGA-BP-5201         TCGA-BP-5202 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CJ-4869         TCGA-CJ-4882         TCGA-CJ-4897 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CJ-4901         TCGA-CJ-4902         TCGA-CJ-4903 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CJ-4904         TCGA-CJ-4905         TCGA-CJ-4907 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CJ-4908         TCGA-CJ-4912         TCGA-CJ-4913 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CJ-4916         TCGA-CJ-4918         TCGA-CJ-4920 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CJ-4923         TCGA-CJ-5671         TCGA-CJ-5672 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CJ-5675         TCGA-CJ-5676         TCGA-CJ-5677 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CJ-5678         TCGA-CJ-5679         TCGA-CJ-5680 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CJ-5681         TCGA-CJ-5682         TCGA-CJ-5683 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CJ-5684         TCGA-CJ-5686         TCGA-CJ-5689 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CJ-6027         TCGA-CJ-6028         TCGA-CJ-6030 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CJ-6031         TCGA-CJ-6032         TCGA-CJ-6033 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CW-5580         TCGA-CW-5581         TCGA-CW-5583 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CW-5584         TCGA-CW-5585         TCGA-CW-5587 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CW-5588         TCGA-CW-5589         TCGA-CW-5591 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CW-6087         TCGA-CW-6088         TCGA-CW-6090 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CW-6093         TCGA-CW-6097         TCGA-CZ-4853 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CZ-4856         TCGA-CZ-4859         TCGA-CZ-4863 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CZ-4864         TCGA-CZ-4865         TCGA-CZ-4866 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CZ-5451         TCGA-CZ-5452         TCGA-CZ-5453 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CZ-5454         TCGA-CZ-5455         TCGA-CZ-5456 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CZ-5458         TCGA-CZ-5459         TCGA-CZ-5460 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CZ-5461         TCGA-CZ-5462         TCGA-CZ-5463 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CZ-5464         TCGA-CZ-5465         TCGA-CZ-5466 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CZ-5467         TCGA-CZ-5468         TCGA-CZ-5469 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CZ-5470         TCGA-CZ-5982         TCGA-CZ-5984 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CZ-5985         TCGA-CZ-5986         TCGA-CZ-5987 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CZ-5988         TCGA-CZ-5989         TCGA-DV-5565 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-DV-5566         TCGA-DV-5567         TCGA-DV-5568 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-DV-5569         TCGA-DV-5573         TCGA-DV-5574 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-DV-5575         TCGA-DV-5576         TCGA-DV-A4VX 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-DV-A4VZ         TCGA-DV-A4W0         TCGA-EU-5904 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-EU-5905         TCGA-EU-5906         TCGA-EU-5907 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-G6-A5PC         TCGA-G6-A8L6         TCGA-G6-A8L7 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-G6-A8L8         TCGA-GK-A6C7         TCGA-MM-A563 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-MM-A564         TCGA-MM-A84U         TCGA-MW-A4EC 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  12P LOSS MUTATED        1      0      0      0      0      1
  12P LOSS WILD-TYPE     87     86     90     82     92     32
D62V5, multiclass
[1] "Remove cluster labels:" "12P LOSS MUTATED"      
clus
  12P LOSS MUTATED 12P LOSS WILD-TYPE 
                 2                469 
        TCGA-3Z-A93Z         TCGA-6D-AA2E         TCGA-A3-3306 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-A3-3308         TCGA-A3-3311         TCGA-A3-3313 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-A3-3316         TCGA-A3-3317         TCGA-A3-3319 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-A3-3320         TCGA-A3-3322         TCGA-A3-3323 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-A3-3324         TCGA-A3-3326         TCGA-A3-3331 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-A3-3335         TCGA-A3-3336         TCGA-A3-3346 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-A3-3347         TCGA-A3-3349         TCGA-A3-3351 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-A3-3352         TCGA-A3-3357         TCGA-A3-3362 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-A3-3363         TCGA-A3-3365         TCGA-A3-3367 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-A3-3370         TCGA-A3-3372         TCGA-A3-3373 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-A3-3374         TCGA-A3-3376         TCGA-A3-3378 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-A3-3380         TCGA-A3-3382         TCGA-A3-3383 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-A3-3385         TCGA-A3-3387         TCGA-AK-3427 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-AK-3428         TCGA-AK-3434         TCGA-AK-3436 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-AK-3444         TCGA-AK-3451         TCGA-AK-3456 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B0-4688         TCGA-B0-4690         TCGA-B0-4691 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B0-4693         TCGA-B0-4694         TCGA-B0-4696 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B0-4697         TCGA-B0-4698         TCGA-B0-4699 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B0-4700         TCGA-B0-4701         TCGA-B0-4703 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B0-4706         TCGA-B0-4707         TCGA-B0-4710 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B0-4712         TCGA-B0-4713         TCGA-B0-4714 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B0-4718         TCGA-B0-4810         TCGA-B0-4811 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B0-4813         TCGA-B0-4814         TCGA-B0-4815 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B0-4816         TCGA-B0-4817         TCGA-B0-4818 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B0-4819         TCGA-B0-4821         TCGA-B0-4822 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B0-4823         TCGA-B0-4824         TCGA-B0-4827 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B0-4828         TCGA-B0-4833         TCGA-B0-4834 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B0-4836         TCGA-B0-4837         TCGA-B0-4838 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B0-4839         TCGA-B0-4841         TCGA-B0-4842 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B0-4843         TCGA-B0-4844         TCGA-B0-4845 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B0-4846         TCGA-B0-4847         TCGA-B0-4848 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B0-4849         TCGA-B0-4852         TCGA-B0-4945 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B0-5075         TCGA-B0-5077         TCGA-B0-5080 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B0-5081         TCGA-B0-5084         TCGA-B0-5085 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B0-5088         TCGA-B0-5092         TCGA-B0-5094 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B0-5095         TCGA-B0-5096         TCGA-B0-5097 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B0-5098         TCGA-B0-5099         TCGA-B0-5100 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B0-5102         TCGA-B0-5104         TCGA-B0-5106 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B0-5107         TCGA-B0-5108         TCGA-B0-5109 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B0-5110         TCGA-B0-5113         TCGA-B0-5115 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B0-5116         TCGA-B0-5117         TCGA-B0-5119 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B0-5120         TCGA-B0-5121         TCGA-B0-5399 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B0-5400         TCGA-B0-5402         TCGA-B0-5690 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B0-5691         TCGA-B0-5692         TCGA-B0-5693 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B0-5694         TCGA-B0-5695         TCGA-B0-5696 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B0-5697         TCGA-B0-5698         TCGA-B0-5699 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B0-5701         TCGA-B0-5702         TCGA-B0-5703 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B0-5705         TCGA-B0-5706         TCGA-B0-5709 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B0-5710         TCGA-B0-5711         TCGA-B0-5712 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B0-5713         TCGA-B0-5812         TCGA-B2-3923 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B2-3924         TCGA-B2-4098         TCGA-B2-4099 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B2-4101         TCGA-B2-4102         TCGA-B2-5633 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B2-5635         TCGA-B2-5639         TCGA-B2-5641 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B2-A4SR         TCGA-B4-5377         TCGA-B4-5378 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B4-5832         TCGA-B4-5834         TCGA-B4-5835 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B4-5836         TCGA-B4-5838         TCGA-B4-5843 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B4-5844         TCGA-B8-4143         TCGA-B8-4146 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B8-4153         TCGA-B8-4620         TCGA-B8-4621 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B8-4622         TCGA-B8-5158         TCGA-B8-5159 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B8-5162         TCGA-B8-5163         TCGA-B8-5164 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B8-5165         TCGA-B8-5545         TCGA-B8-5546 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B8-5549         TCGA-B8-5550         TCGA-B8-5551 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B8-5552         TCGA-B8-5553         TCGA-B8-A54D 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B8-A54E         TCGA-B8-A54F         TCGA-B8-A54G 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B8-A54H         TCGA-B8-A54I         TCGA-B8-A54J 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B8-A54K         TCGA-B8-A7U6         TCGA-B8-A8YJ 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BP-4158         TCGA-BP-4161         TCGA-BP-4164 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BP-4165         TCGA-BP-4169         TCGA-BP-4170 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BP-4173         TCGA-BP-4174         TCGA-BP-4325 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BP-4326         TCGA-BP-4327         TCGA-BP-4329 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BP-4330         TCGA-BP-4331         TCGA-BP-4332 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BP-4334         TCGA-BP-4335         TCGA-BP-4337 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BP-4338         TCGA-BP-4341         TCGA-BP-4342 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BP-4343         TCGA-BP-4344         TCGA-BP-4346 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BP-4347         TCGA-BP-4349         TCGA-BP-4351 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BP-4352         TCGA-BP-4353         TCGA-BP-4354 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BP-4355         TCGA-BP-4756         TCGA-BP-4758 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BP-4759         TCGA-BP-4760         TCGA-BP-4761 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BP-4762         TCGA-BP-4763         TCGA-BP-4765 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BP-4766         TCGA-BP-4768         TCGA-BP-4769 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BP-4770         TCGA-BP-4771         TCGA-BP-4774 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BP-4776         TCGA-BP-4777         TCGA-BP-4781 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BP-4784         TCGA-BP-4787         TCGA-BP-4789 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BP-4790         TCGA-BP-4797         TCGA-BP-4798 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BP-4799         TCGA-BP-4801         TCGA-BP-4803 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BP-4804         TCGA-BP-4807         TCGA-BP-4959 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BP-4960         TCGA-BP-4961         TCGA-BP-4962 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BP-4963         TCGA-BP-4964         TCGA-BP-4965 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BP-4967         TCGA-BP-4968         TCGA-BP-4969 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BP-4970         TCGA-BP-4971         TCGA-BP-4972 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BP-4973         TCGA-BP-4974         TCGA-BP-4975 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BP-4976         TCGA-BP-4977         TCGA-BP-4981 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BP-4982         TCGA-BP-4983         TCGA-BP-4985 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BP-4986         TCGA-BP-4987         TCGA-BP-4988 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BP-4989         TCGA-BP-4991         TCGA-BP-4992 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BP-4993         TCGA-BP-4994         TCGA-BP-4995 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BP-4998         TCGA-BP-4999         TCGA-BP-5000 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BP-5001         TCGA-BP-5004         TCGA-BP-5006 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BP-5007         TCGA-BP-5008         TCGA-BP-5009 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BP-5010         TCGA-BP-5168         TCGA-BP-5169 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BP-5170         TCGA-BP-5173         TCGA-BP-5174 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BP-5175         TCGA-BP-5176         TCGA-BP-5177 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BP-5178         TCGA-BP-5180         TCGA-BP-5181 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BP-5182         TCGA-BP-5183         TCGA-BP-5184 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BP-5185         TCGA-BP-5186         TCGA-BP-5187 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BP-5189         TCGA-BP-5190         TCGA-BP-5191 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BP-5192         TCGA-BP-5194         TCGA-BP-5195 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BP-5196         TCGA-BP-5198         TCGA-BP-5199 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BP-5200         TCGA-BP-5201         TCGA-BP-5202 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CJ-4634         TCGA-CJ-4635         TCGA-CJ-4638 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CJ-4640         TCGA-CJ-4642         TCGA-CJ-4868 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CJ-4869         TCGA-CJ-4870         TCGA-CJ-4871 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CJ-4872         TCGA-CJ-4873         TCGA-CJ-4874 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CJ-4875         TCGA-CJ-4876         TCGA-CJ-4878 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CJ-4881         TCGA-CJ-4882         TCGA-CJ-4884 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CJ-4885         TCGA-CJ-4886         TCGA-CJ-4887 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CJ-4888         TCGA-CJ-4889         TCGA-CJ-4890 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CJ-4891         TCGA-CJ-4892         TCGA-CJ-4893 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CJ-4894         TCGA-CJ-4895         TCGA-CJ-4897 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CJ-4899         TCGA-CJ-4900         TCGA-CJ-4901 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CJ-4902         TCGA-CJ-4903         TCGA-CJ-4904 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CJ-4905         TCGA-CJ-4907         TCGA-CJ-4908 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CJ-4912         TCGA-CJ-4913         TCGA-CJ-4916 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CJ-4918         TCGA-CJ-4920         TCGA-CJ-4923 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CJ-5671         TCGA-CJ-5672         TCGA-CJ-5675 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CJ-5676         TCGA-CJ-5677         TCGA-CJ-5678 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CJ-5679         TCGA-CJ-5680         TCGA-CJ-5681 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CJ-5682         TCGA-CJ-5683         TCGA-CJ-5684 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CJ-5686         TCGA-CJ-5689         TCGA-CJ-6027 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CJ-6028         TCGA-CJ-6030         TCGA-CJ-6031 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CJ-6032         TCGA-CJ-6033         TCGA-CW-5580 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CW-5581         TCGA-CW-5583         TCGA-CW-5584 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CW-5585         TCGA-CW-5587         TCGA-CW-5588 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CW-5589         TCGA-CW-5591         TCGA-CW-6087 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CW-6088         TCGA-CW-6090         TCGA-CW-6093 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CW-6097         TCGA-CZ-4853         TCGA-CZ-4854 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CZ-4856         TCGA-CZ-4857         TCGA-CZ-4858 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CZ-4859         TCGA-CZ-4860         TCGA-CZ-4861 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CZ-4862         TCGA-CZ-4863         TCGA-CZ-4864 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CZ-4865         TCGA-CZ-4866         TCGA-CZ-5451 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CZ-5452         TCGA-CZ-5453         TCGA-CZ-5454 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CZ-5455         TCGA-CZ-5456         TCGA-CZ-5458 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CZ-5459         TCGA-CZ-5460         TCGA-CZ-5461 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CZ-5462         TCGA-CZ-5463         TCGA-CZ-5464 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CZ-5465         TCGA-CZ-5466         TCGA-CZ-5467 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CZ-5468         TCGA-CZ-5469         TCGA-CZ-5470 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CZ-5982         TCGA-CZ-5984         TCGA-CZ-5985 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CZ-5986         TCGA-CZ-5987         TCGA-CZ-5988 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CZ-5989         TCGA-DV-5565         TCGA-DV-5566 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-DV-5567         TCGA-DV-5568         TCGA-DV-5569 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-DV-5573         TCGA-DV-5574         TCGA-DV-5575 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-DV-5576         TCGA-DV-A4VX         TCGA-DV-A4VZ 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-DV-A4W0         TCGA-EU-5904         TCGA-EU-5905 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-EU-5906         TCGA-EU-5907         TCGA-G6-A5PC 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-G6-A8L6         TCGA-G6-A8L7         TCGA-G6-A8L8 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-GK-A6C7         TCGA-MM-A563         TCGA-MM-A564 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-MW-A4EC 
"12P LOSS WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  12P LOSS MUTATED        1      0      0      1
  12P LOSS WILD-TYPE    134    112     85    138
D62V6, multiclass
[1] "Remove cluster labels:" "12P LOSS MUTATED"      
clus
  12P LOSS MUTATED 12P LOSS WILD-TYPE 
                 2                469 
        TCGA-3Z-A93Z         TCGA-6D-AA2E         TCGA-A3-3306 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-A3-3308         TCGA-A3-3311         TCGA-A3-3313 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-A3-3316         TCGA-A3-3317         TCGA-A3-3319 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-A3-3320         TCGA-A3-3322         TCGA-A3-3323 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-A3-3324         TCGA-A3-3326         TCGA-A3-3331 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-A3-3335         TCGA-A3-3336         TCGA-A3-3346 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-A3-3347         TCGA-A3-3349         TCGA-A3-3351 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-A3-3352         TCGA-A3-3357         TCGA-A3-3362 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-A3-3363         TCGA-A3-3365         TCGA-A3-3367 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-A3-3370         TCGA-A3-3372         TCGA-A3-3373 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-A3-3374         TCGA-A3-3376         TCGA-A3-3378 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-A3-3380         TCGA-A3-3382         TCGA-A3-3383 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-A3-3385         TCGA-A3-3387         TCGA-AK-3427 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-AK-3428         TCGA-AK-3434         TCGA-AK-3436 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-AK-3444         TCGA-AK-3451         TCGA-AK-3456 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B0-4688         TCGA-B0-4690         TCGA-B0-4691 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B0-4693         TCGA-B0-4694         TCGA-B0-4696 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B0-4697         TCGA-B0-4698         TCGA-B0-4699 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B0-4700         TCGA-B0-4701         TCGA-B0-4703 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B0-4706         TCGA-B0-4707         TCGA-B0-4710 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B0-4712         TCGA-B0-4713         TCGA-B0-4714 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B0-4718         TCGA-B0-4810         TCGA-B0-4811 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B0-4813         TCGA-B0-4814         TCGA-B0-4815 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B0-4816         TCGA-B0-4817         TCGA-B0-4818 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B0-4819         TCGA-B0-4821         TCGA-B0-4822 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B0-4823         TCGA-B0-4824         TCGA-B0-4827 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B0-4828         TCGA-B0-4833         TCGA-B0-4834 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B0-4836         TCGA-B0-4837         TCGA-B0-4838 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B0-4839         TCGA-B0-4841         TCGA-B0-4842 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B0-4843         TCGA-B0-4844         TCGA-B0-4845 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B0-4846         TCGA-B0-4847         TCGA-B0-4848 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B0-4849         TCGA-B0-4852         TCGA-B0-4945 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B0-5075         TCGA-B0-5077         TCGA-B0-5080 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B0-5081         TCGA-B0-5084         TCGA-B0-5085 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B0-5088         TCGA-B0-5092         TCGA-B0-5094 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B0-5095         TCGA-B0-5096         TCGA-B0-5097 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B0-5098         TCGA-B0-5099         TCGA-B0-5100 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B0-5102         TCGA-B0-5104         TCGA-B0-5106 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B0-5107         TCGA-B0-5108         TCGA-B0-5109 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B0-5110         TCGA-B0-5113         TCGA-B0-5115 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B0-5116         TCGA-B0-5117         TCGA-B0-5119 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B0-5120         TCGA-B0-5121         TCGA-B0-5399 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B0-5400         TCGA-B0-5402         TCGA-B0-5690 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B0-5691         TCGA-B0-5692         TCGA-B0-5693 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B0-5694         TCGA-B0-5695         TCGA-B0-5696 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B0-5697         TCGA-B0-5698         TCGA-B0-5699 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B0-5701         TCGA-B0-5702         TCGA-B0-5703 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B0-5705         TCGA-B0-5706         TCGA-B0-5709 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B0-5710         TCGA-B0-5711         TCGA-B0-5712 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B0-5713         TCGA-B0-5812         TCGA-B2-3923 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B2-3924         TCGA-B2-4098         TCGA-B2-4099 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B2-4101         TCGA-B2-4102         TCGA-B2-5633 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B2-5635         TCGA-B2-5639         TCGA-B2-5641 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B2-A4SR         TCGA-B4-5377         TCGA-B4-5378 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B4-5832         TCGA-B4-5834         TCGA-B4-5835 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B4-5836         TCGA-B4-5838         TCGA-B4-5843 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B4-5844         TCGA-B8-4143         TCGA-B8-4146 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B8-4153         TCGA-B8-4620         TCGA-B8-4621 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B8-4622         TCGA-B8-5158         TCGA-B8-5159 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B8-5162         TCGA-B8-5163         TCGA-B8-5164 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B8-5165         TCGA-B8-5545         TCGA-B8-5546 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B8-5549         TCGA-B8-5550         TCGA-B8-5551 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B8-5552         TCGA-B8-5553         TCGA-B8-A54D 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B8-A54E         TCGA-B8-A54F         TCGA-B8-A54G 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B8-A54H         TCGA-B8-A54I         TCGA-B8-A54J 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B8-A54K         TCGA-B8-A7U6         TCGA-B8-A8YJ 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BP-4158         TCGA-BP-4161         TCGA-BP-4164 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BP-4165         TCGA-BP-4169         TCGA-BP-4170 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BP-4173         TCGA-BP-4174         TCGA-BP-4325 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BP-4326         TCGA-BP-4327         TCGA-BP-4329 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BP-4330         TCGA-BP-4331         TCGA-BP-4332 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BP-4334         TCGA-BP-4335         TCGA-BP-4337 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BP-4338         TCGA-BP-4341         TCGA-BP-4342 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BP-4343         TCGA-BP-4344         TCGA-BP-4346 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BP-4347         TCGA-BP-4349         TCGA-BP-4351 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BP-4352         TCGA-BP-4353         TCGA-BP-4354 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BP-4355         TCGA-BP-4756         TCGA-BP-4758 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BP-4759         TCGA-BP-4760         TCGA-BP-4761 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BP-4762         TCGA-BP-4763         TCGA-BP-4765 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BP-4766         TCGA-BP-4768         TCGA-BP-4769 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BP-4770         TCGA-BP-4771         TCGA-BP-4774 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BP-4776         TCGA-BP-4777         TCGA-BP-4781 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BP-4784         TCGA-BP-4787         TCGA-BP-4789 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BP-4790         TCGA-BP-4797         TCGA-BP-4798 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BP-4799         TCGA-BP-4801         TCGA-BP-4803 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BP-4804         TCGA-BP-4807         TCGA-BP-4959 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BP-4960         TCGA-BP-4961         TCGA-BP-4962 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BP-4963         TCGA-BP-4964         TCGA-BP-4965 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BP-4967         TCGA-BP-4968         TCGA-BP-4969 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BP-4970         TCGA-BP-4971         TCGA-BP-4972 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BP-4973         TCGA-BP-4974         TCGA-BP-4975 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BP-4976         TCGA-BP-4977         TCGA-BP-4981 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BP-4982         TCGA-BP-4983         TCGA-BP-4985 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BP-4986         TCGA-BP-4987         TCGA-BP-4988 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BP-4989         TCGA-BP-4991         TCGA-BP-4992 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BP-4993         TCGA-BP-4994         TCGA-BP-4995 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BP-4998         TCGA-BP-4999         TCGA-BP-5000 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BP-5001         TCGA-BP-5004         TCGA-BP-5006 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BP-5007         TCGA-BP-5008         TCGA-BP-5009 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BP-5010         TCGA-BP-5168         TCGA-BP-5169 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BP-5170         TCGA-BP-5173         TCGA-BP-5174 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BP-5175         TCGA-BP-5176         TCGA-BP-5177 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BP-5178         TCGA-BP-5180         TCGA-BP-5181 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BP-5182         TCGA-BP-5183         TCGA-BP-5184 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BP-5185         TCGA-BP-5186         TCGA-BP-5187 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BP-5189         TCGA-BP-5190         TCGA-BP-5191 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BP-5192         TCGA-BP-5194         TCGA-BP-5195 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BP-5196         TCGA-BP-5198         TCGA-BP-5199 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BP-5200         TCGA-BP-5201         TCGA-BP-5202 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CJ-4634         TCGA-CJ-4635         TCGA-CJ-4638 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CJ-4640         TCGA-CJ-4642         TCGA-CJ-4868 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CJ-4869         TCGA-CJ-4870         TCGA-CJ-4871 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CJ-4872         TCGA-CJ-4873         TCGA-CJ-4874 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CJ-4875         TCGA-CJ-4876         TCGA-CJ-4878 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CJ-4881         TCGA-CJ-4882         TCGA-CJ-4884 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CJ-4885         TCGA-CJ-4886         TCGA-CJ-4887 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CJ-4888         TCGA-CJ-4889         TCGA-CJ-4890 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CJ-4891         TCGA-CJ-4892         TCGA-CJ-4893 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CJ-4894         TCGA-CJ-4895         TCGA-CJ-4897 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CJ-4899         TCGA-CJ-4900         TCGA-CJ-4901 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CJ-4902         TCGA-CJ-4903         TCGA-CJ-4904 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CJ-4905         TCGA-CJ-4907         TCGA-CJ-4908 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CJ-4912         TCGA-CJ-4913         TCGA-CJ-4916 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CJ-4918         TCGA-CJ-4920         TCGA-CJ-4923 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CJ-5671         TCGA-CJ-5672         TCGA-CJ-5675 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CJ-5676         TCGA-CJ-5677         TCGA-CJ-5678 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CJ-5679         TCGA-CJ-5680         TCGA-CJ-5681 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CJ-5682         TCGA-CJ-5683         TCGA-CJ-5684 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CJ-5686         TCGA-CJ-5689         TCGA-CJ-6027 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CJ-6028         TCGA-CJ-6030         TCGA-CJ-6031 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CJ-6032         TCGA-CJ-6033         TCGA-CW-5580 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CW-5581         TCGA-CW-5583         TCGA-CW-5584 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CW-5585         TCGA-CW-5587         TCGA-CW-5588 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CW-5589         TCGA-CW-5591         TCGA-CW-6087 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CW-6088         TCGA-CW-6090         TCGA-CW-6093 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CW-6097         TCGA-CZ-4853         TCGA-CZ-4854 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CZ-4856         TCGA-CZ-4857         TCGA-CZ-4858 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CZ-4859         TCGA-CZ-4860         TCGA-CZ-4861 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CZ-4862         TCGA-CZ-4863         TCGA-CZ-4864 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CZ-4865         TCGA-CZ-4866         TCGA-CZ-5451 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CZ-5452         TCGA-CZ-5453         TCGA-CZ-5454 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CZ-5455         TCGA-CZ-5456         TCGA-CZ-5458 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CZ-5459         TCGA-CZ-5460         TCGA-CZ-5461 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CZ-5462         TCGA-CZ-5463         TCGA-CZ-5464 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CZ-5465         TCGA-CZ-5466         TCGA-CZ-5467 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CZ-5468         TCGA-CZ-5469         TCGA-CZ-5470 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CZ-5982         TCGA-CZ-5984         TCGA-CZ-5985 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CZ-5986         TCGA-CZ-5987         TCGA-CZ-5988 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CZ-5989         TCGA-DV-5565         TCGA-DV-5566 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-DV-5567         TCGA-DV-5568         TCGA-DV-5569 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-DV-5573         TCGA-DV-5574         TCGA-DV-5575 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-DV-5576         TCGA-DV-A4VX         TCGA-DV-A4VZ 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-DV-A4W0         TCGA-EU-5904         TCGA-EU-5905 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-EU-5906         TCGA-EU-5907         TCGA-G6-A5PC 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-G6-A8L6         TCGA-G6-A8L7         TCGA-G6-A8L8 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-GK-A6C7         TCGA-MM-A563         TCGA-MM-A564 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-MW-A4EC 
"12P LOSS WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  12P LOSS MUTATED        1      2      1      0      0
  12P LOSS WILD-TYPE     80    168     80    153     40
D62V7, multiclass
        clus
vv       12P LOSS MUTATED 12P LOSS WILD-TYPE
  CLUS_1                1                 80
  CLUS_2                2                168
  CLUS_3                1                 80
  CLUS_4                0                153
  CLUS_5                0                 40
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- 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        1      1      2      0      0      0
  12P LOSS WILD-TYPE    116     32    181    132     35     25
D62V8, multiclass
        clus
vv       12P LOSS MUTATED 12P LOSS WILD-TYPE
  CLUS_1                1                116
  CLUS_2                1                 32
  CLUS_3                2                181
  CLUS_4                0                132
  CLUS_5                0                 35
  CLUS_6                0                 25
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  12P LOSS MUTATED        0      0      3      0      1
  12P LOSS WILD-TYPE     91     57    183    119     56
D62V9, multiclass
        clus
vv       12P LOSS MUTATED 12P LOSS WILD-TYPE
  CLUS_1                0                 91
  CLUS_2                0                 57
  CLUS_3                3                183
  CLUS_4                0                119
  CLUS_5                1                 56
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  12P LOSS MUTATED        0      4      0
  12P LOSS WILD-TYPE    173    205    128
D62V10, multiclass
        clus
vv       12P LOSS MUTATED 12P LOSS WILD-TYPE
  CLUS_1                0                173
  CLUS_2                4                205
  CLUS_3                0                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
  12P LOSS MUTATED        1      0      1      0
  12P LOSS WILD-TYPE     38     21     43     38
D62V11, multiclass
[1] "Remove cluster labels:" "12P LOSS MUTATED"      
clus
  12P LOSS MUTATED 12P LOSS WILD-TYPE 
                 2                140 
        TCGA-3Z-A93Z         TCGA-6D-AA2E         TCGA-A3-3317 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-A3-3358         TCGA-A3-3387         TCGA-A3-A6NI 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-A3-A6NJ         TCGA-A3-A6NL         TCGA-A3-A8CQ 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-A3-A8OU         TCGA-A3-A8OV         TCGA-A3-A8OW 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-A3-A8OX         TCGA-AK-3440         TCGA-AK-3458 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-AK-3465         TCGA-B0-4698         TCGA-B0-4700 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B0-4706         TCGA-B0-4710         TCGA-B0-4712 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B0-4810         TCGA-B0-4811         TCGA-B0-4821 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B0-4836         TCGA-B0-4837         TCGA-B0-4852 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B0-5080         TCGA-B0-5085         TCGA-B0-5088 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B0-5399         TCGA-B0-5691         TCGA-B0-5692 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B0-5693         TCGA-B0-5694         TCGA-B0-5695 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B0-5696         TCGA-B0-5699         TCGA-B0-5702 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B0-5705         TCGA-B0-5709         TCGA-B2-3923 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B2-3924         TCGA-B2-5633         TCGA-B2-5635 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B2-5639         TCGA-B4-5377         TCGA-B4-5836 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B8-4621         TCGA-B8-5545         TCGA-B8-5550 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B8-5551         TCGA-B8-5552         TCGA-B8-5553 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B8-A54H         TCGA-B8-A54I         TCGA-B8-A54J 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B8-A54K         TCGA-B8-A7U6         TCGA-B8-A8YJ 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BP-4173         TCGA-BP-4340         TCGA-BP-4761 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BP-4770         TCGA-BP-4787         TCGA-BP-4789 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BP-4790         TCGA-BP-4804         TCGA-BP-4807 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BP-4959         TCGA-BP-4961         TCGA-BP-4967 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BP-4968         TCGA-BP-4969         TCGA-BP-4970 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BP-4974         TCGA-BP-4976         TCGA-BP-4981 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BP-4982         TCGA-BP-4985         TCGA-BP-4988 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BP-4989         TCGA-BP-4992         TCGA-BP-4995 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BP-4998         TCGA-BP-5001         TCGA-BP-5008 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BP-5009         TCGA-CJ-4870         TCGA-CJ-4875 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CJ-4876         TCGA-CJ-4878         TCGA-CJ-4881 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CJ-4887         TCGA-CJ-4889         TCGA-CJ-4890 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CJ-4895         TCGA-CJ-4900         TCGA-CJ-5671 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CJ-5675         TCGA-CJ-5676         TCGA-CJ-5681 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CJ-5683         TCGA-CJ-5686         TCGA-CJ-6031 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CJ-6032         TCGA-CW-5585         TCGA-CW-5589 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CW-6087         TCGA-CW-6088         TCGA-CZ-4854 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CZ-4857         TCGA-CZ-4858         TCGA-CZ-4860 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CZ-4864         TCGA-CZ-5453         TCGA-CZ-5454 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CZ-5455         TCGA-CZ-5459         TCGA-CZ-5462 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CZ-5463         TCGA-CZ-5464         TCGA-CZ-5466 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CZ-5467         TCGA-CZ-5469         TCGA-CZ-5470 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CZ-5989         TCGA-DV-5565         TCGA-DV-5566 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-DV-5569         TCGA-DV-5573         TCGA-EU-5904 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-G6-A5PC         TCGA-G6-A8L6         TCGA-G6-A8L7 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-G6-A8L8         TCGA-GK-A6C7         TCGA-MM-A563 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-MM-A564         TCGA-MM-A84U 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  12P LOSS MUTATED        1      0      1      0
  12P LOSS WILD-TYPE     39     52     27     22
D62V12, multiclass
[1] "Remove cluster labels:" "12P LOSS MUTATED"      
clus
  12P LOSS MUTATED 12P LOSS WILD-TYPE 
                 2                140 
        TCGA-3Z-A93Z         TCGA-6D-AA2E         TCGA-A3-3317 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-A3-3358         TCGA-A3-3387         TCGA-A3-A6NI 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-A3-A6NJ         TCGA-A3-A6NL         TCGA-A3-A8CQ 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-A3-A8OU         TCGA-A3-A8OV         TCGA-A3-A8OW 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-A3-A8OX         TCGA-AK-3440         TCGA-AK-3458 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-AK-3465         TCGA-B0-4698         TCGA-B0-4700 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B0-4706         TCGA-B0-4710         TCGA-B0-4712 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B0-4810         TCGA-B0-4811         TCGA-B0-4821 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B0-4836         TCGA-B0-4837         TCGA-B0-4852 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B0-5080         TCGA-B0-5085         TCGA-B0-5088 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B0-5399         TCGA-B0-5691         TCGA-B0-5692 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B0-5693         TCGA-B0-5694         TCGA-B0-5695 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B0-5696         TCGA-B0-5699         TCGA-B0-5702 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B0-5705         TCGA-B0-5709         TCGA-B2-3923 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B2-3924         TCGA-B2-5633         TCGA-B2-5635 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B2-5639         TCGA-B4-5377         TCGA-B4-5836 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B8-4621         TCGA-B8-5545         TCGA-B8-5550 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B8-5551         TCGA-B8-5552         TCGA-B8-5553 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B8-A54H         TCGA-B8-A54I         TCGA-B8-A54J 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-B8-A54K         TCGA-B8-A7U6         TCGA-B8-A8YJ 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BP-4173         TCGA-BP-4340         TCGA-BP-4761 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BP-4770         TCGA-BP-4787         TCGA-BP-4789 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BP-4790         TCGA-BP-4804         TCGA-BP-4807 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BP-4959         TCGA-BP-4961         TCGA-BP-4967 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BP-4968         TCGA-BP-4969         TCGA-BP-4970 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BP-4974         TCGA-BP-4976         TCGA-BP-4981 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BP-4982         TCGA-BP-4985         TCGA-BP-4988 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BP-4989         TCGA-BP-4992         TCGA-BP-4995 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BP-4998         TCGA-BP-5001         TCGA-BP-5008 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-BP-5009         TCGA-CJ-4870         TCGA-CJ-4875 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CJ-4876         TCGA-CJ-4878         TCGA-CJ-4881 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CJ-4887         TCGA-CJ-4889         TCGA-CJ-4890 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CJ-4895         TCGA-CJ-4900         TCGA-CJ-5671 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CJ-5675         TCGA-CJ-5676         TCGA-CJ-5681 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CJ-5683         TCGA-CJ-5686         TCGA-CJ-6031 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CJ-6032         TCGA-CW-5585         TCGA-CW-5589 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CW-6087         TCGA-CW-6088         TCGA-CZ-4854 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CZ-4857         TCGA-CZ-4858         TCGA-CZ-4860 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CZ-4864         TCGA-CZ-5453         TCGA-CZ-5454 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CZ-5455         TCGA-CZ-5459         TCGA-CZ-5462 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CZ-5463         TCGA-CZ-5464         TCGA-CZ-5466 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CZ-5467         TCGA-CZ-5469         TCGA-CZ-5470 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-CZ-5989         TCGA-DV-5565         TCGA-DV-5566 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-DV-5569         TCGA-DV-5573         TCGA-EU-5904 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-G6-A5PC         TCGA-G6-A8L6         TCGA-G6-A8L7 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-G6-A8L8         TCGA-GK-A6C7         TCGA-MM-A563 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 
        TCGA-MM-A564         TCGA-MM-A84U 
"12P LOSS WILD-TYPE" "12P LOSS WILD-TYPE" 

Clustering(63) Variable = 12Q LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  12Q LOSS MUTATED        0      0      0
  12Q LOSS WILD-TYPE     31     25     14
D63V1, multiclass
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  12Q LOSS MUTATED        0      0      0      0      0      0      0
  12Q LOSS WILD-TYPE     11     12      4     11     13      9     10
D63V2, multiclass
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  12Q LOSS MUTATED        0      1      0      0      1      2
  12Q LOSS WILD-TYPE     61     79    156     82     79     67
D63V3, multiclass
        clus
vv       12Q LOSS MUTATED 12Q LOSS WILD-TYPE
  CLUS_1                0                 61
  CLUS_2                1                 79
  CLUS_3                0                156
  CLUS_4                0                 82
  CLUS_5                1                 79
  CLUS_6                2                 67
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  12Q LOSS MUTATED        0      1      0      1
  12Q LOSS WILD-TYPE     67     69     96     80
D63V4, multiclass
[1] "Remove cluster labels:" "12Q LOSS MUTATED"      
clus
  12Q LOSS MUTATED 12Q LOSS WILD-TYPE 
                 2                312 
        TCGA-3Z-A93Z         TCGA-6D-AA2E         TCGA-A3-3357 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-A3-3358         TCGA-A3-3367         TCGA-A3-3370 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-A3-3373         TCGA-A3-3376         TCGA-A3-3385 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-A3-3387         TCGA-A3-A6NI         TCGA-A3-A6NJ 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-A3-A6NL         TCGA-A3-A6NN         TCGA-A3-A8CQ 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-A3-A8OU         TCGA-A3-A8OV         TCGA-A3-A8OW 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-A3-A8OX         TCGA-AK-3425         TCGA-AK-3428 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-AK-3431         TCGA-AK-3433         TCGA-AK-3434 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-AK-3440         TCGA-AK-3445         TCGA-AK-3450 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-AK-3453         TCGA-AK-3454         TCGA-AK-3458 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-AK-3460         TCGA-AK-3461         TCGA-B0-4688 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-B0-4690         TCGA-B0-4691         TCGA-B0-4693 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-B0-4694         TCGA-B0-4696         TCGA-B0-4697 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-B0-4698         TCGA-B0-4699         TCGA-B0-4700 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-B0-4701         TCGA-B0-4703         TCGA-B0-4706 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-B0-4707         TCGA-B0-4710         TCGA-B0-4712 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-B0-4713         TCGA-B0-4714         TCGA-B0-4718 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-B0-4810         TCGA-B0-4811         TCGA-B0-4813 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-B0-4814         TCGA-B0-4815         TCGA-B0-4816 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-B0-4817         TCGA-B0-4818         TCGA-B0-4819 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-B0-4821         TCGA-B0-4822         TCGA-B0-4823 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-B0-4824         TCGA-B0-4827         TCGA-B0-4828 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-B0-4841         TCGA-B0-4842         TCGA-B0-4843 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-B0-4844         TCGA-B0-4845         TCGA-B0-4846 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-B0-4847         TCGA-B0-4848         TCGA-B0-4849 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-B0-4852         TCGA-B0-4945         TCGA-B0-5080 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-B0-5092         TCGA-B0-5094         TCGA-B0-5096 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-B0-5097         TCGA-B0-5098         TCGA-B0-5099 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-B0-5100         TCGA-B0-5102         TCGA-B0-5104 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-B0-5106         TCGA-B0-5107         TCGA-B0-5108 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-B0-5109         TCGA-B0-5110         TCGA-B0-5113 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-B0-5115         TCGA-B0-5116         TCGA-B0-5117 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-B0-5119         TCGA-B0-5120         TCGA-B0-5121 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-B0-5399         TCGA-B0-5400         TCGA-B0-5402 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-B0-5690         TCGA-B0-5691         TCGA-B0-5692 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-B0-5693         TCGA-B0-5694         TCGA-B0-5695 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-B0-5696         TCGA-B0-5697         TCGA-B0-5698 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-B0-5699         TCGA-B0-5701         TCGA-B0-5702 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-B0-5703         TCGA-B0-5705         TCGA-B0-5706 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-B0-5709         TCGA-B0-5710         TCGA-B0-5711 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-B0-5712         TCGA-B0-5713         TCGA-B0-5812 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-B2-3924         TCGA-B2-4101         TCGA-B2-5633 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-B2-5635         TCGA-B2-5639         TCGA-B2-5641 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-B2-A4SR         TCGA-B4-5377         TCGA-B4-5378 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-B4-5832         TCGA-B4-5834         TCGA-B4-5835 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-B4-5836         TCGA-B4-5838         TCGA-B4-5843 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-B4-5844         TCGA-B8-4146         TCGA-B8-4153 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-B8-4621         TCGA-B8-4622         TCGA-B8-5158 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-B8-5159         TCGA-B8-5162         TCGA-B8-5163 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-B8-5164         TCGA-B8-5165         TCGA-B8-5545 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-B8-5546         TCGA-B8-5549         TCGA-B8-5550 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-B8-5551         TCGA-B8-5552         TCGA-B8-5553 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-B8-A54D         TCGA-B8-A54E         TCGA-B8-A54F 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-B8-A54G         TCGA-B8-A54H         TCGA-B8-A54I 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-B8-A54J         TCGA-B8-A54K         TCGA-B8-A7U6 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-B8-A8YJ         TCGA-BP-4177         TCGA-BP-4760 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-BP-4770         TCGA-BP-4782         TCGA-BP-4795 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-BP-4801         TCGA-BP-4993         TCGA-BP-5010 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-BP-5168         TCGA-BP-5169         TCGA-BP-5170 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-BP-5173         TCGA-BP-5174         TCGA-BP-5175 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-BP-5176         TCGA-BP-5177         TCGA-BP-5178 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-BP-5180         TCGA-BP-5181         TCGA-BP-5182 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-BP-5183         TCGA-BP-5184         TCGA-BP-5185 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-BP-5186         TCGA-BP-5187         TCGA-BP-5189 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-BP-5190         TCGA-BP-5191         TCGA-BP-5192 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-BP-5194         TCGA-BP-5195         TCGA-BP-5196 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-BP-5198         TCGA-BP-5199         TCGA-BP-5200 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-BP-5201         TCGA-BP-5202         TCGA-CJ-4869 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-CJ-4882         TCGA-CJ-4897         TCGA-CJ-4901 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-CJ-4902         TCGA-CJ-4903         TCGA-CJ-4904 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-CJ-4905         TCGA-CJ-4907         TCGA-CJ-4908 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-CJ-4912         TCGA-CJ-4913         TCGA-CJ-4916 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-CJ-4918         TCGA-CJ-4920         TCGA-CJ-4923 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-CJ-5671         TCGA-CJ-5672         TCGA-CJ-5675 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-CJ-5676         TCGA-CJ-5677         TCGA-CJ-5678 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-CJ-5679         TCGA-CJ-5680         TCGA-CJ-5681 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-CJ-5682         TCGA-CJ-5683         TCGA-CJ-5684 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-CJ-5686         TCGA-CJ-5689         TCGA-CJ-6027 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-CJ-6028         TCGA-CJ-6030         TCGA-CJ-6031 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-CJ-6032         TCGA-CJ-6033         TCGA-CW-5580 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-CW-5581         TCGA-CW-5583         TCGA-CW-5584 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-CW-5585         TCGA-CW-5587         TCGA-CW-5588 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-CW-5589         TCGA-CW-5591         TCGA-CW-6087 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-CW-6088         TCGA-CW-6090         TCGA-CW-6093 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-CW-6097         TCGA-CZ-4853         TCGA-CZ-4856 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-CZ-4859         TCGA-CZ-4863         TCGA-CZ-4864 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-CZ-4865         TCGA-CZ-4866         TCGA-CZ-5451 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-CZ-5452         TCGA-CZ-5453         TCGA-CZ-5454 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-CZ-5455         TCGA-CZ-5456         TCGA-CZ-5458 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-CZ-5459         TCGA-CZ-5460         TCGA-CZ-5461 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-CZ-5462         TCGA-CZ-5463         TCGA-CZ-5464 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-CZ-5465         TCGA-CZ-5466         TCGA-CZ-5467 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-CZ-5468         TCGA-CZ-5469         TCGA-CZ-5470 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-CZ-5982         TCGA-CZ-5984         TCGA-CZ-5985 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-CZ-5986         TCGA-CZ-5987         TCGA-CZ-5988 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-CZ-5989         TCGA-DV-5565         TCGA-DV-5566 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-DV-5567         TCGA-DV-5568         TCGA-DV-5569 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-DV-5573         TCGA-DV-5574         TCGA-DV-5575 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-DV-5576         TCGA-DV-A4VX         TCGA-DV-A4VZ 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-DV-A4W0         TCGA-EU-5904         TCGA-EU-5905 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-EU-5906         TCGA-EU-5907         TCGA-G6-A5PC 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-G6-A8L6         TCGA-G6-A8L7         TCGA-G6-A8L8 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-GK-A6C7         TCGA-MM-A563         TCGA-MM-A564 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-MM-A84U         TCGA-MW-A4EC         TCGA-T7-A92I 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  12Q LOSS MUTATED        1      0      0      0      1      1
  12Q LOSS WILD-TYPE     87     86     90     82     91     32
D63V5, multiclass
        clus
vv       12Q LOSS MUTATED 12Q LOSS WILD-TYPE
  CLUS_1                1                 87
  CLUS_2                0                 86
  CLUS_3                0                 90
  CLUS_4                0                 82
  CLUS_5                1                 91
  CLUS_6                1                 32
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  12Q LOSS MUTATED        1      0      1      1
  12Q LOSS WILD-TYPE    134    112     84    138
D63V6, multiclass
        clus
vv       12Q LOSS MUTATED 12Q LOSS WILD-TYPE
  CLUS_1                1                134
  CLUS_2                0                112
  CLUS_3                1                 84
  CLUS_4                1                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 CLUS_4 CLUS_5
  12Q LOSS MUTATED        0      2      2      0      0
  12Q LOSS WILD-TYPE     81    168     79    153     40
D63V7, multiclass
        clus
vv       12Q LOSS MUTATED 12Q LOSS WILD-TYPE
  CLUS_1                0                 81
  CLUS_2                2                168
  CLUS_3                2                 79
  CLUS_4                0                153
  CLUS_5                0                 40
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- 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      2      1      0      0
  12Q LOSS WILD-TYPE    116     33    181    131     35     25
D63V8, multiclass
        clus
vv       12Q LOSS MUTATED 12Q LOSS WILD-TYPE
  CLUS_1                1                116
  CLUS_2                0                 33
  CLUS_3                2                181
  CLUS_4                1                131
  CLUS_5                0                 35
  CLUS_6                0                 25
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  12Q LOSS MUTATED        1      0      2      0      1
  12Q LOSS WILD-TYPE     90     57    184    119     56
D63V9, multiclass
        clus
vv       12Q LOSS MUTATED 12Q LOSS WILD-TYPE
  CLUS_1                1                 90
  CLUS_2                0                 57
  CLUS_3                2                184
  CLUS_4                0                119
  CLUS_5                1                 56
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  12Q LOSS MUTATED        1      3      0
  12Q LOSS WILD-TYPE    172    206    128
D63V10, multiclass
        clus
vv       12Q LOSS MUTATED 12Q LOSS WILD-TYPE
  CLUS_1                1                172
  CLUS_2                3                206
  CLUS_3                0                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
  12Q LOSS MUTATED        0      0      1      0
  12Q LOSS WILD-TYPE     39     21     43     38
D63V11, multiclass
[1] "Remove cluster labels:" "12Q LOSS MUTATED"      
clus
  12Q LOSS MUTATED 12Q LOSS WILD-TYPE 
                 1                141 
        TCGA-3Z-A93Z         TCGA-6D-AA2E         TCGA-A3-3317 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-A3-3358         TCGA-A3-3387         TCGA-A3-A6NI 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-A3-A6NJ         TCGA-A3-A6NL         TCGA-A3-A8CQ 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-A3-A8OU         TCGA-A3-A8OV         TCGA-A3-A8OW 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-A3-A8OX         TCGA-AK-3440         TCGA-AK-3458 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-AK-3465         TCGA-B0-4698         TCGA-B0-4700 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-B0-4706         TCGA-B0-4710         TCGA-B0-4712 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-B0-4810         TCGA-B0-4811         TCGA-B0-4821 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-B0-4836         TCGA-B0-4837         TCGA-B0-4852 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-B0-5080         TCGA-B0-5085         TCGA-B0-5088 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-B0-5399         TCGA-B0-5691         TCGA-B0-5692 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-B0-5693         TCGA-B0-5694         TCGA-B0-5695 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-B0-5696         TCGA-B0-5699         TCGA-B0-5702 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-B0-5705         TCGA-B0-5709         TCGA-B2-3923 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-B2-3924         TCGA-B2-5633         TCGA-B2-5635 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-B2-5639         TCGA-B4-5377         TCGA-B4-5836 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-B8-4621         TCGA-B8-5545         TCGA-B8-5550 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-B8-5551         TCGA-B8-5552         TCGA-B8-5553 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-B8-A54H         TCGA-B8-A54I         TCGA-B8-A54J 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-B8-A54K         TCGA-B8-A7U6         TCGA-B8-A8YJ 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-BP-4173         TCGA-BP-4340         TCGA-BP-4761 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-BP-4770         TCGA-BP-4787         TCGA-BP-4789 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-BP-4790         TCGA-BP-4804         TCGA-BP-4807 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-BP-4959         TCGA-BP-4961         TCGA-BP-4967 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-BP-4968         TCGA-BP-4969         TCGA-BP-4970 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-BP-4974         TCGA-BP-4976         TCGA-BP-4981 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-BP-4982         TCGA-BP-4985         TCGA-BP-4988 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-BP-4989         TCGA-BP-4992         TCGA-BP-4995 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-BP-4998         TCGA-BP-5001         TCGA-BP-5008 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-BP-5009         TCGA-CJ-4870         TCGA-CJ-4875 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-CJ-4876         TCGA-CJ-4878         TCGA-CJ-4881 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-CJ-4887         TCGA-CJ-4889         TCGA-CJ-4890 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-CJ-4895         TCGA-CJ-4900         TCGA-CJ-5671 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-CJ-5675         TCGA-CJ-5676         TCGA-CJ-5681 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-CJ-5683         TCGA-CJ-5686         TCGA-CJ-6031 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-CJ-6032         TCGA-CW-5585         TCGA-CW-5589 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-CW-6087         TCGA-CW-6088         TCGA-CZ-4854 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-CZ-4857         TCGA-CZ-4858         TCGA-CZ-4860 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-CZ-4864         TCGA-CZ-5453         TCGA-CZ-5454 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-CZ-5455         TCGA-CZ-5459         TCGA-CZ-5462 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-CZ-5463         TCGA-CZ-5464         TCGA-CZ-5466 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-CZ-5467         TCGA-CZ-5469         TCGA-CZ-5470 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-CZ-5989         TCGA-DV-5565         TCGA-DV-5566 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-DV-5569         TCGA-DV-5573         TCGA-EU-5904 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-G6-A5PC         TCGA-G6-A8L6         TCGA-G6-A8L7 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-G6-A8L8         TCGA-GK-A6C7         TCGA-MM-A563 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-MM-A564         TCGA-MM-A84U         TCGA-T7-A92I 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  12Q LOSS MUTATED        0      0      1      0
  12Q LOSS WILD-TYPE     40     52     27     22
D63V12, multiclass
[1] "Remove cluster labels:" "12Q LOSS MUTATED"      
clus
  12Q LOSS MUTATED 12Q LOSS WILD-TYPE 
                 1                141 
        TCGA-3Z-A93Z         TCGA-6D-AA2E         TCGA-A3-3317 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-A3-3358         TCGA-A3-3387         TCGA-A3-A6NI 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-A3-A6NJ         TCGA-A3-A6NL         TCGA-A3-A8CQ 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-A3-A8OU         TCGA-A3-A8OV         TCGA-A3-A8OW 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-A3-A8OX         TCGA-AK-3440         TCGA-AK-3458 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-AK-3465         TCGA-B0-4698         TCGA-B0-4700 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-B0-4706         TCGA-B0-4710         TCGA-B0-4712 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-B0-4810         TCGA-B0-4811         TCGA-B0-4821 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-B0-4836         TCGA-B0-4837         TCGA-B0-4852 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-B0-5080         TCGA-B0-5085         TCGA-B0-5088 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-B0-5399         TCGA-B0-5691         TCGA-B0-5692 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-B0-5693         TCGA-B0-5694         TCGA-B0-5695 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-B0-5696         TCGA-B0-5699         TCGA-B0-5702 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-B0-5705         TCGA-B0-5709         TCGA-B2-3923 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-B2-3924         TCGA-B2-5633         TCGA-B2-5635 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-B2-5639         TCGA-B4-5377         TCGA-B4-5836 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-B8-4621         TCGA-B8-5545         TCGA-B8-5550 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-B8-5551         TCGA-B8-5552         TCGA-B8-5553 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-B8-A54H         TCGA-B8-A54I         TCGA-B8-A54J 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-B8-A54K         TCGA-B8-A7U6         TCGA-B8-A8YJ 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-BP-4173         TCGA-BP-4340         TCGA-BP-4761 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-BP-4770         TCGA-BP-4787         TCGA-BP-4789 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-BP-4790         TCGA-BP-4804         TCGA-BP-4807 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-BP-4959         TCGA-BP-4961         TCGA-BP-4967 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-BP-4968         TCGA-BP-4969         TCGA-BP-4970 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-BP-4974         TCGA-BP-4976         TCGA-BP-4981 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-BP-4982         TCGA-BP-4985         TCGA-BP-4988 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-BP-4989         TCGA-BP-4992         TCGA-BP-4995 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-BP-4998         TCGA-BP-5001         TCGA-BP-5008 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-BP-5009         TCGA-CJ-4870         TCGA-CJ-4875 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-CJ-4876         TCGA-CJ-4878         TCGA-CJ-4881 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-CJ-4887         TCGA-CJ-4889         TCGA-CJ-4890 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-CJ-4895         TCGA-CJ-4900         TCGA-CJ-5671 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-CJ-5675         TCGA-CJ-5676         TCGA-CJ-5681 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-CJ-5683         TCGA-CJ-5686         TCGA-CJ-6031 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-CJ-6032         TCGA-CW-5585         TCGA-CW-5589 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-CW-6087         TCGA-CW-6088         TCGA-CZ-4854 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-CZ-4857         TCGA-CZ-4858         TCGA-CZ-4860 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-CZ-4864         TCGA-CZ-5453         TCGA-CZ-5454 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-CZ-5455         TCGA-CZ-5459         TCGA-CZ-5462 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-CZ-5463         TCGA-CZ-5464         TCGA-CZ-5466 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-CZ-5467         TCGA-CZ-5469         TCGA-CZ-5470 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-CZ-5989         TCGA-DV-5565         TCGA-DV-5566 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-DV-5569         TCGA-DV-5573         TCGA-EU-5904 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-G6-A5PC         TCGA-G6-A8L6         TCGA-G6-A8L7 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-G6-A8L8         TCGA-GK-A6C7         TCGA-MM-A563 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 
        TCGA-MM-A564         TCGA-MM-A84U         TCGA-T7-A92I 
"12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" "12Q LOSS WILD-TYPE" 

Clustering(64) Variable = 13Q LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  13Q LOSS MUTATED        0      6      3
  13Q LOSS WILD-TYPE     31     19     11
D64V1, multiclass
        clus
vv       13Q LOSS MUTATED 13Q LOSS WILD-TYPE
  CLUS_1                0                 31
  CLUS_2                6                 19
  CLUS_3                3                 11
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  13Q LOSS MUTATED        0      3      0      3      0      0      3
  13Q LOSS WILD-TYPE     11      9      4      8     13      9      7
D64V2, multiclass
        clus
vv       13Q LOSS MUTATED 13Q LOSS WILD-TYPE
  CLUS_1                0                 11
  CLUS_2                3                  9
  CLUS_3                0                  4
  CLUS_4                3                  8
  CLUS_5                0                 13
  CLUS_6                0                  9
  CLUS_7                3                  7
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  13Q LOSS MUTATED        3     10     29      6     15      7
  13Q LOSS WILD-TYPE     58     70    127     76     65     62
D64V3, multiclass
        clus
vv       13Q LOSS MUTATED 13Q LOSS WILD-TYPE
  CLUS_1                3                 58
  CLUS_2               10                 70
  CLUS_3               29                127
  CLUS_4                6                 76
  CLUS_5               15                 65
  CLUS_6                7                 62
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  13Q LOSS MUTATED        7     16     19      3
  13Q LOSS WILD-TYPE     60     54     77     78
D64V4, multiclass
        clus
vv       13Q LOSS MUTATED 13Q LOSS WILD-TYPE
  CLUS_1                7                 60
  CLUS_2               16                 54
  CLUS_3               19                 77
  CLUS_4                3                 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 CLUS_5 CLUS_6
  13Q LOSS MUTATED       11      2     30      9      9      1
  13Q LOSS WILD-TYPE     77     84     60     73     83     32
D64V5, multiclass
        clus
vv       13Q LOSS MUTATED 13Q LOSS WILD-TYPE
  CLUS_1               11                 77
  CLUS_2                2                 84
  CLUS_3               30                 60
  CLUS_4                9                 73
  CLUS_5                9                 83
  CLUS_6                1                 32
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  13Q LOSS MUTATED        8     22     22     10
  13Q LOSS WILD-TYPE    127     90     63    129
D64V6, multiclass
        clus
vv       13Q LOSS MUTATED 13Q LOSS WILD-TYPE
  CLUS_1                8                127
  CLUS_2               22                 90
  CLUS_3               22                 63
  CLUS_4               10                129
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  13Q LOSS MUTATED       13     11      6     40      0
  13Q LOSS WILD-TYPE     68    159     75    113     40
D64V7, multiclass
        clus
vv       13Q LOSS MUTATED 13Q LOSS WILD-TYPE
  CLUS_1               13                 68
  CLUS_2               11                159
  CLUS_3                6                 75
  CLUS_4               40                113
  CLUS_5                0                 40
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- 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        6      2      9     40      6      7
  13Q LOSS WILD-TYPE    111     31    174     92     29     18
D64V8, multiclass
        clus
vv       13Q LOSS MUTATED 13Q LOSS WILD-TYPE
  CLUS_1                6                111
  CLUS_2                2                 31
  CLUS_3                9                174
  CLUS_4               40                 92
  CLUS_5                6                 29
  CLUS_6                7                 18
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  13Q LOSS MUTATED        9      9     10     35      5
  13Q LOSS WILD-TYPE     82     48    176     84     52
D64V9, multiclass
        clus
vv       13Q LOSS MUTATED 13Q LOSS WILD-TYPE
  CLUS_1                9                 82
  CLUS_2                9                 48
  CLUS_3               10                176
  CLUS_4               35                 84
  CLUS_5                5                 52
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  13Q LOSS MUTATED       30      9     29
  13Q LOSS WILD-TYPE    143    200     99
D64V10, multiclass
        clus
vv       13Q LOSS MUTATED 13Q LOSS WILD-TYPE
  CLUS_1               30                143
  CLUS_2                9                200
  CLUS_3               29                 99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  13Q LOSS MUTATED        5      1      3      8
  13Q LOSS WILD-TYPE     34     20     41     30
D64V11, multiclass
        clus
vv       13Q LOSS MUTATED 13Q LOSS WILD-TYPE
  CLUS_1                5                 34
  CLUS_2                1                 20
  CLUS_3                3                 41
  CLUS_4                8                 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
  13Q LOSS MUTATED        6      8      1      2
  13Q LOSS WILD-TYPE     34     44     27     20
D64V12, multiclass
        clus
vv       13Q LOSS MUTATED 13Q LOSS WILD-TYPE
  CLUS_1                6                 34
  CLUS_2                8                 44
  CLUS_3                1                 27
  CLUS_4                2                 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"

Clustering(65) Variable = 14Q LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  14Q LOSS MUTATED        8     20      2
  14Q LOSS WILD-TYPE     23      5     12
D65V1, multiclass
        clus
vv       14Q LOSS MUTATED 14Q LOSS WILD-TYPE
  CLUS_1                8                 23
  CLUS_2               20                  5
  CLUS_3                2                 12
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  14Q LOSS MUTATED        4      7      1     11      5      0      2
  14Q LOSS WILD-TYPE      7      5      3      0      8      9      8
D65V2, multiclass
        clus
vv       14Q LOSS MUTATED 14Q LOSS WILD-TYPE
  CLUS_1                4                  7
  CLUS_2                7                  5
  CLUS_3                1                  3
  CLUS_4               11                  0
  CLUS_5                5                  8
  CLUS_6                0                  9
  CLUS_7                2                  8
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  14Q LOSS MUTATED       22     32     98     25     34      5
  14Q LOSS WILD-TYPE     39     48     58     57     46     64
D65V3, multiclass
        clus
vv       14Q LOSS MUTATED 14Q LOSS WILD-TYPE
  CLUS_1               22                 39
  CLUS_2               32                 48
  CLUS_3               98                 58
  CLUS_4               25                 57
  CLUS_5               34                 46
  CLUS_6                5                 64
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  14Q LOSS MUTATED       16     34     59     14
  14Q LOSS WILD-TYPE     51     36     37     67
D65V4, multiclass
        clus
vv       14Q LOSS MUTATED 14Q LOSS WILD-TYPE
  CLUS_1               16                 51
  CLUS_2               34                 36
  CLUS_3               59                 37
  CLUS_4               14                 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 CLUS_5 CLUS_6
  14Q LOSS MUTATED       29     22     57     53     31      6
  14Q LOSS WILD-TYPE     59     64     33     29     61     27
D65V5, multiclass
        clus
vv       14Q LOSS MUTATED 14Q LOSS WILD-TYPE
  CLUS_1               29                 59
  CLUS_2               22                 64
  CLUS_3               57                 33
  CLUS_4               53                 29
  CLUS_5               31                 61
  CLUS_6                6                 27
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  14Q LOSS MUTATED       45     54     45     54
  14Q LOSS WILD-TYPE     90     58     40     85
D65V6, multiclass
        clus
vv       14Q LOSS MUTATED 14Q LOSS WILD-TYPE
  CLUS_1               45                 90
  CLUS_2               54                 58
  CLUS_3               45                 40
  CLUS_4               54                 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 CLUS_5
  14Q LOSS MUTATED       19     54     22    109      9
  14Q LOSS WILD-TYPE     62    116     59     44     31
D65V7, multiclass
        clus
vv       14Q LOSS MUTATED 14Q LOSS WILD-TYPE
  CLUS_1               19                 62
  CLUS_2               54                116
  CLUS_3               22                 59
  CLUS_4              109                 44
  CLUS_5                9                 31
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  14Q LOSS MUTATED       41      7     52     79     32      2
  14Q LOSS WILD-TYPE     76     26    131     53      3     23
D65V8, multiclass
        clus
vv       14Q LOSS MUTATED 14Q LOSS WILD-TYPE
  CLUS_1               41                 76
  CLUS_2                7                 26
  CLUS_3               52                131
  CLUS_4               79                 53
  CLUS_5               32                  3
  CLUS_6                2                 23
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  14Q LOSS MUTATED       27     34     61     76     12
  14Q LOSS WILD-TYPE     64     23    125     43     45
D65V9, multiclass
        clus
vv       14Q LOSS MUTATED 14Q LOSS WILD-TYPE
  CLUS_1               27                 64
  CLUS_2               34                 23
  CLUS_3               61                125
  CLUS_4               76                 43
  CLUS_5               12                 45
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  14Q LOSS MUTATED       72     64     74
  14Q LOSS WILD-TYPE    101    145     54
D65V10, multiclass
        clus
vv       14Q LOSS MUTATED 14Q LOSS WILD-TYPE
  CLUS_1               72                101
  CLUS_2               64                145
  CLUS_3               74                 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
  14Q LOSS MUTATED       12      5     14     18
  14Q LOSS WILD-TYPE     27     16     30     20
D65V11, multiclass
        clus
vv       14Q LOSS MUTATED 14Q LOSS WILD-TYPE
  CLUS_1               12                 27
  CLUS_2                5                 16
  CLUS_3               14                 30
  CLUS_4               18                 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
  14Q LOSS MUTATED       12     20     14      3
  14Q LOSS WILD-TYPE     28     32     14     19
D65V12, multiclass
        clus
vv       14Q LOSS MUTATED 14Q LOSS WILD-TYPE
  CLUS_1               12                 28
  CLUS_2               20                 32
  CLUS_3               14                 14
  CLUS_4                3                 19
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(66) Variable = 15Q LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  15Q LOSS MUTATED        1      4      0
  15Q LOSS WILD-TYPE     30     21     14
D66V1, multiclass
        clus
vv       15Q LOSS MUTATED 15Q LOSS WILD-TYPE
  CLUS_1                1                 30
  CLUS_2                4                 21
  CLUS_3                0                 14
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  15Q LOSS MUTATED        0      3      0      1      1      0      0
  15Q LOSS WILD-TYPE     11      9      4     10     12      9     10
D66V2, multiclass
        clus
vv       15Q LOSS MUTATED 15Q LOSS WILD-TYPE
  CLUS_1                0                 11
  CLUS_2                3                  9
  CLUS_3                0                  4
  CLUS_4                1                 10
  CLUS_5                1                 12
  CLUS_6                0                  9
  CLUS_7                0                 10
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  15Q LOSS MUTATED        2      2     21      4      5      1
  15Q LOSS WILD-TYPE     59     78    135     78     75     68
D66V3, multiclass
        clus
vv       15Q LOSS MUTATED 15Q LOSS WILD-TYPE
  CLUS_1                2                 59
  CLUS_2                2                 78
  CLUS_3               21                135
  CLUS_4                4                 78
  CLUS_5                5                 75
  CLUS_6                1                 68
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  15Q LOSS MUTATED        3      7      9      2
  15Q LOSS WILD-TYPE     64     63     87     79
D66V4, multiclass
        clus
vv       15Q LOSS MUTATED 15Q LOSS WILD-TYPE
  CLUS_1                3                 64
  CLUS_2                7                 63
  CLUS_3                9                 87
  CLUS_4                2                 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 CLUS_5 CLUS_6
  15Q LOSS MUTATED        7      2     14      4      5      2
  15Q LOSS WILD-TYPE     81     84     76     78     87     31
D66V5, multiclass
        clus
vv       15Q LOSS MUTATED 15Q LOSS WILD-TYPE
  CLUS_1                7                 81
  CLUS_2                2                 84
  CLUS_3               14                 76
  CLUS_4                4                 78
  CLUS_5                5                 87
  CLUS_6                2                 31
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  15Q LOSS MUTATED        5     14      9      6
  15Q LOSS WILD-TYPE    130     98     76    133
D66V6, multiclass
        clus
vv       15Q LOSS MUTATED 15Q LOSS WILD-TYPE
  CLUS_1                5                130
  CLUS_2               14                 98
  CLUS_3                9                 76
  CLUS_4                6                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 CLUS_4 CLUS_5
  15Q LOSS MUTATED        2      4      6     23      0
  15Q LOSS WILD-TYPE     79    166     75    130     40
D66V7, multiclass
        clus
vv       15Q LOSS MUTATED 15Q LOSS WILD-TYPE
  CLUS_1                2                 79
  CLUS_2                4                166
  CLUS_3                6                 75
  CLUS_4               23                130
  CLUS_5                0                 40
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- 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        5      0      4     24      2      0
  15Q LOSS WILD-TYPE    112     33    179    108     33     25
D66V8, multiclass
        clus
vv       15Q LOSS MUTATED 15Q LOSS WILD-TYPE
  CLUS_1                5                112
  CLUS_2                0                 33
  CLUS_3                4                179
  CLUS_4               24                108
  CLUS_5                2                 33
  CLUS_6                0                 25
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  15Q LOSS MUTATED        5      6      6     16      2
  15Q LOSS WILD-TYPE     86     51    180    103     55
D66V9, multiclass
        clus
vv       15Q LOSS MUTATED 15Q LOSS WILD-TYPE
  CLUS_1                5                 86
  CLUS_2                6                 51
  CLUS_3                6                180
  CLUS_4               16                103
  CLUS_5                2                 55
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  15Q LOSS MUTATED       18      6     11
  15Q LOSS WILD-TYPE    155    203    117
D66V10, multiclass
        clus
vv       15Q LOSS MUTATED 15Q LOSS WILD-TYPE
  CLUS_1               18                155
  CLUS_2                6                203
  CLUS_3               11                117
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  15Q LOSS MUTATED        1      1      1      6
  15Q LOSS WILD-TYPE     38     20     43     32
D66V11, multiclass
        clus
vv       15Q LOSS MUTATED 15Q LOSS WILD-TYPE
  CLUS_1                1                 38
  CLUS_2                1                 20
  CLUS_3                1                 43
  CLUS_4                6                 32
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  15Q LOSS MUTATED        1      7      1      0
  15Q LOSS WILD-TYPE     39     45     27     22
D66V12, multiclass
        clus
vv       15Q LOSS MUTATED 15Q LOSS WILD-TYPE
  CLUS_1                1                 39
  CLUS_2                7                 45
  CLUS_3                1                 27
  CLUS_4                0                 22
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(67) Variable = 16P LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  16P LOSS MUTATED        0      1      0
  16P LOSS WILD-TYPE     31     24     14
D67V1, multiclass
[1] "Remove cluster labels:" "16P LOSS MUTATED"      
clus
  16P LOSS MUTATED 16P LOSS WILD-TYPE 
                 1                 69 
        TCGA-A3-3306         TCGA-A3-3307         TCGA-A3-3308 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-A3-3311         TCGA-A3-3313         TCGA-A3-3317 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-A3-3319         TCGA-A3-3320         TCGA-A3-3322 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-A3-3323         TCGA-A3-3324         TCGA-A3-3325 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-A3-3326         TCGA-A3-3331         TCGA-A3-3335 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-A3-3336         TCGA-A3-3343         TCGA-A3-3346 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-A3-3347         TCGA-A3-3349         TCGA-A3-3351 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-A3-3352         TCGA-A3-3359         TCGA-A3-3362 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-A3-3363         TCGA-A3-3365         TCGA-A3-3372 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-A3-3374         TCGA-A3-3378         TCGA-A3-3380 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-A3-3382         TCGA-A3-3383         TCGA-AK-3426 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-AK-3427         TCGA-AK-3440         TCGA-AK-3443 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-AK-3444         TCGA-AK-3447         TCGA-AK-3453 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-AK-3455         TCGA-AK-3456         TCGA-AK-3465 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-AS-3777         TCGA-AS-3778         TCGA-B2-3923 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-B2-3924         TCGA-B2-4098         TCGA-B2-4099 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-B2-4102         TCGA-B8-4143         TCGA-B8-4148 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-B8-4151         TCGA-B8-4154         TCGA-B8-4619 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-B8-4620         TCGA-BP-4161         TCGA-BP-4162 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-BP-4163         TCGA-BP-4164         TCGA-BP-4167 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-CJ-4634         TCGA-CJ-4636         TCGA-CJ-4637 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-CJ-4638         TCGA-CJ-4639         TCGA-CJ-4640 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-CJ-4641         TCGA-CJ-4643         TCGA-CJ-4644 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  16P LOSS MUTATED        0      1      0      0      0      0      0
  16P LOSS WILD-TYPE     11     11      4     11     13      9     10
D67V2, multiclass
[1] "Remove cluster labels:" "16P LOSS MUTATED"      
clus
  16P LOSS MUTATED 16P LOSS WILD-TYPE 
                 1                 69 
        TCGA-A3-3306         TCGA-A3-3307         TCGA-A3-3308 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-A3-3311         TCGA-A3-3313         TCGA-A3-3317 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-A3-3319         TCGA-A3-3320         TCGA-A3-3322 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-A3-3323         TCGA-A3-3324         TCGA-A3-3325 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-A3-3326         TCGA-A3-3331         TCGA-A3-3335 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-A3-3336         TCGA-A3-3343         TCGA-A3-3346 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-A3-3347         TCGA-A3-3349         TCGA-A3-3351 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-A3-3352         TCGA-A3-3359         TCGA-A3-3362 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-A3-3363         TCGA-A3-3365         TCGA-A3-3372 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-A3-3374         TCGA-A3-3378         TCGA-A3-3380 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-A3-3382         TCGA-A3-3383         TCGA-AK-3426 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-AK-3427         TCGA-AK-3440         TCGA-AK-3443 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-AK-3444         TCGA-AK-3447         TCGA-AK-3453 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-AK-3455         TCGA-AK-3456         TCGA-AK-3465 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-AS-3777         TCGA-AS-3778         TCGA-B2-3923 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-B2-3924         TCGA-B2-4098         TCGA-B2-4099 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-B2-4102         TCGA-B8-4143         TCGA-B8-4148 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-B8-4151         TCGA-B8-4154         TCGA-B8-4619 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-B8-4620         TCGA-BP-4161         TCGA-BP-4162 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-BP-4163         TCGA-BP-4164         TCGA-BP-4167 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-CJ-4634         TCGA-CJ-4636         TCGA-CJ-4637 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-CJ-4638         TCGA-CJ-4639         TCGA-CJ-4640 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
        TCGA-CJ-4641         TCGA-CJ-4643         TCGA-CJ-4644 
"16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" "16P LOSS WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  16P LOSS MUTATED        0      3      4      2      0      1
  16P LOSS WILD-TYPE     61     77    152     80     80     68
D67V3, multiclass
        clus
vv       16P LOSS MUTATED 16P LOSS WILD-TYPE
  CLUS_1                0                 61
  CLUS_2                3                 77
  CLUS_3                4                152
  CLUS_4                2                 80
  CLUS_5                0                 80
  CLUS_6                1                 68
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  16P LOSS MUTATED        0      2      2      2
  16P LOSS WILD-TYPE     67     68     94     79
D67V4, multiclass
        clus
vv       16P LOSS MUTATED 16P LOSS WILD-TYPE
  CLUS_1                0                 67
  CLUS_2                2                 68
  CLUS_3                2                 94
  CLUS_4                2                 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 CLUS_5 CLUS_6
  16P LOSS MUTATED        1      1      5      0      1      1
  16P LOSS WILD-TYPE     87     85     85     82     91     32
D67V5, multiclass
        clus
vv       16P LOSS MUTATED 16P LOSS WILD-TYPE
  CLUS_1                1                 87
  CLUS_2                1                 85
  CLUS_3                5                 85
  CLUS_4                0                 82
  CLUS_5                1                 91
  CLUS_6                1                 32
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  16P LOSS MUTATED        0      3      4      2
  16P LOSS WILD-TYPE    135    109     81    137
D67V6, multiclass
        clus
vv       16P LOSS MUTATED 16P LOSS WILD-TYPE
  CLUS_1                0                135
  CLUS_2                3                109
  CLUS_3                4                 81
  CLUS_4                2                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 CLUS_4 CLUS_5
  16P LOSS MUTATED        1      1      3      5      0
  16P LOSS WILD-TYPE     80    169     78    148     40
D67V7, multiclass
        clus
vv       16P LOSS MUTATED 16P LOSS WILD-TYPE
  CLUS_1                1                 80
  CLUS_2                1                169
  CLUS_3                3                 78
  CLUS_4                5                148
  CLUS_5                0                 40
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  16P LOSS MUTATED        1      0      1      7      1      0
  16P LOSS WILD-TYPE    116     33    182    125     34     25
D67V8, multiclass
        clus
vv       16P LOSS MUTATED 16P LOSS WILD-TYPE
  CLUS_1                1                116
  CLUS_2                0                 33
  CLUS_3                1                182
  CLUS_4                7                125
  CLUS_5                1                 34
  CLUS_6                0                 25
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  16P LOSS MUTATED        3      1      1      3      2
  16P LOSS WILD-TYPE     88     56    185    116     55
D67V9, multiclass
        clus
vv       16P LOSS MUTATED 16P LOSS WILD-TYPE
  CLUS_1                3                 88
  CLUS_2                1                 56
  CLUS_3                1                185
  CLUS_4                3                116
  CLUS_5                2                 55
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  16P LOSS MUTATED        7      1      2
  16P LOSS WILD-TYPE    166    208    126
D67V10, multiclass
        clus
vv       16P LOSS MUTATED 16P LOSS WILD-TYPE
  CLUS_1                7                166
  CLUS_2                1                208
  CLUS_3                2                126
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger 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        0      1      0      2
  16P LOSS WILD-TYPE     39     20     44     36
D67V11, multiclass
        clus
vv       16P LOSS MUTATED 16P LOSS WILD-TYPE
  CLUS_1                0                 39
  CLUS_2                1                 20
  CLUS_3                0                 44
  CLUS_4                2                 36
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  16P LOSS MUTATED        0      3      0      0
  16P LOSS WILD-TYPE     40     49     28     22
D67V12, multiclass
        clus
vv       16P LOSS MUTATED 16P LOSS WILD-TYPE
  CLUS_1                0                 40
  CLUS_2                3                 49
  CLUS_3                0                 28
  CLUS_4                0                 22
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(68) Variable = 16Q LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  16Q LOSS MUTATED        1      1      0
  16Q LOSS WILD-TYPE     30     24     14
D68V1, multiclass
[1] "Remove cluster labels:" "16Q LOSS MUTATED"      
clus
  16Q LOSS MUTATED 16Q LOSS WILD-TYPE 
                 2                 68 
        TCGA-A3-3307         TCGA-A3-3308         TCGA-A3-3311 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-A3-3313         TCGA-A3-3317         TCGA-A3-3319 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-A3-3320         TCGA-A3-3322         TCGA-A3-3323 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-A3-3324         TCGA-A3-3325         TCGA-A3-3326 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-A3-3331         TCGA-A3-3335         TCGA-A3-3336 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-A3-3343         TCGA-A3-3346         TCGA-A3-3347 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-A3-3349         TCGA-A3-3351         TCGA-A3-3352 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-A3-3359         TCGA-A3-3362         TCGA-A3-3363 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-A3-3365         TCGA-A3-3372         TCGA-A3-3374 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-A3-3378         TCGA-A3-3380         TCGA-A3-3382 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-A3-3383         TCGA-AK-3426         TCGA-AK-3427 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-AK-3440         TCGA-AK-3443         TCGA-AK-3444 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-AK-3447         TCGA-AK-3453         TCGA-AK-3455 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-AK-3456         TCGA-AK-3465         TCGA-AS-3777 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-AS-3778         TCGA-B2-3923         TCGA-B2-3924 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-B2-4098         TCGA-B2-4099         TCGA-B2-4102 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-B8-4143         TCGA-B8-4148         TCGA-B8-4151 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-B8-4154         TCGA-B8-4619         TCGA-B8-4620 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-BP-4161         TCGA-BP-4162         TCGA-BP-4163 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-BP-4164         TCGA-BP-4167         TCGA-CJ-4634 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-CJ-4636         TCGA-CJ-4637         TCGA-CJ-4638 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-CJ-4639         TCGA-CJ-4640         TCGA-CJ-4641 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-CJ-4643         TCGA-CJ-4644 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  16Q LOSS MUTATED        1      1      0      0      0      0      0
  16Q LOSS WILD-TYPE     10     11      4     11     13      9     10
D68V2, multiclass
[1] "Remove cluster labels:" "16Q LOSS MUTATED"      
clus
  16Q LOSS MUTATED 16Q LOSS WILD-TYPE 
                 2                 68 
        TCGA-A3-3307         TCGA-A3-3308         TCGA-A3-3311 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-A3-3313         TCGA-A3-3317         TCGA-A3-3319 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-A3-3320         TCGA-A3-3322         TCGA-A3-3323 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-A3-3324         TCGA-A3-3325         TCGA-A3-3326 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-A3-3331         TCGA-A3-3335         TCGA-A3-3336 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-A3-3343         TCGA-A3-3346         TCGA-A3-3347 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-A3-3349         TCGA-A3-3351         TCGA-A3-3352 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-A3-3359         TCGA-A3-3362         TCGA-A3-3363 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-A3-3365         TCGA-A3-3372         TCGA-A3-3374 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-A3-3378         TCGA-A3-3380         TCGA-A3-3382 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-A3-3383         TCGA-AK-3426         TCGA-AK-3427 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-AK-3440         TCGA-AK-3443         TCGA-AK-3444 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-AK-3447         TCGA-AK-3453         TCGA-AK-3455 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-AK-3456         TCGA-AK-3465         TCGA-AS-3777 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-AS-3778         TCGA-B2-3923         TCGA-B2-3924 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-B2-4098         TCGA-B2-4099         TCGA-B2-4102 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-B8-4143         TCGA-B8-4148         TCGA-B8-4151 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-B8-4154         TCGA-B8-4619         TCGA-B8-4620 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-BP-4161         TCGA-BP-4162         TCGA-BP-4163 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-BP-4164         TCGA-BP-4167         TCGA-CJ-4634 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-CJ-4636         TCGA-CJ-4637         TCGA-CJ-4638 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-CJ-4639         TCGA-CJ-4640         TCGA-CJ-4641 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
        TCGA-CJ-4643         TCGA-CJ-4644 
"16Q LOSS WILD-TYPE" "16Q LOSS WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  16Q LOSS MUTATED        0      3     10      3      0      0
  16Q LOSS WILD-TYPE     61     77    146     79     80     69
D68V3, multiclass
        clus
vv       16Q LOSS MUTATED 16Q LOSS WILD-TYPE
  CLUS_1                0                 61
  CLUS_2                3                 77
  CLUS_3               10                146
  CLUS_4                3                 79
  CLUS_5                0                 80
  CLUS_6                0                 69
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  16Q LOSS MUTATED        0      2      4      3
  16Q LOSS WILD-TYPE     67     68     92     78
D68V4, multiclass
        clus
vv       16Q LOSS MUTATED 16Q LOSS WILD-TYPE
  CLUS_1                0                 67
  CLUS_2                2                 68
  CLUS_3                4                 92
  CLUS_4                3                 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 CLUS_5 CLUS_6
  16Q LOSS MUTATED        2      5      4      0      3      1
  16Q LOSS WILD-TYPE     86     81     86     82     89     32
D68V5, multiclass
        clus
vv       16Q LOSS MUTATED 16Q LOSS WILD-TYPE
  CLUS_1                2                 86
  CLUS_2                5                 81
  CLUS_3                4                 86
  CLUS_4                0                 82
  CLUS_5                3                 89
  CLUS_6                1                 32
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  16Q LOSS MUTATED        2      5      4      4
  16Q LOSS WILD-TYPE    133    107     81    135
D68V6, multiclass
        clus
vv       16Q LOSS MUTATED 16Q LOSS WILD-TYPE
  CLUS_1                2                133
  CLUS_2                5                107
  CLUS_3                4                 81
  CLUS_4                4                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 CLUS_4 CLUS_5
  16Q LOSS MUTATED        0      3      5      6      2
  16Q LOSS WILD-TYPE     81    167     76    147     38
D68V7, multiclass
        clus
vv       16Q LOSS MUTATED 16Q LOSS WILD-TYPE
  CLUS_1                0                 81
  CLUS_2                3                167
  CLUS_3                5                 76
  CLUS_4                6                147
  CLUS_5                2                 38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  16Q LOSS MUTATED        4      0      2      9      1      0
  16Q LOSS WILD-TYPE    113     33    181    123     34     25
D68V8, multiclass
        clus
vv       16Q LOSS MUTATED 16Q LOSS WILD-TYPE
  CLUS_1                4                113
  CLUS_2                0                 33
  CLUS_3                2                181
  CLUS_4                9                123
  CLUS_5                1                 34
  CLUS_6                0                 25
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  16Q LOSS MUTATED        4      1      2      5      3
  16Q LOSS WILD-TYPE     87     56    184    114     54
D68V9, multiclass
        clus
vv       16Q LOSS MUTATED 16Q LOSS WILD-TYPE
  CLUS_1                4                 87
  CLUS_2                1                 56
  CLUS_3                2                184
  CLUS_4                5                114
  CLUS_5                3                 54
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  16Q LOSS MUTATED       10      3      2
  16Q LOSS WILD-TYPE    163    206    126
D68V10, multiclass
        clus
vv       16Q LOSS MUTATED 16Q LOSS WILD-TYPE
  CLUS_1               10                163
  CLUS_2                3                206
  CLUS_3                2                126
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger 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        2      1      0      4
  16Q LOSS WILD-TYPE     37     20     44     34
D68V11, multiclass
        clus
vv       16Q LOSS MUTATED 16Q LOSS WILD-TYPE
  CLUS_1                2                 37
  CLUS_2                1                 20
  CLUS_3                0                 44
  CLUS_4                4                 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
  16Q LOSS MUTATED        1      5      0      1
  16Q LOSS WILD-TYPE     39     47     28     21
D68V12, multiclass
        clus
vv       16Q LOSS MUTATED 16Q LOSS WILD-TYPE
  CLUS_1                1                 39
  CLUS_2                5                 47
  CLUS_3                0                 28
  CLUS_4                1                 21
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(69) Variable = 17P LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  17P LOSS MUTATED        0      5      6
  17P LOSS WILD-TYPE     31     20      8
D69V1, multiclass
        clus
vv       17P LOSS MUTATED 17P LOSS WILD-TYPE
  CLUS_1                0                 31
  CLUS_2                5                 20
  CLUS_3                6                  8
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  17P LOSS MUTATED        0      5      1      0      0      0      5
  17P LOSS WILD-TYPE     11      7      3     11     13      9      5
D69V2, multiclass
        clus
vv       17P LOSS MUTATED 17P LOSS WILD-TYPE
  CLUS_1                0                 11
  CLUS_2                5                  7
  CLUS_3                1                  3
  CLUS_4                0                 11
  CLUS_5                0                 13
  CLUS_6                0                  9
  CLUS_7                5                  5
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  17P LOSS MUTATED        3      6     20      1      9      7
  17P LOSS WILD-TYPE     58     74    136     81     71     62
D69V3, multiclass
        clus
vv       17P LOSS MUTATED 17P LOSS WILD-TYPE
  CLUS_1                3                 58
  CLUS_2                6                 74
  CLUS_3               20                136
  CLUS_4                1                 81
  CLUS_5                9                 71
  CLUS_6                7                 62
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  17P LOSS MUTATED        6      4     10      1
  17P LOSS WILD-TYPE     61     66     86     80
D69V4, multiclass
        clus
vv       17P LOSS MUTATED 17P LOSS WILD-TYPE
  CLUS_1                6                 61
  CLUS_2                4                 66
  CLUS_3               10                 86
  CLUS_4                1                 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 CLUS_5 CLUS_6
  17P LOSS MUTATED       13      2     16      3      5      1
  17P LOSS WILD-TYPE     75     84     74     79     87     32
D69V5, multiclass
        clus
vv       17P LOSS MUTATED 17P LOSS WILD-TYPE
  CLUS_1               13                 75
  CLUS_2                2                 84
  CLUS_3               16                 74
  CLUS_4                3                 79
  CLUS_5                5                 87
  CLUS_6                1                 32
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  17P LOSS MUTATED        6     11     19      4
  17P LOSS WILD-TYPE    129    101     66    135
D69V6, multiclass
        clus
vv       17P LOSS MUTATED 17P LOSS WILD-TYPE
  CLUS_1                6                129
  CLUS_2               11                101
  CLUS_3               19                 66
  CLUS_4                4                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 CLUS_4 CLUS_5
  17P LOSS MUTATED       14      2      7     21      2
  17P LOSS WILD-TYPE     67    168     74    132     38
D69V7, multiclass
        clus
vv       17P LOSS MUTATED 17P LOSS WILD-TYPE
  CLUS_1               14                 67
  CLUS_2                2                168
  CLUS_3                7                 74
  CLUS_4               21                132
  CLUS_5                2                 38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  17P LOSS MUTATED        6      3      3     23      2      9
  17P LOSS WILD-TYPE    111     30    180    109     33     16
D69V8, multiclass
        clus
vv       17P LOSS MUTATED 17P LOSS WILD-TYPE
  CLUS_1                6                111
  CLUS_2                3                 30
  CLUS_3                3                180
  CLUS_4               23                109
  CLUS_5                2                 33
  CLUS_6                9                 16
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  17P LOSS MUTATED        6      5      4     24      7
  17P LOSS WILD-TYPE     85     52    182     95     50
D69V9, multiclass
        clus
vv       17P LOSS MUTATED 17P LOSS WILD-TYPE
  CLUS_1                6                 85
  CLUS_2                5                 52
  CLUS_3                4                182
  CLUS_4               24                 95
  CLUS_5                7                 50
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  17P LOSS MUTATED       21      6     19
  17P LOSS WILD-TYPE    152    203    109
D69V10, multiclass
        clus
vv       17P LOSS MUTATED 17P LOSS WILD-TYPE
  CLUS_1               21                152
  CLUS_2                6                203
  CLUS_3               19                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
  17P LOSS MUTATED        3      1      2      6
  17P LOSS WILD-TYPE     36     20     42     32
D69V11, multiclass
        clus
vv       17P LOSS MUTATED 17P LOSS WILD-TYPE
  CLUS_1                3                 36
  CLUS_2                1                 20
  CLUS_3                2                 42
  CLUS_4                6                 32
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  17P LOSS MUTATED        4      7      0      1
  17P LOSS WILD-TYPE     36     45     28     21
D69V12, multiclass
        clus
vv       17P LOSS MUTATED 17P LOSS WILD-TYPE
  CLUS_1                4                 36
  CLUS_2                7                 45
  CLUS_3                0                 28
  CLUS_4                1                 21
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(70) Variable = 17Q LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  17Q LOSS MUTATED        0      4      5
  17Q LOSS WILD-TYPE     31     21      9
D70V1, multiclass
        clus
vv       17Q LOSS MUTATED 17Q LOSS WILD-TYPE
  CLUS_1                0                 31
  CLUS_2                4                 21
  CLUS_3                5                  9
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  17Q LOSS MUTATED        0      4      0      0      0      0      5
  17Q LOSS WILD-TYPE     11      8      4     11     13      9      5
D70V2, multiclass
        clus
vv       17Q LOSS MUTATED 17Q LOSS WILD-TYPE
  CLUS_1                0                 11
  CLUS_2                4                  8
  CLUS_3                0                  4
  CLUS_4                0                 11
  CLUS_5                0                 13
  CLUS_6                0                  9
  CLUS_7                5                  5
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  17Q LOSS MUTATED        2      4      9      0      6      7
  17Q LOSS WILD-TYPE     59     76    147     82     74     62
D70V3, multiclass
        clus
vv       17Q LOSS MUTATED 17Q LOSS WILD-TYPE
  CLUS_1                2                 59
  CLUS_2                4                 76
  CLUS_3                9                147
  CLUS_4                0                 82
  CLUS_5                6                 74
  CLUS_6                7                 62
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  17Q LOSS MUTATED        5      2      4      0
  17Q LOSS WILD-TYPE     62     68     92     81
D70V4, multiclass
        clus
vv       17Q LOSS MUTATED 17Q LOSS WILD-TYPE
  CLUS_1                5                 62
  CLUS_2                2                 68
  CLUS_3                4                 92
  CLUS_4                0                 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 CLUS_5 CLUS_6
  17Q LOSS MUTATED        8      1      6      2      4      1
  17Q LOSS WILD-TYPE     80     85     84     80     88     32
D70V5, multiclass
        clus
vv       17Q LOSS MUTATED 17Q LOSS WILD-TYPE
  CLUS_1                8                 80
  CLUS_2                1                 85
  CLUS_3                6                 84
  CLUS_4                2                 80
  CLUS_5                4                 88
  CLUS_6                1                 32
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  17Q LOSS MUTATED        3      5     11      3
  17Q LOSS WILD-TYPE    132    107     74    136
D70V6, multiclass
        clus
vv       17Q LOSS MUTATED 17Q LOSS WILD-TYPE
  CLUS_1                3                132
  CLUS_2                5                107
  CLUS_3               11                 74
  CLUS_4                3                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 CLUS_4 CLUS_5
  17Q LOSS MUTATED       11      1      3     12      1
  17Q LOSS WILD-TYPE     70    169     78    141     39
D70V7, multiclass
        clus
vv       17Q LOSS MUTATED 17Q LOSS WILD-TYPE
  CLUS_1               11                 70
  CLUS_2                1                169
  CLUS_3                3                 78
  CLUS_4               12                141
  CLUS_5                1                 39
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- 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      1      2     11      1      9
  17Q LOSS WILD-TYPE    113     32    181    121     34     16
D70V8, multiclass
        clus
vv       17Q LOSS MUTATED 17Q LOSS WILD-TYPE
  CLUS_1                4                113
  CLUS_2                1                 32
  CLUS_3                2                181
  CLUS_4               11                121
  CLUS_5                1                 34
  CLUS_6                9                 16
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  17Q LOSS MUTATED        4      2      2     14      6
  17Q LOSS WILD-TYPE     87     55    184    105     51
D70V9, multiclass
        clus
vv       17Q LOSS MUTATED 17Q LOSS WILD-TYPE
  CLUS_1                4                 87
  CLUS_2                2                 55
  CLUS_3                2                184
  CLUS_4               14                105
  CLUS_5                6                 51
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  17Q LOSS MUTATED        9      5     14
  17Q LOSS WILD-TYPE    164    204    114
D70V10, multiclass
        clus
vv       17Q LOSS MUTATED 17Q LOSS WILD-TYPE
  CLUS_1                9                164
  CLUS_2                5                204
  CLUS_3               14                114
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  17Q LOSS MUTATED        3      0      1      2
  17Q LOSS WILD-TYPE     36     21     43     36
D70V11, multiclass
        clus
vv       17Q LOSS MUTATED 17Q LOSS WILD-TYPE
  CLUS_1                3                 36
  CLUS_2                0                 21
  CLUS_3                1                 43
  CLUS_4                2                 36
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  17Q LOSS MUTATED        3      3      0      0
  17Q LOSS WILD-TYPE     37     49     28     22
D70V12, multiclass
        clus
vv       17Q LOSS MUTATED 17Q LOSS WILD-TYPE
  CLUS_1                3                 37
  CLUS_2                3                 49
  CLUS_3                0                 28
  CLUS_4                0                 22
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(71) Variable = 18P LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  18P LOSS MUTATED        2      7      2
  18P LOSS WILD-TYPE     29     18     12
D71V1, multiclass
        clus
vv       18P LOSS MUTATED 18P LOSS WILD-TYPE
  CLUS_1                2                 29
  CLUS_2                7                 18
  CLUS_3                2                 12
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  18P LOSS MUTATED        0      3      1      3      1      1      2
  18P LOSS WILD-TYPE     11      9      3      8     12      8      8
D71V2, multiclass
        clus
vv       18P LOSS MUTATED 18P LOSS WILD-TYPE
  CLUS_1                0                 11
  CLUS_2                3                  9
  CLUS_3                1                  3
  CLUS_4                3                  8
  CLUS_5                1                 12
  CLUS_6                1                  8
  CLUS_7                2                  8
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  18P LOSS MUTATED        9     16     43      5     13      7
  18P LOSS WILD-TYPE     52     64    113     77     67     62
D71V3, multiclass
        clus
vv       18P LOSS MUTATED 18P LOSS WILD-TYPE
  CLUS_1                9                 52
  CLUS_2               16                 64
  CLUS_3               43                113
  CLUS_4                5                 77
  CLUS_5               13                 67
  CLUS_6                7                 62
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  18P LOSS MUTATED        8     20     27      2
  18P LOSS WILD-TYPE     59     50     69     79
D71V4, multiclass
        clus
vv       18P LOSS MUTATED 18P LOSS WILD-TYPE
  CLUS_1                8                 59
  CLUS_2               20                 50
  CLUS_3               27                 69
  CLUS_4                2                 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 CLUS_5 CLUS_6
  18P LOSS MUTATED       13      4     37     15     11      3
  18P LOSS WILD-TYPE     75     82     53     67     81     30
D71V5, multiclass
        clus
vv       18P LOSS MUTATED 18P LOSS WILD-TYPE
  CLUS_1               13                 75
  CLUS_2                4                 82
  CLUS_3               37                 53
  CLUS_4               15                 67
  CLUS_5               11                 81
  CLUS_6                3                 30
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  18P LOSS MUTATED       10     33     25     15
  18P LOSS WILD-TYPE    125     79     60    124
D71V6, multiclass
        clus
vv       18P LOSS MUTATED 18P LOSS WILD-TYPE
  CLUS_1               10                125
  CLUS_2               33                 79
  CLUS_3               25                 60
  CLUS_4               15                124
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  18P LOSS MUTATED       11      7     12     60      2
  18P LOSS WILD-TYPE     70    163     69     93     38
D71V7, multiclass
        clus
vv       18P LOSS MUTATED 18P LOSS WILD-TYPE
  CLUS_1               11                 70
  CLUS_2                7                163
  CLUS_3               12                 69
  CLUS_4               60                 93
  CLUS_5                2                 38
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  18P LOSS MUTATED       10      5      9     55     10      3
  18P LOSS WILD-TYPE    107     28    174     77     25     22
D71V8, multiclass
        clus
vv       18P LOSS MUTATED 18P LOSS WILD-TYPE
  CLUS_1               10                107
  CLUS_2                5                 28
  CLUS_3                9                174
  CLUS_4               55                 77
  CLUS_5               10                 25
  CLUS_6                3                 22
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  18P LOSS MUTATED       18     17      9     43      6
  18P LOSS WILD-TYPE     73     40    177     76     51
D71V9, multiclass
        clus
vv       18P LOSS MUTATED 18P LOSS WILD-TYPE
  CLUS_1               18                 73
  CLUS_2               17                 40
  CLUS_3                9                177
  CLUS_4               43                 76
  CLUS_5                6                 51
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  18P LOSS MUTATED       43     12     38
  18P LOSS WILD-TYPE    130    197     90
D71V10, multiclass
        clus
vv       18P LOSS MUTATED 18P LOSS WILD-TYPE
  CLUS_1               43                130
  CLUS_2               12                197
  CLUS_3               38                 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
  18P LOSS MUTATED        7      4      0     10
  18P LOSS WILD-TYPE     32     17     44     28
D71V11, multiclass
        clus
vv       18P LOSS MUTATED 18P LOSS WILD-TYPE
  CLUS_1                7                 32
  CLUS_2                4                 17
  CLUS_3                0                 44
  CLUS_4               10                 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
  18P LOSS MUTATED        7     13      1      0
  18P LOSS WILD-TYPE     33     39     27     22
D71V12, multiclass
        clus
vv       18P LOSS MUTATED 18P LOSS WILD-TYPE
  CLUS_1                7                 33
  CLUS_2               13                 39
  CLUS_3                1                 27
  CLUS_4                0                 22
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(72) Variable = 18Q LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  18Q LOSS MUTATED        2      7      3
  18Q LOSS WILD-TYPE     29     18     11
D72V1, multiclass
        clus
vv       18Q LOSS MUTATED 18Q LOSS WILD-TYPE
  CLUS_1                2                 29
  CLUS_2                7                 18
  CLUS_3                3                 11
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  18Q LOSS MUTATED        0      3      2      3      1      1      2
  18Q LOSS WILD-TYPE     11      9      2      8     12      8      8
D72V2, multiclass
        clus
vv       18Q LOSS MUTATED 18Q LOSS WILD-TYPE
  CLUS_1                0                 11
  CLUS_2                3                  9
  CLUS_3                2                  2
  CLUS_4                3                  8
  CLUS_5                1                 12
  CLUS_6                1                  8
  CLUS_7                2                  8
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  18Q LOSS MUTATED        9     15     44      5     15      7
  18Q LOSS WILD-TYPE     52     65    112     77     65     62
D72V3, multiclass
        clus
vv       18Q LOSS MUTATED 18Q LOSS WILD-TYPE
  CLUS_1                9                 52
  CLUS_2               15                 65
  CLUS_3               44                112
  CLUS_4                5                 77
  CLUS_5               15                 65
  CLUS_6                7                 62
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  18Q LOSS MUTATED        8     20     25      4
  18Q LOSS WILD-TYPE     59     50     71     77
D72V4, multiclass
        clus
vv       18Q LOSS MUTATED 18Q LOSS WILD-TYPE
  CLUS_1                8                 59
  CLUS_2               20                 50
  CLUS_3               25                 71
  CLUS_4                4                 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 CLUS_5 CLUS_6
  18Q LOSS MUTATED       14      6     37     14     12      3
  18Q LOSS WILD-TYPE     74     80     53     68     80     30
D72V5, multiclass
        clus
vv       18Q LOSS MUTATED 18Q LOSS WILD-TYPE
  CLUS_1               14                 74
  CLUS_2                6                 80
  CLUS_3               37                 53
  CLUS_4               14                 68
  CLUS_5               12                 80
  CLUS_6                3                 30
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  18Q LOSS MUTATED       12     33     25     16
  18Q LOSS WILD-TYPE    123     79     60    123
D72V6, multiclass
        clus
vv       18Q LOSS MUTATED 18Q LOSS WILD-TYPE
  CLUS_1               12                123
  CLUS_2               33                 79
  CLUS_3               25                 60
  CLUS_4               16                123
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  18Q LOSS MUTATED       13      8     13     59      1
  18Q LOSS WILD-TYPE     68    162     68     94     39
D72V7, multiclass
        clus
vv       18Q LOSS MUTATED 18Q LOSS WILD-TYPE
  CLUS_1               13                 68
  CLUS_2                8                162
  CLUS_3               13                 68
  CLUS_4               59                 94
  CLUS_5                1                 39
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- 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       10      6     10     55     10      3
  18Q LOSS WILD-TYPE    107     27    173     77     25     22
D72V8, multiclass
        clus
vv       18Q LOSS MUTATED 18Q LOSS WILD-TYPE
  CLUS_1               10                107
  CLUS_2                6                 27
  CLUS_3               10                173
  CLUS_4               55                 77
  CLUS_5               10                 25
  CLUS_6                3                 22
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  18Q LOSS MUTATED       18     18     10     42      7
  18Q LOSS WILD-TYPE     73     39    176     77     50
D72V9, multiclass
        clus
vv       18Q LOSS MUTATED 18Q LOSS WILD-TYPE
  CLUS_1               18                 73
  CLUS_2               18                 39
  CLUS_3               10                176
  CLUS_4               42                 77
  CLUS_5                7                 50
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  18Q LOSS MUTATED       44     13     38
  18Q LOSS WILD-TYPE    129    196     90
D72V10, multiclass
        clus
vv       18Q LOSS MUTATED 18Q LOSS WILD-TYPE
  CLUS_1               44                129
  CLUS_2               13                196
  CLUS_3               38                 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
  18Q LOSS MUTATED        7      3      1     10
  18Q LOSS WILD-TYPE     32     18     43     28
D72V11, multiclass
        clus
vv       18Q LOSS MUTATED 18Q LOSS WILD-TYPE
  CLUS_1                7                 32
  CLUS_2                3                 18
  CLUS_3                1                 43
  CLUS_4               10                 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
  18Q LOSS MUTATED        7     12      2      0
  18Q LOSS WILD-TYPE     33     40     26     22
D72V12, multiclass
        clus
vv       18Q LOSS MUTATED 18Q LOSS WILD-TYPE
  CLUS_1                7                 33
  CLUS_2               12                 40
  CLUS_3                2                 26
  CLUS_4                0                 22
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(73) Variable = 19P LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  19P LOSS MUTATED        1      1      0
  19P LOSS WILD-TYPE     30     24     14
D73V1, multiclass
[1] "Remove cluster labels:" "19P LOSS MUTATED"      
clus
  19P LOSS MUTATED 19P LOSS WILD-TYPE 
                 2                 68 
        TCGA-A3-3306         TCGA-A3-3307         TCGA-A3-3308 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-A3-3311         TCGA-A3-3313         TCGA-A3-3316 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-A3-3317         TCGA-A3-3320         TCGA-A3-3322 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-A3-3323         TCGA-A3-3324         TCGA-A3-3325 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-A3-3326         TCGA-A3-3331         TCGA-A3-3335 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-A3-3336         TCGA-A3-3343         TCGA-A3-3346 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-A3-3347         TCGA-A3-3349         TCGA-A3-3351 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-A3-3352         TCGA-A3-3359         TCGA-A3-3362 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-A3-3363         TCGA-A3-3365         TCGA-A3-3372 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-A3-3374         TCGA-A3-3378         TCGA-A3-3380 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-A3-3382         TCGA-A3-3383         TCGA-AK-3426 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-AK-3427         TCGA-AK-3440         TCGA-AK-3443 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-AK-3444         TCGA-AK-3447         TCGA-AK-3453 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-AK-3455         TCGA-AK-3456         TCGA-AK-3465 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-AS-3777         TCGA-AS-3778         TCGA-B2-3923 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-B2-3924         TCGA-B2-4098         TCGA-B2-4099 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-B2-4102         TCGA-B8-4143         TCGA-B8-4148 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-B8-4151         TCGA-B8-4154         TCGA-B8-4619 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-B8-4620         TCGA-BP-4161         TCGA-BP-4162 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-BP-4163         TCGA-BP-4167         TCGA-CJ-4634 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-CJ-4636         TCGA-CJ-4637         TCGA-CJ-4638 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-CJ-4639         TCGA-CJ-4640         TCGA-CJ-4641 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-CJ-4643         TCGA-CJ-4644 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  19P LOSS MUTATED        0      1      0      0      1      0      0
  19P LOSS WILD-TYPE     11     11      4     11     12      9     10
D73V2, multiclass
[1] "Remove cluster labels:" "19P LOSS MUTATED"      
clus
  19P LOSS MUTATED 19P LOSS WILD-TYPE 
                 2                 68 
        TCGA-A3-3306         TCGA-A3-3307         TCGA-A3-3308 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-A3-3311         TCGA-A3-3313         TCGA-A3-3316 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-A3-3317         TCGA-A3-3320         TCGA-A3-3322 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-A3-3323         TCGA-A3-3324         TCGA-A3-3325 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-A3-3326         TCGA-A3-3331         TCGA-A3-3335 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-A3-3336         TCGA-A3-3343         TCGA-A3-3346 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-A3-3347         TCGA-A3-3349         TCGA-A3-3351 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-A3-3352         TCGA-A3-3359         TCGA-A3-3362 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-A3-3363         TCGA-A3-3365         TCGA-A3-3372 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-A3-3374         TCGA-A3-3378         TCGA-A3-3380 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-A3-3382         TCGA-A3-3383         TCGA-AK-3426 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-AK-3427         TCGA-AK-3440         TCGA-AK-3443 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-AK-3444         TCGA-AK-3447         TCGA-AK-3453 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-AK-3455         TCGA-AK-3456         TCGA-AK-3465 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-AS-3777         TCGA-AS-3778         TCGA-B2-3923 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-B2-3924         TCGA-B2-4098         TCGA-B2-4099 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-B2-4102         TCGA-B8-4143         TCGA-B8-4148 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-B8-4151         TCGA-B8-4154         TCGA-B8-4619 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-B8-4620         TCGA-BP-4161         TCGA-BP-4162 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-BP-4163         TCGA-BP-4167         TCGA-CJ-4634 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-CJ-4636         TCGA-CJ-4637         TCGA-CJ-4638 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-CJ-4639         TCGA-CJ-4640         TCGA-CJ-4641 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
        TCGA-CJ-4643         TCGA-CJ-4644 
"19P LOSS WILD-TYPE" "19P LOSS WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  19P LOSS MUTATED        0      1      6      2      1      1
  19P LOSS WILD-TYPE     61     79    150     80     79     68
D73V3, multiclass
        clus
vv       19P LOSS MUTATED 19P LOSS WILD-TYPE
  CLUS_1                0                 61
  CLUS_2                1                 79
  CLUS_3                6                150
  CLUS_4                2                 80
  CLUS_5                1                 79
  CLUS_6                1                 68
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  19P LOSS MUTATED        0      3      4      0
  19P LOSS WILD-TYPE     67     67     92     81
D73V4, multiclass
        clus
vv       19P LOSS MUTATED 19P LOSS WILD-TYPE
  CLUS_1                0                 67
  CLUS_2                3                 67
  CLUS_3                4                 92
  CLUS_4                0                 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 CLUS_5 CLUS_6
  19P LOSS MUTATED        0      0      8      2      0      0
  19P LOSS WILD-TYPE     88     86     82     80     92     33
D73V5, multiclass
        clus
vv       19P LOSS MUTATED 19P LOSS WILD-TYPE
  CLUS_1                0                 88
  CLUS_2                0                 86
  CLUS_3                8                 82
  CLUS_4                2                 80
  CLUS_5                0                 92
  CLUS_6                0                 33
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  19P LOSS MUTATED        0      3      6      1
  19P LOSS WILD-TYPE    135    109     79    138
D73V6, multiclass
        clus
vv       19P LOSS MUTATED 19P LOSS WILD-TYPE
  CLUS_1                0                135
  CLUS_2                3                109
  CLUS_3                6                 79
  CLUS_4                1                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 CLUS_4 CLUS_5
  19P LOSS MUTATED        1      1      1      7      1
  19P LOSS WILD-TYPE     80    169     80    146     39
D73V7, multiclass
        clus
vv       19P LOSS MUTATED 19P LOSS WILD-TYPE
  CLUS_1                1                 80
  CLUS_2                1                169
  CLUS_3                1                 80
  CLUS_4                7                146
  CLUS_5                1                 39
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- 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        1      0      1      9      0      0
  19P LOSS WILD-TYPE    116     33    182    123     35     25
D73V8, multiclass
        clus
vv       19P LOSS MUTATED 19P LOSS WILD-TYPE
  CLUS_1                1                116
  CLUS_2                0                 33
  CLUS_3                1                182
  CLUS_4                9                123
  CLUS_5                0                 35
  CLUS_6                0                 25
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  19P LOSS MUTATED        2      0      1      7      1
  19P LOSS WILD-TYPE     89     57    185    112     56
D73V9, multiclass
        clus
vv       19P LOSS MUTATED 19P LOSS WILD-TYPE
  CLUS_1                2                 89
  CLUS_2                0                 57
  CLUS_3                1                185
  CLUS_4                7                112
  CLUS_5                1                 56
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  19P LOSS MUTATED        7      0      4
  19P LOSS WILD-TYPE    166    209    124
D73V10, multiclass
        clus
vv       19P LOSS MUTATED 19P LOSS WILD-TYPE
  CLUS_1                7                166
  CLUS_2                0                209
  CLUS_3                4                124
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  19P LOSS MUTATED        0      1      0      3
  19P LOSS WILD-TYPE     39     20     44     35
D73V11, multiclass
        clus
vv       19P LOSS MUTATED 19P LOSS WILD-TYPE
  CLUS_1                0                 39
  CLUS_2                1                 20
  CLUS_3                0                 44
  CLUS_4                3                 35
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  19P LOSS MUTATED        0      4      0      0
  19P LOSS WILD-TYPE     40     48     28     22
D73V12, multiclass
        clus
vv       19P LOSS MUTATED 19P LOSS WILD-TYPE
  CLUS_1                0                 40
  CLUS_2                4                 48
  CLUS_3                0                 28
  CLUS_4                0                 22
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(74) Variable = 19Q LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  19Q LOSS MUTATED        1      1      0
  19Q LOSS WILD-TYPE     30     24     14
D74V1, multiclass
[1] "Remove cluster labels:" "19Q LOSS MUTATED"      
clus
  19Q LOSS MUTATED 19Q LOSS WILD-TYPE 
                 2                 68 
        TCGA-A3-3306         TCGA-A3-3307         TCGA-A3-3308 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-A3-3311         TCGA-A3-3313         TCGA-A3-3316 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-A3-3317         TCGA-A3-3320         TCGA-A3-3322 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-A3-3323         TCGA-A3-3324         TCGA-A3-3325 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-A3-3326         TCGA-A3-3331         TCGA-A3-3335 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-A3-3336         TCGA-A3-3343         TCGA-A3-3346 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-A3-3347         TCGA-A3-3349         TCGA-A3-3351 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-A3-3352         TCGA-A3-3359         TCGA-A3-3362 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-A3-3363         TCGA-A3-3365         TCGA-A3-3372 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-A3-3374         TCGA-A3-3378         TCGA-A3-3380 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-A3-3382         TCGA-A3-3383         TCGA-AK-3426 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-AK-3427         TCGA-AK-3440         TCGA-AK-3443 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-AK-3444         TCGA-AK-3447         TCGA-AK-3453 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-AK-3455         TCGA-AK-3456         TCGA-AK-3465 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-AS-3777         TCGA-AS-3778         TCGA-B2-3923 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-B2-3924         TCGA-B2-4098         TCGA-B2-4099 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-B2-4102         TCGA-B8-4143         TCGA-B8-4148 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-B8-4151         TCGA-B8-4154         TCGA-B8-4619 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-B8-4620         TCGA-BP-4161         TCGA-BP-4162 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-BP-4163         TCGA-BP-4167         TCGA-CJ-4634 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-CJ-4636         TCGA-CJ-4637         TCGA-CJ-4638 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-CJ-4639         TCGA-CJ-4640         TCGA-CJ-4641 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-CJ-4643         TCGA-CJ-4644 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  19Q LOSS MUTATED        0      1      0      0      1      0      0
  19Q LOSS WILD-TYPE     11     11      4     11     12      9     10
D74V2, multiclass
[1] "Remove cluster labels:" "19Q LOSS MUTATED"      
clus
  19Q LOSS MUTATED 19Q LOSS WILD-TYPE 
                 2                 68 
        TCGA-A3-3306         TCGA-A3-3307         TCGA-A3-3308 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-A3-3311         TCGA-A3-3313         TCGA-A3-3316 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-A3-3317         TCGA-A3-3320         TCGA-A3-3322 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-A3-3323         TCGA-A3-3324         TCGA-A3-3325 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-A3-3326         TCGA-A3-3331         TCGA-A3-3335 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-A3-3336         TCGA-A3-3343         TCGA-A3-3346 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-A3-3347         TCGA-A3-3349         TCGA-A3-3351 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-A3-3352         TCGA-A3-3359         TCGA-A3-3362 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-A3-3363         TCGA-A3-3365         TCGA-A3-3372 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-A3-3374         TCGA-A3-3378         TCGA-A3-3380 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-A3-3382         TCGA-A3-3383         TCGA-AK-3426 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-AK-3427         TCGA-AK-3440         TCGA-AK-3443 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-AK-3444         TCGA-AK-3447         TCGA-AK-3453 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-AK-3455         TCGA-AK-3456         TCGA-AK-3465 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-AS-3777         TCGA-AS-3778         TCGA-B2-3923 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-B2-3924         TCGA-B2-4098         TCGA-B2-4099 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-B2-4102         TCGA-B8-4143         TCGA-B8-4148 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-B8-4151         TCGA-B8-4154         TCGA-B8-4619 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-B8-4620         TCGA-BP-4161         TCGA-BP-4162 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-BP-4163         TCGA-BP-4167         TCGA-CJ-4634 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-CJ-4636         TCGA-CJ-4637         TCGA-CJ-4638 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-CJ-4639         TCGA-CJ-4640         TCGA-CJ-4641 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-CJ-4643         TCGA-CJ-4644 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  19Q LOSS MUTATED        0      0      3      0      1      0
  19Q LOSS WILD-TYPE     61     80    153     82     79     69
D74V3, multiclass
        clus
vv       19Q LOSS MUTATED 19Q LOSS WILD-TYPE
  CLUS_1                0                 61
  CLUS_2                0                 80
  CLUS_3                3                153
  CLUS_4                0                 82
  CLUS_5                1                 79
  CLUS_6                0                 69
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  19Q LOSS MUTATED        0      1      0      0
  19Q LOSS WILD-TYPE     67     69     96     81
D74V4, multiclass
[1] "Remove cluster labels:" "19Q LOSS MUTATED"      
clus
  19Q LOSS MUTATED 19Q LOSS WILD-TYPE 
                 1                313 
        TCGA-3Z-A93Z         TCGA-6D-AA2E         TCGA-A3-3357 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-A3-3358         TCGA-A3-3367         TCGA-A3-3370 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-A3-3373         TCGA-A3-3376         TCGA-A3-3385 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-A3-3387         TCGA-A3-A6NI         TCGA-A3-A6NJ 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-A3-A6NL         TCGA-A3-A6NN         TCGA-A3-A8CQ 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-A3-A8OU         TCGA-A3-A8OV         TCGA-A3-A8OW 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-A3-A8OX         TCGA-AK-3425         TCGA-AK-3428 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-AK-3431         TCGA-AK-3433         TCGA-AK-3434 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-AK-3440         TCGA-AK-3445         TCGA-AK-3450 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-AK-3453         TCGA-AK-3454         TCGA-AK-3458 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-AK-3460         TCGA-AK-3461         TCGA-B0-4688 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-B0-4691         TCGA-B0-4693         TCGA-B0-4694 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-B0-4696         TCGA-B0-4697         TCGA-B0-4698 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-B0-4699         TCGA-B0-4700         TCGA-B0-4701 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-B0-4703         TCGA-B0-4706         TCGA-B0-4707 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-B0-4710         TCGA-B0-4712         TCGA-B0-4713 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-B0-4714         TCGA-B0-4718         TCGA-B0-4810 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-B0-4811         TCGA-B0-4813         TCGA-B0-4814 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-B0-4815         TCGA-B0-4816         TCGA-B0-4817 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-B0-4818         TCGA-B0-4819         TCGA-B0-4821 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-B0-4822         TCGA-B0-4823         TCGA-B0-4824 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-B0-4827         TCGA-B0-4828         TCGA-B0-4841 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-B0-4842         TCGA-B0-4843         TCGA-B0-4844 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-B0-4845         TCGA-B0-4846         TCGA-B0-4847 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-B0-4848         TCGA-B0-4849         TCGA-B0-4852 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-B0-4945         TCGA-B0-5080         TCGA-B0-5092 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-B0-5094         TCGA-B0-5095         TCGA-B0-5096 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-B0-5097         TCGA-B0-5098         TCGA-B0-5099 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-B0-5100         TCGA-B0-5102         TCGA-B0-5104 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-B0-5106         TCGA-B0-5107         TCGA-B0-5108 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-B0-5109         TCGA-B0-5110         TCGA-B0-5113 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-B0-5115         TCGA-B0-5116         TCGA-B0-5117 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-B0-5119         TCGA-B0-5120         TCGA-B0-5121 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-B0-5399         TCGA-B0-5400         TCGA-B0-5402 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-B0-5690         TCGA-B0-5691         TCGA-B0-5692 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-B0-5693         TCGA-B0-5694         TCGA-B0-5695 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-B0-5696         TCGA-B0-5697         TCGA-B0-5698 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-B0-5699         TCGA-B0-5701         TCGA-B0-5702 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-B0-5703         TCGA-B0-5705         TCGA-B0-5706 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-B0-5709         TCGA-B0-5710         TCGA-B0-5711 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-B0-5712         TCGA-B0-5713         TCGA-B0-5812 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-B2-3924         TCGA-B2-4101         TCGA-B2-5633 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-B2-5635         TCGA-B2-5639         TCGA-B2-5641 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-B2-A4SR         TCGA-B4-5377         TCGA-B4-5378 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-B4-5832         TCGA-B4-5834         TCGA-B4-5835 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-B4-5836         TCGA-B4-5838         TCGA-B4-5843 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-B4-5844         TCGA-B8-4146         TCGA-B8-4153 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-B8-4621         TCGA-B8-4622         TCGA-B8-5158 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-B8-5159         TCGA-B8-5162         TCGA-B8-5163 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-B8-5164         TCGA-B8-5165         TCGA-B8-5545 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-B8-5546         TCGA-B8-5549         TCGA-B8-5550 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-B8-5551         TCGA-B8-5552         TCGA-B8-5553 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-B8-A54D         TCGA-B8-A54E         TCGA-B8-A54F 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-B8-A54G         TCGA-B8-A54H         TCGA-B8-A54I 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-B8-A54J         TCGA-B8-A54K         TCGA-B8-A7U6 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-B8-A8YJ         TCGA-BP-4177         TCGA-BP-4760 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-BP-4770         TCGA-BP-4782         TCGA-BP-4795 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-BP-4801         TCGA-BP-4993         TCGA-BP-5010 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-BP-5168         TCGA-BP-5169         TCGA-BP-5170 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-BP-5173         TCGA-BP-5174         TCGA-BP-5175 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-BP-5176         TCGA-BP-5177         TCGA-BP-5178 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-BP-5180         TCGA-BP-5181         TCGA-BP-5182 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-BP-5183         TCGA-BP-5184         TCGA-BP-5185 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-BP-5186         TCGA-BP-5187         TCGA-BP-5189 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-BP-5190         TCGA-BP-5191         TCGA-BP-5192 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-BP-5194         TCGA-BP-5195         TCGA-BP-5196 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-BP-5198         TCGA-BP-5199         TCGA-BP-5200 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-BP-5201         TCGA-BP-5202         TCGA-CJ-4869 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-CJ-4882         TCGA-CJ-4897         TCGA-CJ-4901 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-CJ-4902         TCGA-CJ-4903         TCGA-CJ-4904 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-CJ-4905         TCGA-CJ-4907         TCGA-CJ-4908 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-CJ-4912         TCGA-CJ-4913         TCGA-CJ-4916 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-CJ-4918         TCGA-CJ-4920         TCGA-CJ-4923 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-CJ-5671         TCGA-CJ-5672         TCGA-CJ-5675 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-CJ-5676         TCGA-CJ-5677         TCGA-CJ-5678 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-CJ-5679         TCGA-CJ-5680         TCGA-CJ-5681 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-CJ-5682         TCGA-CJ-5683         TCGA-CJ-5684 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-CJ-5686         TCGA-CJ-5689         TCGA-CJ-6027 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-CJ-6028         TCGA-CJ-6030         TCGA-CJ-6031 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-CJ-6032         TCGA-CJ-6033         TCGA-CW-5580 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-CW-5581         TCGA-CW-5583         TCGA-CW-5584 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-CW-5585         TCGA-CW-5587         TCGA-CW-5588 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-CW-5589         TCGA-CW-5591         TCGA-CW-6087 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-CW-6088         TCGA-CW-6090         TCGA-CW-6093 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-CW-6097         TCGA-CZ-4853         TCGA-CZ-4856 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-CZ-4859         TCGA-CZ-4863         TCGA-CZ-4864 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-CZ-4865         TCGA-CZ-4866         TCGA-CZ-5451 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-CZ-5452         TCGA-CZ-5453         TCGA-CZ-5454 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-CZ-5455         TCGA-CZ-5456         TCGA-CZ-5457 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-CZ-5458         TCGA-CZ-5459         TCGA-CZ-5460 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-CZ-5461         TCGA-CZ-5462         TCGA-CZ-5463 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-CZ-5464         TCGA-CZ-5465         TCGA-CZ-5466 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-CZ-5467         TCGA-CZ-5468         TCGA-CZ-5469 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-CZ-5470         TCGA-CZ-5982         TCGA-CZ-5984 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-CZ-5985         TCGA-CZ-5986         TCGA-CZ-5987 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-CZ-5988         TCGA-CZ-5989         TCGA-DV-5565 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-DV-5566         TCGA-DV-5567         TCGA-DV-5568 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-DV-5569         TCGA-DV-5573         TCGA-DV-5574 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-DV-5575         TCGA-DV-5576         TCGA-DV-A4VX 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-DV-A4VZ         TCGA-DV-A4W0         TCGA-EU-5904 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-EU-5905         TCGA-EU-5906         TCGA-EU-5907 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-G6-A5PC         TCGA-G6-A8L6         TCGA-G6-A8L7 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-G6-A8L8         TCGA-GK-A6C7         TCGA-MM-A563 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-MM-A564         TCGA-MM-A84U         TCGA-MW-A4EC 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-T7-A92I 
"19Q LOSS WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  19Q LOSS MUTATED        0      0      2      2      0      0
  19Q LOSS WILD-TYPE     88     86     88     80     92     33
D74V5, multiclass
        clus
vv       19Q LOSS MUTATED 19Q LOSS WILD-TYPE
  CLUS_1                0                 88
  CLUS_2                0                 86
  CLUS_3                2                 88
  CLUS_4                2                 80
  CLUS_5                0                 92
  CLUS_6                0                 33
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  19Q LOSS MUTATED        0      1      2      1
  19Q LOSS WILD-TYPE    135    111     83    138
D74V6, multiclass
        clus
vv       19Q LOSS MUTATED 19Q LOSS WILD-TYPE
  CLUS_1                0                135
  CLUS_2                1                111
  CLUS_3                2                 83
  CLUS_4                1                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 CLUS_4 CLUS_5
  19Q LOSS MUTATED        0      1      0      3      0
  19Q LOSS WILD-TYPE     81    169     81    150     40
D74V7, multiclass
        clus
vv       19Q LOSS MUTATED 19Q LOSS WILD-TYPE
  CLUS_1                0                 81
  CLUS_2                1                169
  CLUS_3                0                 81
  CLUS_4                3                150
  CLUS_5                0                 40
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- 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        0      0      1      3      0      0
  19Q LOSS WILD-TYPE    117     33    182    129     35     25
D74V8, multiclass
        clus
vv       19Q LOSS MUTATED 19Q LOSS WILD-TYPE
  CLUS_1                0                117
  CLUS_2                0                 33
  CLUS_3                1                182
  CLUS_4                3                129
  CLUS_5                0                 35
  CLUS_6                0                 25
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  19Q LOSS MUTATED        0      0      1      3      0
  19Q LOSS WILD-TYPE     91     57    185    116     57
D74V9, multiclass
        clus
vv       19Q LOSS MUTATED 19Q LOSS WILD-TYPE
  CLUS_1                0                 91
  CLUS_2                0                 57
  CLUS_3                1                185
  CLUS_4                3                116
  CLUS_5                0                 57
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  19Q LOSS MUTATED        2      0      2
  19Q LOSS WILD-TYPE    171    209    126
D74V10, multiclass
        clus
vv       19Q LOSS MUTATED 19Q LOSS WILD-TYPE
  CLUS_1                2                171
  CLUS_2                0                209
  CLUS_3                2                126
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  19Q LOSS MUTATED        0      0      0      1
  19Q LOSS WILD-TYPE     39     21     44     37
D74V11, multiclass
[1] "Remove cluster labels:" "19Q LOSS MUTATED"      
clus
  19Q LOSS MUTATED 19Q LOSS WILD-TYPE 
                 1                141 
        TCGA-3Z-A93Z         TCGA-6D-AA2E         TCGA-A3-3317 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-A3-3358         TCGA-A3-3387         TCGA-A3-A6NI 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-A3-A6NJ         TCGA-A3-A6NL         TCGA-A3-A8CQ 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-A3-A8OU         TCGA-A3-A8OV         TCGA-A3-A8OW 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-A3-A8OX         TCGA-AK-3440         TCGA-AK-3458 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-AK-3465         TCGA-B0-4698         TCGA-B0-4700 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-B0-4706         TCGA-B0-4710         TCGA-B0-4712 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-B0-4810         TCGA-B0-4811         TCGA-B0-4821 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-B0-4836         TCGA-B0-4837         TCGA-B0-4852 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-B0-5080         TCGA-B0-5085         TCGA-B0-5088 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-B0-5399         TCGA-B0-5691         TCGA-B0-5692 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-B0-5693         TCGA-B0-5694         TCGA-B0-5695 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-B0-5696         TCGA-B0-5699         TCGA-B0-5702 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-B0-5705         TCGA-B0-5709         TCGA-B2-3923 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-B2-3924         TCGA-B2-5633         TCGA-B2-5635 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-B2-5639         TCGA-B4-5377         TCGA-B4-5836 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-B8-4621         TCGA-B8-5545         TCGA-B8-5550 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-B8-5551         TCGA-B8-5552         TCGA-B8-5553 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-B8-A54H         TCGA-B8-A54I         TCGA-B8-A54J 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-B8-A54K         TCGA-B8-A7U6         TCGA-B8-A8YJ 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-BP-4173         TCGA-BP-4340         TCGA-BP-4761 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-BP-4770         TCGA-BP-4787         TCGA-BP-4789 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-BP-4790         TCGA-BP-4804         TCGA-BP-4807 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-BP-4959         TCGA-BP-4961         TCGA-BP-4967 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-BP-4968         TCGA-BP-4969         TCGA-BP-4970 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-BP-4974         TCGA-BP-4976         TCGA-BP-4981 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-BP-4982         TCGA-BP-4985         TCGA-BP-4988 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-BP-4989         TCGA-BP-4992         TCGA-BP-4995 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-BP-4998         TCGA-BP-5001         TCGA-BP-5008 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-BP-5009         TCGA-CJ-4870         TCGA-CJ-4875 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-CJ-4876         TCGA-CJ-4878         TCGA-CJ-4881 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-CJ-4887         TCGA-CJ-4889         TCGA-CJ-4890 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-CJ-4895         TCGA-CJ-4900         TCGA-CJ-5671 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-CJ-5675         TCGA-CJ-5676         TCGA-CJ-5681 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-CJ-5683         TCGA-CJ-5686         TCGA-CJ-6031 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-CJ-6032         TCGA-CW-5585         TCGA-CW-5589 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-CW-6087         TCGA-CW-6088         TCGA-CZ-4854 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-CZ-4857         TCGA-CZ-4858         TCGA-CZ-4864 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-CZ-5453         TCGA-CZ-5454         TCGA-CZ-5455 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-CZ-5457         TCGA-CZ-5459         TCGA-CZ-5462 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-CZ-5463         TCGA-CZ-5464         TCGA-CZ-5466 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-CZ-5467         TCGA-CZ-5469         TCGA-CZ-5470 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-CZ-5989         TCGA-DV-5565         TCGA-DV-5566 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-DV-5569         TCGA-DV-5573         TCGA-EU-5904 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-G6-A5PC         TCGA-G6-A8L6         TCGA-G6-A8L7 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-G6-A8L8         TCGA-GK-A6C7         TCGA-MM-A563 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-MM-A564         TCGA-MM-A84U         TCGA-T7-A92I 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  19Q LOSS MUTATED        0      1      0      0
  19Q LOSS WILD-TYPE     40     51     28     22
D74V12, multiclass
[1] "Remove cluster labels:" "19Q LOSS MUTATED"      
clus
  19Q LOSS MUTATED 19Q LOSS WILD-TYPE 
                 1                141 
        TCGA-3Z-A93Z         TCGA-6D-AA2E         TCGA-A3-3317 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-A3-3358         TCGA-A3-3387         TCGA-A3-A6NI 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-A3-A6NJ         TCGA-A3-A6NL         TCGA-A3-A8CQ 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-A3-A8OU         TCGA-A3-A8OV         TCGA-A3-A8OW 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-A3-A8OX         TCGA-AK-3440         TCGA-AK-3458 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-AK-3465         TCGA-B0-4698         TCGA-B0-4700 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-B0-4706         TCGA-B0-4710         TCGA-B0-4712 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-B0-4810         TCGA-B0-4811         TCGA-B0-4821 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-B0-4836         TCGA-B0-4837         TCGA-B0-4852 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-B0-5080         TCGA-B0-5085         TCGA-B0-5088 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-B0-5399         TCGA-B0-5691         TCGA-B0-5692 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-B0-5693         TCGA-B0-5694         TCGA-B0-5695 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-B0-5696         TCGA-B0-5699         TCGA-B0-5702 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-B0-5705         TCGA-B0-5709         TCGA-B2-3923 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-B2-3924         TCGA-B2-5633         TCGA-B2-5635 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-B2-5639         TCGA-B4-5377         TCGA-B4-5836 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-B8-4621         TCGA-B8-5545         TCGA-B8-5550 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-B8-5551         TCGA-B8-5552         TCGA-B8-5553 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-B8-A54H         TCGA-B8-A54I         TCGA-B8-A54J 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-B8-A54K         TCGA-B8-A7U6         TCGA-B8-A8YJ 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-BP-4173         TCGA-BP-4340         TCGA-BP-4761 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-BP-4770         TCGA-BP-4787         TCGA-BP-4789 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-BP-4790         TCGA-BP-4804         TCGA-BP-4807 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-BP-4959         TCGA-BP-4961         TCGA-BP-4967 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-BP-4968         TCGA-BP-4969         TCGA-BP-4970 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-BP-4974         TCGA-BP-4976         TCGA-BP-4981 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-BP-4982         TCGA-BP-4985         TCGA-BP-4988 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-BP-4989         TCGA-BP-4992         TCGA-BP-4995 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-BP-4998         TCGA-BP-5001         TCGA-BP-5008 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-BP-5009         TCGA-CJ-4870         TCGA-CJ-4875 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-CJ-4876         TCGA-CJ-4878         TCGA-CJ-4881 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-CJ-4887         TCGA-CJ-4889         TCGA-CJ-4890 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-CJ-4895         TCGA-CJ-4900         TCGA-CJ-5671 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-CJ-5675         TCGA-CJ-5676         TCGA-CJ-5681 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-CJ-5683         TCGA-CJ-5686         TCGA-CJ-6031 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-CJ-6032         TCGA-CW-5585         TCGA-CW-5589 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-CW-6087         TCGA-CW-6088         TCGA-CZ-4854 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-CZ-4857         TCGA-CZ-4858         TCGA-CZ-4864 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-CZ-5453         TCGA-CZ-5454         TCGA-CZ-5455 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-CZ-5457         TCGA-CZ-5459         TCGA-CZ-5462 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-CZ-5463         TCGA-CZ-5464         TCGA-CZ-5466 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-CZ-5467         TCGA-CZ-5469         TCGA-CZ-5470 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-CZ-5989         TCGA-DV-5565         TCGA-DV-5566 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-DV-5569         TCGA-DV-5573         TCGA-EU-5904 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-G6-A5PC         TCGA-G6-A8L6         TCGA-G6-A8L7 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-G6-A8L8         TCGA-GK-A6C7         TCGA-MM-A563 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 
        TCGA-MM-A564         TCGA-MM-A84U         TCGA-T7-A92I 
"19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" "19Q LOSS WILD-TYPE" 

Clustering(75) Variable = 20P LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  20P LOSS MUTATED        0      2      0
  20P LOSS WILD-TYPE     31     23     14
D75V1, multiclass
[1] "Remove cluster labels:" "20P LOSS MUTATED"      
clus
  20P LOSS MUTATED 20P LOSS WILD-TYPE 
                 2                 68 
        TCGA-A3-3306         TCGA-A3-3307         TCGA-A3-3308 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-A3-3311         TCGA-A3-3313         TCGA-A3-3316 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-A3-3317         TCGA-A3-3320         TCGA-A3-3322 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-A3-3323         TCGA-A3-3324         TCGA-A3-3325 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-A3-3326         TCGA-A3-3331         TCGA-A3-3335 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-A3-3336         TCGA-A3-3343         TCGA-A3-3346 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-A3-3347         TCGA-A3-3349         TCGA-A3-3351 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-A3-3352         TCGA-A3-3359         TCGA-A3-3362 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-A3-3363         TCGA-A3-3365         TCGA-A3-3372 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-A3-3374         TCGA-A3-3378         TCGA-A3-3380 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-A3-3382         TCGA-A3-3383         TCGA-AK-3426 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-AK-3427         TCGA-AK-3440         TCGA-AK-3443 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-AK-3444         TCGA-AK-3447         TCGA-AK-3453 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-AK-3455         TCGA-AK-3456         TCGA-AK-3465 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-AS-3777         TCGA-AS-3778         TCGA-B2-3923 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-B2-3924         TCGA-B2-4098         TCGA-B2-4099 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-B2-4102         TCGA-B8-4143         TCGA-B8-4148 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-B8-4151         TCGA-B8-4154         TCGA-B8-4619 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-B8-4620         TCGA-BP-4161         TCGA-BP-4162 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-BP-4163         TCGA-BP-4164         TCGA-BP-4167 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-CJ-4634         TCGA-CJ-4636         TCGA-CJ-4638 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-CJ-4639         TCGA-CJ-4640         TCGA-CJ-4641 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-CJ-4643         TCGA-CJ-4644 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  20P LOSS MUTATED        0      1      0      1      0      0      0
  20P LOSS WILD-TYPE     11     11      4     10     13      9     10
D75V2, multiclass
[1] "Remove cluster labels:" "20P LOSS MUTATED"      
clus
  20P LOSS MUTATED 20P LOSS WILD-TYPE 
                 2                 68 
        TCGA-A3-3306         TCGA-A3-3307         TCGA-A3-3308 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-A3-3311         TCGA-A3-3313         TCGA-A3-3316 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-A3-3317         TCGA-A3-3320         TCGA-A3-3322 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-A3-3323         TCGA-A3-3324         TCGA-A3-3325 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-A3-3326         TCGA-A3-3331         TCGA-A3-3335 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-A3-3336         TCGA-A3-3343         TCGA-A3-3346 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-A3-3347         TCGA-A3-3349         TCGA-A3-3351 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-A3-3352         TCGA-A3-3359         TCGA-A3-3362 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-A3-3363         TCGA-A3-3365         TCGA-A3-3372 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-A3-3374         TCGA-A3-3378         TCGA-A3-3380 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-A3-3382         TCGA-A3-3383         TCGA-AK-3426 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-AK-3427         TCGA-AK-3440         TCGA-AK-3443 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-AK-3444         TCGA-AK-3447         TCGA-AK-3453 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-AK-3455         TCGA-AK-3456         TCGA-AK-3465 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-AS-3777         TCGA-AS-3778         TCGA-B2-3923 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-B2-3924         TCGA-B2-4098         TCGA-B2-4099 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-B2-4102         TCGA-B8-4143         TCGA-B8-4148 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-B8-4151         TCGA-B8-4154         TCGA-B8-4619 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-B8-4620         TCGA-BP-4161         TCGA-BP-4162 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-BP-4163         TCGA-BP-4164         TCGA-BP-4167 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-CJ-4634         TCGA-CJ-4636         TCGA-CJ-4638 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-CJ-4639         TCGA-CJ-4640         TCGA-CJ-4641 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-CJ-4643         TCGA-CJ-4644 
"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      5      1      0      2
  20P LOSS WILD-TYPE     61     80    151     81     80     67
D75V3, multiclass
        clus
vv       20P LOSS MUTATED 20P LOSS WILD-TYPE
  CLUS_1                0                 61
  CLUS_2                0                 80
  CLUS_3                5                151
  CLUS_4                1                 81
  CLUS_5                0                 80
  CLUS_6                2                 67
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  20P LOSS MUTATED        0      1      1      1
  20P LOSS WILD-TYPE     67     69     95     80
D75V4, multiclass
        clus
vv       20P LOSS MUTATED 20P LOSS WILD-TYPE
  CLUS_1                0                 67
  CLUS_2                1                 69
  CLUS_3                1                 95
  CLUS_4                1                 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 CLUS_5 CLUS_6
  20P LOSS MUTATED        0      0      3      1      2      1
  20P LOSS WILD-TYPE     88     86     87     81     90     32
D75V5, multiclass
        clus
vv       20P LOSS MUTATED 20P LOSS WILD-TYPE
  CLUS_1                0                 88
  CLUS_2                0                 86
  CLUS_3                3                 87
  CLUS_4                1                 81
  CLUS_5                2                 90
  CLUS_6                1                 32
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  20P LOSS MUTATED        1      3      2      1
  20P LOSS WILD-TYPE    134    109     83    138
D75V6, multiclass
        clus
vv       20P LOSS MUTATED 20P LOSS WILD-TYPE
  CLUS_1                1                134
  CLUS_2                3                109
  CLUS_3                2                 83
  CLUS_4                1                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 CLUS_4 CLUS_5
  20P LOSS MUTATED        1      1      0      6      0
  20P LOSS WILD-TYPE     80    169     81    147     40
D75V7, multiclass
        clus
vv       20P LOSS MUTATED 20P LOSS WILD-TYPE
  CLUS_1                1                 80
  CLUS_2                1                169
  CLUS_3                0                 81
  CLUS_4                6                147
  CLUS_5                0                 40
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  20P LOSS MUTATED        1      0      1      5      1      0
  20P LOSS WILD-TYPE    116     33    182    127     34     25
D75V8, multiclass
        clus
vv       20P LOSS MUTATED 20P LOSS WILD-TYPE
  CLUS_1                1                116
  CLUS_2                0                 33
  CLUS_3                1                182
  CLUS_4                5                127
  CLUS_5                1                 34
  CLUS_6                0                 25
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  20P LOSS MUTATED        2      1      0      5      0
  20P LOSS WILD-TYPE     89     56    186    114     57
D75V9, multiclass
        clus
vv       20P LOSS MUTATED 20P LOSS WILD-TYPE
  CLUS_1                2                 89
  CLUS_2                1                 56
  CLUS_3                0                186
  CLUS_4                5                114
  CLUS_5                0                 57
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  20P LOSS MUTATED        4      1      3
  20P LOSS WILD-TYPE    169    208    125
D75V10, multiclass
        clus
vv       20P LOSS MUTATED 20P LOSS WILD-TYPE
  CLUS_1                4                169
  CLUS_2                1                208
  CLUS_3                3                125
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  20P LOSS MUTATED        0      0      0      1
  20P LOSS WILD-TYPE     39     21     44     37
D75V11, multiclass
[1] "Remove cluster labels:" "20P LOSS MUTATED"      
clus
  20P LOSS MUTATED 20P LOSS WILD-TYPE 
                 1                141 
        TCGA-3Z-A93Z         TCGA-6D-AA2E         TCGA-A3-3317 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-A3-3358         TCGA-A3-3387         TCGA-A3-A6NI 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-A3-A6NJ         TCGA-A3-A6NL         TCGA-A3-A8CQ 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-A3-A8OU         TCGA-A3-A8OV         TCGA-A3-A8OW 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-A3-A8OX         TCGA-AK-3440         TCGA-AK-3458 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-AK-3465         TCGA-B0-4698         TCGA-B0-4700 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-B0-4706         TCGA-B0-4710         TCGA-B0-4712 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-B0-4810         TCGA-B0-4811         TCGA-B0-4836 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-B0-4837         TCGA-B0-4852         TCGA-B0-5080 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-B0-5085         TCGA-B0-5088         TCGA-B0-5399 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-B0-5691         TCGA-B0-5692         TCGA-B0-5693 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-B0-5694         TCGA-B0-5695         TCGA-B0-5696 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-B0-5699         TCGA-B0-5702         TCGA-B0-5705 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-B0-5709         TCGA-B2-3923         TCGA-B2-3924 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-B2-5633         TCGA-B2-5635         TCGA-B2-5639 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-B4-5377         TCGA-B4-5836         TCGA-B8-4621 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-B8-5545         TCGA-B8-5550         TCGA-B8-5551 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-B8-5552         TCGA-B8-5553         TCGA-B8-A54H 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-B8-A54I         TCGA-B8-A54J         TCGA-B8-A54K 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-B8-A7U6         TCGA-B8-A8YJ         TCGA-BP-4173 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-BP-4340         TCGA-BP-4761         TCGA-BP-4770 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-BP-4787         TCGA-BP-4789         TCGA-BP-4790 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-BP-4804         TCGA-BP-4807         TCGA-BP-4959 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-BP-4961         TCGA-BP-4967         TCGA-BP-4968 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-BP-4969         TCGA-BP-4970         TCGA-BP-4974 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-BP-4976         TCGA-BP-4981         TCGA-BP-4982 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-BP-4985         TCGA-BP-4988         TCGA-BP-4989 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-BP-4992         TCGA-BP-4995         TCGA-BP-4998 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-BP-5001         TCGA-BP-5008         TCGA-BP-5009 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-CJ-4870         TCGA-CJ-4875         TCGA-CJ-4876 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-CJ-4878         TCGA-CJ-4881         TCGA-CJ-4887 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-CJ-4889         TCGA-CJ-4890         TCGA-CJ-4895 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-CJ-4900         TCGA-CJ-5671         TCGA-CJ-5675 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-CJ-5676         TCGA-CJ-5681         TCGA-CJ-5683 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-CJ-5686         TCGA-CJ-6031         TCGA-CJ-6032 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-CW-5585         TCGA-CW-5589         TCGA-CW-6087 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-CW-6088         TCGA-CZ-4854         TCGA-CZ-4857 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-CZ-4858         TCGA-CZ-4860         TCGA-CZ-4864 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-CZ-5453         TCGA-CZ-5454         TCGA-CZ-5455 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-CZ-5457         TCGA-CZ-5459         TCGA-CZ-5462 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-CZ-5463         TCGA-CZ-5464         TCGA-CZ-5466 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-CZ-5467         TCGA-CZ-5469         TCGA-CZ-5470 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-CZ-5989         TCGA-DV-5565         TCGA-DV-5566 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-DV-5569         TCGA-DV-5573         TCGA-EU-5904 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-G6-A5PC         TCGA-G6-A8L6         TCGA-G6-A8L7 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-G6-A8L8         TCGA-GK-A6C7         TCGA-MM-A563 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-MM-A564         TCGA-MM-A84U         TCGA-T7-A92I 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  20P LOSS MUTATED        0      1      0      0
  20P LOSS WILD-TYPE     40     51     28     22
D75V12, multiclass
[1] "Remove cluster labels:" "20P LOSS MUTATED"      
clus
  20P LOSS MUTATED 20P LOSS WILD-TYPE 
                 1                141 
        TCGA-3Z-A93Z         TCGA-6D-AA2E         TCGA-A3-3317 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-A3-3358         TCGA-A3-3387         TCGA-A3-A6NI 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-A3-A6NJ         TCGA-A3-A6NL         TCGA-A3-A8CQ 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-A3-A8OU         TCGA-A3-A8OV         TCGA-A3-A8OW 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-A3-A8OX         TCGA-AK-3440         TCGA-AK-3458 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-AK-3465         TCGA-B0-4698         TCGA-B0-4700 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-B0-4706         TCGA-B0-4710         TCGA-B0-4712 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-B0-4810         TCGA-B0-4811         TCGA-B0-4836 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-B0-4837         TCGA-B0-4852         TCGA-B0-5080 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-B0-5085         TCGA-B0-5088         TCGA-B0-5399 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-B0-5691         TCGA-B0-5692         TCGA-B0-5693 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-B0-5694         TCGA-B0-5695         TCGA-B0-5696 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-B0-5699         TCGA-B0-5702         TCGA-B0-5705 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-B0-5709         TCGA-B2-3923         TCGA-B2-3924 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-B2-5633         TCGA-B2-5635         TCGA-B2-5639 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-B4-5377         TCGA-B4-5836         TCGA-B8-4621 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-B8-5545         TCGA-B8-5550         TCGA-B8-5551 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-B8-5552         TCGA-B8-5553         TCGA-B8-A54H 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-B8-A54I         TCGA-B8-A54J         TCGA-B8-A54K 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-B8-A7U6         TCGA-B8-A8YJ         TCGA-BP-4173 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-BP-4340         TCGA-BP-4761         TCGA-BP-4770 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-BP-4787         TCGA-BP-4789         TCGA-BP-4790 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-BP-4804         TCGA-BP-4807         TCGA-BP-4959 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-BP-4961         TCGA-BP-4967         TCGA-BP-4968 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-BP-4969         TCGA-BP-4970         TCGA-BP-4974 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-BP-4976         TCGA-BP-4981         TCGA-BP-4982 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-BP-4985         TCGA-BP-4988         TCGA-BP-4989 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-BP-4992         TCGA-BP-4995         TCGA-BP-4998 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-BP-5001         TCGA-BP-5008         TCGA-BP-5009 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-CJ-4870         TCGA-CJ-4875         TCGA-CJ-4876 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-CJ-4878         TCGA-CJ-4881         TCGA-CJ-4887 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-CJ-4889         TCGA-CJ-4890         TCGA-CJ-4895 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-CJ-4900         TCGA-CJ-5671         TCGA-CJ-5675 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-CJ-5676         TCGA-CJ-5681         TCGA-CJ-5683 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-CJ-5686         TCGA-CJ-6031         TCGA-CJ-6032 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-CW-5585         TCGA-CW-5589         TCGA-CW-6087 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-CW-6088         TCGA-CZ-4854         TCGA-CZ-4857 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-CZ-4858         TCGA-CZ-4860         TCGA-CZ-4864 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-CZ-5453         TCGA-CZ-5454         TCGA-CZ-5455 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-CZ-5457         TCGA-CZ-5459         TCGA-CZ-5462 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-CZ-5463         TCGA-CZ-5464         TCGA-CZ-5466 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-CZ-5467         TCGA-CZ-5469         TCGA-CZ-5470 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-CZ-5989         TCGA-DV-5565         TCGA-DV-5566 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-DV-5569         TCGA-DV-5573         TCGA-EU-5904 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-G6-A5PC         TCGA-G6-A8L6         TCGA-G6-A8L7 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-G6-A8L8         TCGA-GK-A6C7         TCGA-MM-A563 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 
        TCGA-MM-A564         TCGA-MM-A84U         TCGA-T7-A92I 
"20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" "20P LOSS WILD-TYPE" 

Clustering(76) Variable = 20Q LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  20Q LOSS MUTATED        0      1      0
  20Q LOSS WILD-TYPE     31     24     14
D76V1, multiclass
[1] "Remove cluster labels:" "20Q LOSS MUTATED"      
clus
  20Q LOSS MUTATED 20Q LOSS WILD-TYPE 
                 1                 69 
        TCGA-A3-3306         TCGA-A3-3307         TCGA-A3-3308 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-A3-3311         TCGA-A3-3313         TCGA-A3-3316 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-A3-3317         TCGA-A3-3319         TCGA-A3-3320 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-A3-3322         TCGA-A3-3323         TCGA-A3-3324 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-A3-3325         TCGA-A3-3326         TCGA-A3-3331 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-A3-3335         TCGA-A3-3336         TCGA-A3-3343 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-A3-3346         TCGA-A3-3347         TCGA-A3-3349 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-A3-3351         TCGA-A3-3352         TCGA-A3-3359 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-A3-3362         TCGA-A3-3363         TCGA-A3-3365 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-A3-3372         TCGA-A3-3374         TCGA-A3-3378 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-A3-3380         TCGA-A3-3382         TCGA-A3-3383 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AK-3426         TCGA-AK-3427         TCGA-AK-3440 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AK-3443         TCGA-AK-3444         TCGA-AK-3447 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AK-3453         TCGA-AK-3455         TCGA-AK-3456 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AK-3465         TCGA-AS-3777         TCGA-AS-3778 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-B2-3923         TCGA-B2-3924         TCGA-B2-4098 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-B2-4099         TCGA-B2-4102         TCGA-B8-4143 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-B8-4148         TCGA-B8-4151         TCGA-B8-4154 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-B8-4619         TCGA-B8-4620         TCGA-BP-4161 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-BP-4162         TCGA-BP-4163         TCGA-BP-4164 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-BP-4167         TCGA-CJ-4634         TCGA-CJ-4636 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-CJ-4638         TCGA-CJ-4639         TCGA-CJ-4640 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-CJ-4641         TCGA-CJ-4643         TCGA-CJ-4644 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  20Q LOSS MUTATED        0      0      0      1      0      0      0
  20Q LOSS WILD-TYPE     11     12      4     10     13      9     10
D76V2, multiclass
[1] "Remove cluster labels:" "20Q LOSS MUTATED"      
clus
  20Q LOSS MUTATED 20Q LOSS WILD-TYPE 
                 1                 69 
        TCGA-A3-3306         TCGA-A3-3307         TCGA-A3-3308 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-A3-3311         TCGA-A3-3313         TCGA-A3-3316 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-A3-3317         TCGA-A3-3319         TCGA-A3-3320 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-A3-3322         TCGA-A3-3323         TCGA-A3-3324 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-A3-3325         TCGA-A3-3326         TCGA-A3-3331 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-A3-3335         TCGA-A3-3336         TCGA-A3-3343 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-A3-3346         TCGA-A3-3347         TCGA-A3-3349 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-A3-3351         TCGA-A3-3352         TCGA-A3-3359 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-A3-3362         TCGA-A3-3363         TCGA-A3-3365 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-A3-3372         TCGA-A3-3374         TCGA-A3-3378 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-A3-3380         TCGA-A3-3382         TCGA-A3-3383 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AK-3426         TCGA-AK-3427         TCGA-AK-3440 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AK-3443         TCGA-AK-3444         TCGA-AK-3447 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AK-3453         TCGA-AK-3455         TCGA-AK-3456 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AK-3465         TCGA-AS-3777         TCGA-AS-3778 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-B2-3923         TCGA-B2-3924         TCGA-B2-4098 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-B2-4099         TCGA-B2-4102         TCGA-B8-4143 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-B8-4148         TCGA-B8-4151         TCGA-B8-4154 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-B8-4619         TCGA-B8-4620         TCGA-BP-4161 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-BP-4162         TCGA-BP-4163         TCGA-BP-4164 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-BP-4167         TCGA-CJ-4634         TCGA-CJ-4636 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-CJ-4638         TCGA-CJ-4639         TCGA-CJ-4640 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-CJ-4641         TCGA-CJ-4643         TCGA-CJ-4644 
"20Q LOSS WILD-TYPE" "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      3      0      0      0
  20Q LOSS WILD-TYPE     61     80    153     82     80     69
D76V3, multiclass
        clus
vv       20Q LOSS MUTATED 20Q LOSS WILD-TYPE
  CLUS_1                0                 61
  CLUS_2                0                 80
  CLUS_3                3                153
  CLUS_4                0                 82
  CLUS_5                0                 80
  CLUS_6                0                 69
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  20Q LOSS MUTATED        0      0      0      0
  20Q LOSS WILD-TYPE     67     70     96     81
D76V4, multiclass
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  20Q LOSS MUTATED        0      0      1      0      1      0
  20Q LOSS WILD-TYPE     88     86     89     82     91     33
D76V5, multiclass
[1] "Remove cluster labels:" "20Q LOSS MUTATED"      
clus
  20Q LOSS MUTATED 20Q LOSS WILD-TYPE 
                 2                469 
        TCGA-3Z-A93Z         TCGA-6D-AA2E         TCGA-A3-3306 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-A3-3308         TCGA-A3-3311         TCGA-A3-3313 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-A3-3316         TCGA-A3-3317         TCGA-A3-3319 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-A3-3320         TCGA-A3-3322         TCGA-A3-3323 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-A3-3324         TCGA-A3-3326         TCGA-A3-3331 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-A3-3335         TCGA-A3-3336         TCGA-A3-3346 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-A3-3347         TCGA-A3-3349         TCGA-A3-3351 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-A3-3352         TCGA-A3-3357         TCGA-A3-3362 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-A3-3363         TCGA-A3-3365         TCGA-A3-3367 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-A3-3370         TCGA-A3-3372         TCGA-A3-3373 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-A3-3374         TCGA-A3-3376         TCGA-A3-3378 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-A3-3380         TCGA-A3-3382         TCGA-A3-3383 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-A3-3385         TCGA-A3-3387         TCGA-AK-3427 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AK-3428         TCGA-AK-3434         TCGA-AK-3436 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AK-3444         TCGA-AK-3451         TCGA-AK-3456 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-B0-4688         TCGA-B0-4690         TCGA-B0-4691 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-B0-4693         TCGA-B0-4694         TCGA-B0-4696 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-B0-4697         TCGA-B0-4698         TCGA-B0-4699 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-B0-4700         TCGA-B0-4701         TCGA-B0-4703 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-B0-4706         TCGA-B0-4707         TCGA-B0-4710 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-B0-4712         TCGA-B0-4713         TCGA-B0-4714 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-B0-4718         TCGA-B0-4810         TCGA-B0-4811 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-B0-4813         TCGA-B0-4814         TCGA-B0-4815 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-B0-4816         TCGA-B0-4817         TCGA-B0-4818 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-B0-4819         TCGA-B0-4821         TCGA-B0-4822 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-B0-4823         TCGA-B0-4824         TCGA-B0-4827 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-B0-4828         TCGA-B0-4833         TCGA-B0-4834 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-B0-4836         TCGA-B0-4837         TCGA-B0-4838 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-B0-4839         TCGA-B0-4841         TCGA-B0-4842 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-B0-4843         TCGA-B0-4844         TCGA-B0-4845 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-B0-4846         TCGA-B0-4847         TCGA-B0-4848 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-B0-4849         TCGA-B0-4852         TCGA-B0-4945 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-B0-5075         TCGA-B0-5077         TCGA-B0-5080 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-B0-5081         TCGA-B0-5084         TCGA-B0-5085 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-B0-5088         TCGA-B0-5092         TCGA-B0-5094 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-B0-5095         TCGA-B0-5096         TCGA-B0-5097 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-B0-5098         TCGA-B0-5099         TCGA-B0-5100 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-B0-5102         TCGA-B0-5104         TCGA-B0-5106 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-B0-5107         TCGA-B0-5108         TCGA-B0-5109 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-B0-5110         TCGA-B0-5113         TCGA-B0-5115 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-B0-5116         TCGA-B0-5117         TCGA-B0-5119 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-B0-5120         TCGA-B0-5121         TCGA-B0-5399 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-B0-5400         TCGA-B0-5402         TCGA-B0-5690 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-B0-5691         TCGA-B0-5692         TCGA-B0-5693 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-B0-5694         TCGA-B0-5695         TCGA-B0-5696 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-B0-5697         TCGA-B0-5698         TCGA-B0-5699 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-B0-5701         TCGA-B0-5702         TCGA-B0-5703 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-B0-5705         TCGA-B0-5706         TCGA-B0-5709 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-B0-5710         TCGA-B0-5711         TCGA-B0-5712 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-B0-5713         TCGA-B0-5812         TCGA-B2-3923 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-B2-3924         TCGA-B2-4098         TCGA-B2-4099 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-B2-4101         TCGA-B2-4102         TCGA-B2-5633 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-B2-5635         TCGA-B2-5639         TCGA-B2-5641 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-B2-A4SR         TCGA-B4-5377         TCGA-B4-5378 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-B4-5832         TCGA-B4-5834         TCGA-B4-5835 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-B4-5836         TCGA-B4-5838         TCGA-B4-5843 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-B4-5844         TCGA-B8-4143         TCGA-B8-4146 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-B8-4153         TCGA-B8-4620         TCGA-B8-4621 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-B8-4622         TCGA-B8-5158         TCGA-B8-5159 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-B8-5162         TCGA-B8-5163         TCGA-B8-5164 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-B8-5165         TCGA-B8-5545         TCGA-B8-5546 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-B8-5549         TCGA-B8-5550         TCGA-B8-5551 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-B8-5552         TCGA-B8-5553         TCGA-B8-A54D 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-B8-A54E         TCGA-B8-A54F         TCGA-B8-A54G 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-B8-A54H         TCGA-B8-A54I         TCGA-B8-A54J 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-B8-A54K         TCGA-B8-A7U6         TCGA-B8-A8YJ 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-BP-4158         TCGA-BP-4161         TCGA-BP-4164 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-BP-4165         TCGA-BP-4169         TCGA-BP-4170 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-BP-4173         TCGA-BP-4174         TCGA-BP-4325 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-BP-4326         TCGA-BP-4327         TCGA-BP-4329 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-BP-4330         TCGA-BP-4331         TCGA-BP-4332 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-BP-4334         TCGA-BP-4335         TCGA-BP-4337 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-BP-4338         TCGA-BP-4341         TCGA-BP-4342 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-BP-4343         TCGA-BP-4344         TCGA-BP-4346 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-BP-4347         TCGA-BP-4349         TCGA-BP-4351 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-BP-4352         TCGA-BP-4353         TCGA-BP-4354 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-BP-4355         TCGA-BP-4756         TCGA-BP-4758 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-BP-4759         TCGA-BP-4760         TCGA-BP-4761 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-BP-4762         TCGA-BP-4763         TCGA-BP-4765 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-BP-4766         TCGA-BP-4768         TCGA-BP-4769 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-BP-4770         TCGA-BP-4771         TCGA-BP-4774 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-BP-4775         TCGA-BP-4776         TCGA-BP-4777 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-BP-4781         TCGA-BP-4784         TCGA-BP-4787 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-BP-4789         TCGA-BP-4790         TCGA-BP-4797 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-BP-4798         TCGA-BP-4799         TCGA-BP-4801 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-BP-4803         TCGA-BP-4804         TCGA-BP-4807 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-BP-4959         TCGA-BP-4960         TCGA-BP-4961 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-BP-4963         TCGA-BP-4964         TCGA-BP-4965 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-BP-4967         TCGA-BP-4968         TCGA-BP-4969 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-BP-4970         TCGA-BP-4971         TCGA-BP-4972 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-BP-4973         TCGA-BP-4974         TCGA-BP-4975 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-BP-4976         TCGA-BP-4977         TCGA-BP-4981 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-BP-4982         TCGA-BP-4983         TCGA-BP-4985 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-BP-4986         TCGA-BP-4987         TCGA-BP-4988 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-BP-4989         TCGA-BP-4991         TCGA-BP-4992 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-BP-4993         TCGA-BP-4994         TCGA-BP-4995 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-BP-4998         TCGA-BP-4999         TCGA-BP-5001 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-BP-5004         TCGA-BP-5006         TCGA-BP-5007 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-BP-5008         TCGA-BP-5009         TCGA-BP-5010 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-BP-5168         TCGA-BP-5169         TCGA-BP-5170 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-BP-5173         TCGA-BP-5174         TCGA-BP-5175 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-BP-5176         TCGA-BP-5177         TCGA-BP-5178 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-BP-5180         TCGA-BP-5181         TCGA-BP-5182 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-BP-5183         TCGA-BP-5184         TCGA-BP-5185 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-BP-5186         TCGA-BP-5187         TCGA-BP-5189 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-BP-5190         TCGA-BP-5191         TCGA-BP-5192 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-BP-5194         TCGA-BP-5195         TCGA-BP-5196 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-BP-5198         TCGA-BP-5199         TCGA-BP-5200 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-BP-5201         TCGA-BP-5202         TCGA-CJ-4634 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-CJ-4635         TCGA-CJ-4638         TCGA-CJ-4640 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-CJ-4642         TCGA-CJ-4868         TCGA-CJ-4869 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-CJ-4870         TCGA-CJ-4871         TCGA-CJ-4872 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-CJ-4873         TCGA-CJ-4874         TCGA-CJ-4875 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-CJ-4876         TCGA-CJ-4878         TCGA-CJ-4881 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-CJ-4882         TCGA-CJ-4884         TCGA-CJ-4885 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-CJ-4886         TCGA-CJ-4887         TCGA-CJ-4888 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-CJ-4889         TCGA-CJ-4890         TCGA-CJ-4891 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-CJ-4892         TCGA-CJ-4893         TCGA-CJ-4894 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-CJ-4895         TCGA-CJ-4897         TCGA-CJ-4899 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-CJ-4900         TCGA-CJ-4901         TCGA-CJ-4902 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-CJ-4903         TCGA-CJ-4904         TCGA-CJ-4905 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-CJ-4907         TCGA-CJ-4908         TCGA-CJ-4912 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-CJ-4913         TCGA-CJ-4916         TCGA-CJ-4918 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-CJ-4920         TCGA-CJ-4923         TCGA-CJ-5671 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-CJ-5672         TCGA-CJ-5675         TCGA-CJ-5676 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-CJ-5677         TCGA-CJ-5678         TCGA-CJ-5679 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-CJ-5680         TCGA-CJ-5681         TCGA-CJ-5682 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-CJ-5683         TCGA-CJ-5684         TCGA-CJ-5686 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-CJ-5689         TCGA-CJ-6027         TCGA-CJ-6028 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-CJ-6030         TCGA-CJ-6031         TCGA-CJ-6032 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-CJ-6033         TCGA-CW-5580         TCGA-CW-5581 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-CW-5583         TCGA-CW-5584         TCGA-CW-5585 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-CW-5587         TCGA-CW-5588         TCGA-CW-5589 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-CW-5591         TCGA-CW-6087         TCGA-CW-6088 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-CW-6090         TCGA-CW-6093         TCGA-CW-6097 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-CZ-4853         TCGA-CZ-4854         TCGA-CZ-4856 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-CZ-4857         TCGA-CZ-4858         TCGA-CZ-4859 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-CZ-4860         TCGA-CZ-4861         TCGA-CZ-4862 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-CZ-4863         TCGA-CZ-4864         TCGA-CZ-4865 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-CZ-4866         TCGA-CZ-5451         TCGA-CZ-5452 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-CZ-5453         TCGA-CZ-5454         TCGA-CZ-5455 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-CZ-5456         TCGA-CZ-5457         TCGA-CZ-5458 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-CZ-5459         TCGA-CZ-5460         TCGA-CZ-5461 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-CZ-5462         TCGA-CZ-5463         TCGA-CZ-5464 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-CZ-5465         TCGA-CZ-5466         TCGA-CZ-5467 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-CZ-5468         TCGA-CZ-5469         TCGA-CZ-5470 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-CZ-5982         TCGA-CZ-5984         TCGA-CZ-5985 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-CZ-5986         TCGA-CZ-5987         TCGA-CZ-5988 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-CZ-5989         TCGA-DV-5565         TCGA-DV-5566 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-DV-5567         TCGA-DV-5568         TCGA-DV-5569 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-DV-5573         TCGA-DV-5574         TCGA-DV-5575 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-DV-5576         TCGA-DV-A4VX         TCGA-DV-A4VZ 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-DV-A4W0         TCGA-EU-5904         TCGA-EU-5905 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-EU-5906         TCGA-EU-5907         TCGA-G6-A5PC 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-G6-A8L6         TCGA-G6-A8L7         TCGA-G6-A8L8 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-GK-A6C7         TCGA-MM-A563         TCGA-MM-A564 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-MW-A4EC 
"20Q LOSS WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  20Q LOSS MUTATED        0      1      1      0
  20Q LOSS WILD-TYPE    135    111     84    139
D76V6, multiclass
[1] "Remove cluster labels:" "20Q LOSS MUTATED"      
clus
  20Q LOSS MUTATED 20Q LOSS WILD-TYPE 
                 2                469 
        TCGA-3Z-A93Z         TCGA-6D-AA2E         TCGA-A3-3306 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-A3-3308         TCGA-A3-3311         TCGA-A3-3313 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-A3-3316         TCGA-A3-3317         TCGA-A3-3319 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-A3-3320         TCGA-A3-3322         TCGA-A3-3323 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-A3-3324         TCGA-A3-3326         TCGA-A3-3331 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-A3-3335         TCGA-A3-3336         TCGA-A3-3346 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-A3-3347         TCGA-A3-3349         TCGA-A3-3351 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-A3-3352         TCGA-A3-3357         TCGA-A3-3362 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-A3-3363         TCGA-A3-3365         TCGA-A3-3367 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-A3-3370         TCGA-A3-3372         TCGA-A3-3373 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-A3-3374         TCGA-A3-3376         TCGA-A3-3378 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-A3-3380         TCGA-A3-3382         TCGA-A3-3383 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-A3-3385         TCGA-A3-3387         TCGA-AK-3427 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AK-3428         TCGA-AK-3434         TCGA-AK-3436 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-AK-3444         TCGA-AK-3451         TCGA-AK-3456 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-B0-4688         TCGA-B0-4690         TCGA-B0-4691 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-B0-4693         TCGA-B0-4694         TCGA-B0-4696 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-B0-4697         TCGA-B0-4698         TCGA-B0-4699 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-B0-4700         TCGA-B0-4701         TCGA-B0-4703 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-B0-4706         TCGA-B0-4707         TCGA-B0-4710 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-B0-4712         TCGA-B0-4713         TCGA-B0-4714 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-B0-4718         TCGA-B0-4810         TCGA-B0-4811 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-B0-4813         TCGA-B0-4814         TCGA-B0-4815 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-B0-4816         TCGA-B0-4817         TCGA-B0-4818 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-B0-4819         TCGA-B0-4821         TCGA-B0-4822 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-B0-4823         TCGA-B0-4824         TCGA-B0-4827 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-B0-4828         TCGA-B0-4833         TCGA-B0-4834 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-B0-4836         TCGA-B0-4837         TCGA-B0-4838 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-B0-4839         TCGA-B0-4841         TCGA-B0-4842 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-B0-4843         TCGA-B0-4844         TCGA-B0-4845 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-B0-4846         TCGA-B0-4847         TCGA-B0-4848 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-B0-4849         TCGA-B0-4852         TCGA-B0-4945 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-B0-5075         TCGA-B0-5077         TCGA-B0-5080 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-B0-5081         TCGA-B0-5084         TCGA-B0-5085 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-B0-5088         TCGA-B0-5092         TCGA-B0-5094 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-B0-5095         TCGA-B0-5096         TCGA-B0-5097 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-B0-5098         TCGA-B0-5099         TCGA-B0-5100 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-B0-5102         TCGA-B0-5104         TCGA-B0-5106 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-B0-5107         TCGA-B0-5108         TCGA-B0-5109 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-B0-5110         TCGA-B0-5113         TCGA-B0-5115 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-B0-5116         TCGA-B0-5117         TCGA-B0-5119 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-B0-5120         TCGA-B0-5121         TCGA-B0-5399 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-B0-5400         TCGA-B0-5402         TCGA-B0-5690 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-B0-5691         TCGA-B0-5692         TCGA-B0-5693 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-B0-5694         TCGA-B0-5695         TCGA-B0-5696 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-B0-5697         TCGA-B0-5698         TCGA-B0-5699 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-B0-5701         TCGA-B0-5702         TCGA-B0-5703 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-B0-5705         TCGA-B0-5706         TCGA-B0-5709 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-B0-5710         TCGA-B0-5711         TCGA-B0-5712 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-B0-5713         TCGA-B0-5812         TCGA-B2-3923 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-B2-3924         TCGA-B2-4098         TCGA-B2-4099 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-B2-4101         TCGA-B2-4102         TCGA-B2-5633 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-B2-5635         TCGA-B2-5639         TCGA-B2-5641 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-B2-A4SR         TCGA-B4-5377         TCGA-B4-5378 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-B4-5832         TCGA-B4-5834         TCGA-B4-5835 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-B4-5836         TCGA-B4-5838         TCGA-B4-5843 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-B4-5844         TCGA-B8-4143         TCGA-B8-4146 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-B8-4153         TCGA-B8-4620         TCGA-B8-4621 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-B8-4622         TCGA-B8-5158         TCGA-B8-5159 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-B8-5162         TCGA-B8-5163         TCGA-B8-5164 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-B8-5165         TCGA-B8-5545         TCGA-B8-5546 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-B8-5549         TCGA-B8-5550         TCGA-B8-5551 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-B8-5552         TCGA-B8-5553         TCGA-B8-A54D 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-B8-A54E         TCGA-B8-A54F         TCGA-B8-A54G 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-B8-A54H         TCGA-B8-A54I         TCGA-B8-A54J 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-B8-A54K         TCGA-B8-A7U6         TCGA-B8-A8YJ 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-BP-4158         TCGA-BP-4161         TCGA-BP-4164 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-BP-4165         TCGA-BP-4169         TCGA-BP-4170 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-BP-4173         TCGA-BP-4174         TCGA-BP-4325 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-BP-4326         TCGA-BP-4327         TCGA-BP-4329 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-BP-4330         TCGA-BP-4331         TCGA-BP-4332 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-BP-4334         TCGA-BP-4335         TCGA-BP-4337 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-BP-4338         TCGA-BP-4341         TCGA-BP-4342 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-BP-4343         TCGA-BP-4344         TCGA-BP-4346 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-BP-4347         TCGA-BP-4349         TCGA-BP-4351 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-BP-4352         TCGA-BP-4353         TCGA-BP-4354 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-BP-4355         TCGA-BP-4756         TCGA-BP-4758 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-BP-4759         TCGA-BP-4760         TCGA-BP-4761 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-BP-4762         TCGA-BP-4763         TCGA-BP-4765 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-BP-4766         TCGA-BP-4768         TCGA-BP-4769 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-BP-4770         TCGA-BP-4771         TCGA-BP-4774 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-BP-4775         TCGA-BP-4776         TCGA-BP-4777 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-BP-4781         TCGA-BP-4784         TCGA-BP-4787 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-BP-4789         TCGA-BP-4790         TCGA-BP-4797 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-BP-4798         TCGA-BP-4799         TCGA-BP-4801 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-BP-4803         TCGA-BP-4804         TCGA-BP-4807 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-BP-4959         TCGA-BP-4960         TCGA-BP-4961 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-BP-4963         TCGA-BP-4964         TCGA-BP-4965 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-BP-4967         TCGA-BP-4968         TCGA-BP-4969 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-BP-4970         TCGA-BP-4971         TCGA-BP-4972 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-BP-4973         TCGA-BP-4974         TCGA-BP-4975 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-BP-4976         TCGA-BP-4977         TCGA-BP-4981 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-BP-4982         TCGA-BP-4983         TCGA-BP-4985 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-BP-4986         TCGA-BP-4987         TCGA-BP-4988 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-BP-4989         TCGA-BP-4991         TCGA-BP-4992 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-BP-4993         TCGA-BP-4994         TCGA-BP-4995 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-BP-4998         TCGA-BP-4999         TCGA-BP-5001 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-BP-5004         TCGA-BP-5006         TCGA-BP-5007 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-BP-5008         TCGA-BP-5009         TCGA-BP-5010 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-BP-5168         TCGA-BP-5169         TCGA-BP-5170 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-BP-5173         TCGA-BP-5174         TCGA-BP-5175 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-BP-5176         TCGA-BP-5177         TCGA-BP-5178 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-BP-5180         TCGA-BP-5181         TCGA-BP-5182 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-BP-5183         TCGA-BP-5184         TCGA-BP-5185 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-BP-5186         TCGA-BP-5187         TCGA-BP-5189 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-BP-5190         TCGA-BP-5191         TCGA-BP-5192 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-BP-5194         TCGA-BP-5195         TCGA-BP-5196 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-BP-5198         TCGA-BP-5199         TCGA-BP-5200 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-BP-5201         TCGA-BP-5202         TCGA-CJ-4634 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-CJ-4635         TCGA-CJ-4638         TCGA-CJ-4640 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-CJ-4642         TCGA-CJ-4868         TCGA-CJ-4869 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-CJ-4870         TCGA-CJ-4871         TCGA-CJ-4872 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-CJ-4873         TCGA-CJ-4874         TCGA-CJ-4875 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-CJ-4876         TCGA-CJ-4878         TCGA-CJ-4881 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-CJ-4882         TCGA-CJ-4884         TCGA-CJ-4885 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-CJ-4886         TCGA-CJ-4887         TCGA-CJ-4888 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-CJ-4889         TCGA-CJ-4890         TCGA-CJ-4891 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-CJ-4892         TCGA-CJ-4893         TCGA-CJ-4894 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-CJ-4895         TCGA-CJ-4897         TCGA-CJ-4899 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-CJ-4900         TCGA-CJ-4901         TCGA-CJ-4902 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-CJ-4903         TCGA-CJ-4904         TCGA-CJ-4905 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-CJ-4907         TCGA-CJ-4908         TCGA-CJ-4912 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-CJ-4913         TCGA-CJ-4916         TCGA-CJ-4918 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-CJ-4920         TCGA-CJ-4923         TCGA-CJ-5671 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-CJ-5672         TCGA-CJ-5675         TCGA-CJ-5676 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-CJ-5677         TCGA-CJ-5678         TCGA-CJ-5679 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-CJ-5680         TCGA-CJ-5681         TCGA-CJ-5682 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-CJ-5683         TCGA-CJ-5684         TCGA-CJ-5686 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-CJ-5689         TCGA-CJ-6027         TCGA-CJ-6028 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-CJ-6030         TCGA-CJ-6031         TCGA-CJ-6032 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-CJ-6033         TCGA-CW-5580         TCGA-CW-5581 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-CW-5583         TCGA-CW-5584         TCGA-CW-5585 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-CW-5587         TCGA-CW-5588         TCGA-CW-5589 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-CW-5591         TCGA-CW-6087         TCGA-CW-6088 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-CW-6090         TCGA-CW-6093         TCGA-CW-6097 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-CZ-4853         TCGA-CZ-4854         TCGA-CZ-4856 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-CZ-4857         TCGA-CZ-4858         TCGA-CZ-4859 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-CZ-4860         TCGA-CZ-4861         TCGA-CZ-4862 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-CZ-4863         TCGA-CZ-4864         TCGA-CZ-4865 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-CZ-4866         TCGA-CZ-5451         TCGA-CZ-5452 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-CZ-5453         TCGA-CZ-5454         TCGA-CZ-5455 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-CZ-5456         TCGA-CZ-5457         TCGA-CZ-5458 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-CZ-5459         TCGA-CZ-5460         TCGA-CZ-5461 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-CZ-5462         TCGA-CZ-5463         TCGA-CZ-5464 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-CZ-5465         TCGA-CZ-5466         TCGA-CZ-5467 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-CZ-5468         TCGA-CZ-5469         TCGA-CZ-5470 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-CZ-5982         TCGA-CZ-5984         TCGA-CZ-5985 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-CZ-5986         TCGA-CZ-5987         TCGA-CZ-5988 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-CZ-5989         TCGA-DV-5565         TCGA-DV-5566 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-DV-5567         TCGA-DV-5568         TCGA-DV-5569 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-DV-5573         TCGA-DV-5574         TCGA-DV-5575 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-DV-5576         TCGA-DV-A4VX         TCGA-DV-A4VZ 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-DV-A4W0         TCGA-EU-5904         TCGA-EU-5905 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-EU-5906         TCGA-EU-5907         TCGA-G6-A5PC 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-G6-A8L6         TCGA-G6-A8L7         TCGA-G6-A8L8 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-GK-A6C7         TCGA-MM-A563         TCGA-MM-A564 
"20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" "20Q LOSS WILD-TYPE" 
        TCGA-MW-A4EC 
"20Q LOSS WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  20Q LOSS MUTATED        0      0      0      3      0
  20Q LOSS WILD-TYPE     81    170     81    150     40
D76V7, multiclass
        clus
vv       20Q LOSS MUTATED 20Q LOSS WILD-TYPE
  CLUS_1                0                 81
  CLUS_2                0                170
  CLUS_3                0                 81
  CLUS_4                3                150
  CLUS_5                0                 40
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  20Q LOSS MUTATED        0      0      0      2      1      0
  20Q LOSS WILD-TYPE    117     33    183    130     34     25
D76V8, multiclass
        clus
vv       20Q LOSS MUTATED 20Q LOSS WILD-TYPE
  CLUS_1                0                117
  CLUS_2                0                 33
  CLUS_3                0                183
  CLUS_4                2                130
  CLUS_5                1                 34
  CLUS_6                0                 25
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  20Q LOSS MUTATED        0      1      0      2      0
  20Q LOSS WILD-TYPE     91     56    186    117     57
D76V9, multiclass
        clus
vv       20Q LOSS MUTATED 20Q LOSS WILD-TYPE
  CLUS_1                0                 91
  CLUS_2                1                 56
  CLUS_3                0                186
  CLUS_4                2                117
  CLUS_5                0                 57
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  20Q LOSS MUTATED        1      0      2
  20Q LOSS WILD-TYPE    172    209    126
D76V10, multiclass
        clus
vv       20Q LOSS MUTATED 20Q LOSS WILD-TYPE
  CLUS_1                1                172
  CLUS_2                0                209
  CLUS_3                2                126
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger 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      0
  20Q LOSS WILD-TYPE     39     21     44     38
D76V11, multiclass
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  20Q LOSS MUTATED        0      0      0      0
  20Q LOSS WILD-TYPE     40     52     28     22
D76V12, multiclass

Clustering(77) Variable = 21Q LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  21Q LOSS MUTATED        1      2      4
  21Q LOSS WILD-TYPE     30     23     10
D77V1, multiclass
        clus
vv       21Q LOSS MUTATED 21Q LOSS WILD-TYPE
  CLUS_1                1                 30
  CLUS_2                2                 23
  CLUS_3                4                 10
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  21Q LOSS MUTATED        0      1      0      1      1      0      4
  21Q LOSS WILD-TYPE     11     11      4     10     12      9      6
D77V2, multiclass
        clus
vv       21Q LOSS MUTATED 21Q LOSS WILD-TYPE
  CLUS_1                0                 11
  CLUS_2                1                 11
  CLUS_3                0                  4
  CLUS_4                1                 10
  CLUS_5                1                 12
  CLUS_6                0                  9
  CLUS_7                4                  6
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  21Q LOSS MUTATED        2     15     18      1      9     10
  21Q LOSS WILD-TYPE     59     65    138     81     71     59
D77V3, multiclass
        clus
vv       21Q LOSS MUTATED 21Q LOSS WILD-TYPE
  CLUS_1                2                 59
  CLUS_2               15                 65
  CLUS_3               18                138
  CLUS_4                1                 81
  CLUS_5                9                 71
  CLUS_6               10                 59
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  21Q LOSS MUTATED        9      9     14      3
  21Q LOSS WILD-TYPE     58     61     82     78
D77V4, multiclass
        clus
vv       21Q LOSS MUTATED 21Q LOSS WILD-TYPE
  CLUS_1                9                 58
  CLUS_2                9                 61
  CLUS_3               14                 82
  CLUS_4                3                 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 CLUS_5 CLUS_6
  21Q LOSS MUTATED       11      7     19      8      3      0
  21Q LOSS WILD-TYPE     77     79     71     74     89     33
D77V5, multiclass
        clus
vv       21Q LOSS MUTATED 21Q LOSS WILD-TYPE
  CLUS_1               11                 77
  CLUS_2                7                 79
  CLUS_3               19                 71
  CLUS_4                8                 74
  CLUS_5                3                 89
  CLUS_6                0                 33
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  21Q LOSS MUTATED        4     12     21     11
  21Q LOSS WILD-TYPE    131    100     64    128
D77V6, multiclass
        clus
vv       21Q LOSS MUTATED 21Q LOSS WILD-TYPE
  CLUS_1                4                131
  CLUS_2               12                100
  CLUS_3               21                 64
  CLUS_4               11                128
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  21Q LOSS MUTATED       19     10      4     17      3
  21Q LOSS WILD-TYPE     62    160     77    136     37
D77V7, multiclass
        clus
vv       21Q LOSS MUTATED 21Q LOSS WILD-TYPE
  CLUS_1               19                 62
  CLUS_2               10                160
  CLUS_3                4                 77
  CLUS_4               17                136
  CLUS_5                3                 37
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  21Q LOSS MUTATED       10      4     10     17      2     10
  21Q LOSS WILD-TYPE    107     29    173    115     33     15
D77V8, multiclass
        clus
vv       21Q LOSS MUTATED 21Q LOSS WILD-TYPE
  CLUS_1               10                107
  CLUS_2                4                 29
  CLUS_3               10                173
  CLUS_4               17                115
  CLUS_5                2                 33
  CLUS_6               10                 15
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  21Q LOSS MUTATED        7      7     14     25      1
  21Q LOSS WILD-TYPE     84     50    172     94     56
D77V9, multiclass
        clus
vv       21Q LOSS MUTATED 21Q LOSS WILD-TYPE
  CLUS_1                7                 84
  CLUS_2                7                 50
  CLUS_3               14                172
  CLUS_4               25                 94
  CLUS_5                1                 56
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  21Q LOSS MUTATED       21     12     21
  21Q LOSS WILD-TYPE    152    197    107
D77V10, multiclass
        clus
vv       21Q LOSS MUTATED 21Q LOSS WILD-TYPE
  CLUS_1               21                152
  CLUS_2               12                197
  CLUS_3               21                107
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  21Q LOSS MUTATED        6      3      4      6
  21Q LOSS WILD-TYPE     33     18     40     32
D77V11, multiclass
        clus
vv       21Q LOSS MUTATED 21Q LOSS WILD-TYPE
  CLUS_1                6                 33
  CLUS_2                3                 18
  CLUS_3                4                 40
  CLUS_4                6                 32
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  21Q LOSS MUTATED        5      8      4      2
  21Q LOSS WILD-TYPE     35     44     24     20
D77V12, multiclass
        clus
vv       21Q LOSS MUTATED 21Q LOSS WILD-TYPE
  CLUS_1                5                 35
  CLUS_2                8                 44
  CLUS_3                4                 24
  CLUS_4                2                 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"

Clustering(78) Variable = 22Q LOSS MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  22Q LOSS MUTATED        0      5      2
  22Q LOSS WILD-TYPE     31     20     12
D78V1, multiclass
        clus
vv       22Q LOSS MUTATED 22Q LOSS WILD-TYPE
  CLUS_1                0                 31
  CLUS_2                5                 20
  CLUS_3                2                 12
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  22Q LOSS MUTATED        0      0      2      4      0      0      1
  22Q LOSS WILD-TYPE     11     12      2      7     13      9      9
D78V2, multiclass
        clus
vv       22Q LOSS MUTATED 22Q LOSS WILD-TYPE
  CLUS_1                0                 11
  CLUS_2                0                 12
  CLUS_3                2                  2
  CLUS_4                4                  7
  CLUS_5                0                 13
  CLUS_6                0                  9
  CLUS_7                1                  9
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  22Q LOSS MUTATED        2      9     19      5      3      1
  22Q LOSS WILD-TYPE     59     71    137     77     77     68
D78V3, multiclass
        clus
vv       22Q LOSS MUTATED 22Q LOSS WILD-TYPE
  CLUS_1                2                 59
  CLUS_2                9                 71
  CLUS_3               19                137
  CLUS_4                5                 77
  CLUS_5                3                 77
  CLUS_6                1                 68
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  22Q LOSS MUTATED        2      6     14      2
  22Q LOSS WILD-TYPE     65     64     82     79
D78V4, multiclass
        clus
vv       22Q LOSS MUTATED 22Q LOSS WILD-TYPE
  CLUS_1                2                 65
  CLUS_2                6                 64
  CLUS_3               14                 82
  CLUS_4                2                 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 CLUS_5 CLUS_6
  22Q LOSS MUTATED        6      4     19      3      4      1
  22Q LOSS WILD-TYPE     82     82     71     79     88     32
D78V5, multiclass
        clus
vv       22Q LOSS MUTATED 22Q LOSS WILD-TYPE
  CLUS_1                6                 82
  CLUS_2                4                 82
  CLUS_3               19                 71
  CLUS_4                3                 79
  CLUS_5                4                 88
  CLUS_6                1                 32
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  22Q LOSS MUTATED        5     15      9      8
  22Q LOSS WILD-TYPE    130     97     76    131
D78V6, multiclass
        clus
vv       22Q LOSS MUTATED 22Q LOSS WILD-TYPE
  CLUS_1                5                130
  CLUS_2               15                 97
  CLUS_3                9                 76
  CLUS_4                8                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 CLUS_4 CLUS_5
  22Q LOSS MUTATED        7      2      2     27      1
  22Q LOSS WILD-TYPE     74    168     79    126     39
D78V7, multiclass
        clus
vv       22Q LOSS MUTATED 22Q LOSS WILD-TYPE
  CLUS_1                7                 74
  CLUS_2                2                168
  CLUS_3                2                 79
  CLUS_4               27                126
  CLUS_5                1                 39
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  22Q LOSS MUTATED        6      6      3     21      3      0
  22Q LOSS WILD-TYPE    111     27    180    111     32     25
D78V8, multiclass
        clus
vv       22Q LOSS MUTATED 22Q LOSS WILD-TYPE
  CLUS_1                6                111
  CLUS_2                6                 27
  CLUS_3                3                180
  CLUS_4               21                111
  CLUS_5                3                 32
  CLUS_6                0                 25
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  22Q LOSS MUTATED        3      7      6     21      2
  22Q LOSS WILD-TYPE     88     50    180     98     55
D78V9, multiclass
        clus
vv       22Q LOSS MUTATED 22Q LOSS WILD-TYPE
  CLUS_1                3                 88
  CLUS_2                7                 50
  CLUS_3                6                180
  CLUS_4               21                 98
  CLUS_5                2                 55
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  22Q LOSS MUTATED       17      6     16
  22Q LOSS WILD-TYPE    156    203    112
D78V10, multiclass
        clus
vv       22Q LOSS MUTATED 22Q LOSS WILD-TYPE
  CLUS_1               17                156
  CLUS_2                6                203
  CLUS_3               16                112
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  22Q LOSS MUTATED        0      0      2      5
  22Q LOSS WILD-TYPE     39     21     42     33
D78V11, multiclass
        clus
vv       22Q LOSS MUTATED 22Q LOSS WILD-TYPE
  CLUS_1                0                 39
  CLUS_2                0                 21
  CLUS_3                2                 42
  CLUS_4                5                 33
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  22Q LOSS MUTATED        0      4      2      1
  22Q LOSS WILD-TYPE     40     48     26     21
D78V12, multiclass
        clus
vv       22Q LOSS MUTATED 22Q LOSS WILD-TYPE
  CLUS_1                0                 40
  CLUS_2                4                 48
  CLUS_3                2                 26
  CLUS_4                1                 21
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(79) Variable = XP LOSS MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  XP LOSS MUTATED        3      1      5
  XP LOSS WILD-TYPE     28     24      9
D79V1, multiclass
        clus
vv       XP LOSS MUTATED XP LOSS WILD-TYPE
  CLUS_1               3                28
  CLUS_2               1                24
  CLUS_3               5                 9
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  XP LOSS MUTATED        2      1      0      0      1      0      5
  XP LOSS WILD-TYPE      9     11      4     11     12      9      5
D79V2, multiclass
        clus
vv       XP LOSS MUTATED XP LOSS WILD-TYPE
  CLUS_1               2                 9
  CLUS_2               1                11
  CLUS_3               0                 4
  CLUS_4               0                11
  CLUS_5               1                12
  CLUS_6               0                 9
  CLUS_7               5                 5
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  XP LOSS MUTATED        0      1     22      6      6     10
  XP LOSS WILD-TYPE     61     79    134     76     74     59
D79V3, multiclass
        clus
vv       XP LOSS MUTATED XP LOSS WILD-TYPE
  CLUS_1               0                61
  CLUS_2               1                79
  CLUS_3              22               134
  CLUS_4               6                76
  CLUS_5               6                74
  CLUS_6              10                59
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  XP LOSS MUTATED        6      3     15      3
  XP LOSS WILD-TYPE     61     67     81     78
D79V4, multiclass
        clus
vv       XP LOSS MUTATED XP LOSS WILD-TYPE
  CLUS_1               6                61
  CLUS_2               3                67
  CLUS_3              15                81
  CLUS_4               3                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 CLUS_5 CLUS_6
  XP LOSS MUTATED        8     10      7      9      5      1
  XP LOSS WILD-TYPE     80     76     83     73     87     32
D79V5, multiclass
        clus
vv       XP LOSS MUTATED XP LOSS WILD-TYPE
  CLUS_1               8                80
  CLUS_2              10                76
  CLUS_3               7                83
  CLUS_4               9                73
  CLUS_5               5                87
  CLUS_6               1                32
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  XP LOSS MUTATED        8     12     11      9
  XP LOSS WILD-TYPE    127    100     74    130
D79V6, multiclass
        clus
vv       XP LOSS MUTATED XP LOSS WILD-TYPE
  CLUS_1               8               127
  CLUS_2              12               100
  CLUS_3              11                74
  CLUS_4               9               130
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  XP LOSS MUTATED       15     11      2     12      5
  XP LOSS WILD-TYPE     66    159     79    141     35
D79V7, multiclass
        clus
vv       XP LOSS MUTATED XP LOSS WILD-TYPE
  CLUS_1              15                66
  CLUS_2              11               159
  CLUS_3               2                79
  CLUS_4              12               141
  CLUS_5               5                35
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  XP LOSS MUTATED        9      1     12     11      5      7
  XP LOSS WILD-TYPE    108     32    171    121     30     18
D79V8, multiclass
        clus
vv       XP LOSS MUTATED XP LOSS WILD-TYPE
  CLUS_1               9               108
  CLUS_2               1                32
  CLUS_3              12               171
  CLUS_4              11               121
  CLUS_5               5                30
  CLUS_6               7                18
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  XP LOSS MUTATED        5      6     13     17      3
  XP LOSS WILD-TYPE     86     51    173    102     54
D79V9, multiclass
        clus
vv       XP LOSS MUTATED XP LOSS WILD-TYPE
  CLUS_1               5                86
  CLUS_2               6                51
  CLUS_3              13               173
  CLUS_4              17               102
  CLUS_5               3                54
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  XP LOSS MUTATED       10     12     22
  XP LOSS WILD-TYPE    163    197    106
D79V10, multiclass
        clus
vv       XP LOSS MUTATED XP LOSS WILD-TYPE
  CLUS_1              10               163
  CLUS_2              12               197
  CLUS_3              22               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 CLUS_4
  XP LOSS MUTATED        6      0      1      3
  XP LOSS WILD-TYPE     33     21     43     35
D79V11, multiclass
        clus
vv       XP LOSS MUTATED XP LOSS WILD-TYPE
  CLUS_1               6                33
  CLUS_2               0                21
  CLUS_3               1                43
  CLUS_4               3                35
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  XP LOSS MUTATED        5      4      0      1
  XP LOSS WILD-TYPE     35     48     28     21
D79V12, multiclass
        clus
vv       XP LOSS MUTATED XP LOSS WILD-TYPE
  CLUS_1               5                35
  CLUS_2               4                48
  CLUS_3               0                28
  CLUS_4               1                21
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(80) Variable = XQ LOSS MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  XQ LOSS MUTATED        2      3      5
  XQ LOSS WILD-TYPE     29     22      9
D80V1, multiclass
        clus
vv       XQ LOSS MUTATED XQ LOSS WILD-TYPE
  CLUS_1               2                29
  CLUS_2               3                22
  CLUS_3               5                 9
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  XQ LOSS MUTATED        1      3      0      0      1      0      5
  XQ LOSS WILD-TYPE     10      9      4     11     12      9      5
D80V2, multiclass
        clus
vv       XQ LOSS MUTATED XQ LOSS WILD-TYPE
  CLUS_1               1                10
  CLUS_2               3                 9
  CLUS_3               0                 4
  CLUS_4               0                11
  CLUS_5               1                12
  CLUS_6               0                 9
  CLUS_7               5                 5
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  XQ LOSS MUTATED        0      2     26      6      4      7
  XQ LOSS WILD-TYPE     61     78    130     76     76     62
D80V3, multiclass
        clus
vv       XQ LOSS MUTATED XQ LOSS WILD-TYPE
  CLUS_1               0                61
  CLUS_2               2                78
  CLUS_3              26               130
  CLUS_4               6                76
  CLUS_5               4                76
  CLUS_6               7                62
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  XQ LOSS MUTATED        4      3     16      2
  XQ LOSS WILD-TYPE     63     67     80     79
D80V4, multiclass
        clus
vv       XQ LOSS MUTATED XQ LOSS WILD-TYPE
  CLUS_1               4                63
  CLUS_2               3                67
  CLUS_3              16                80
  CLUS_4               2                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 CLUS_5 CLUS_6
  XQ LOSS MUTATED       10      9      8      7      5      1
  XQ LOSS WILD-TYPE     78     77     82     75     87     32
D80V5, multiclass
        clus
vv       XQ LOSS MUTATED XQ LOSS WILD-TYPE
  CLUS_1              10                78
  CLUS_2               9                77
  CLUS_3               8                82
  CLUS_4               7                75
  CLUS_5               5                87
  CLUS_6               1                32
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  XQ LOSS MUTATED        8     12     13      7
  XQ LOSS WILD-TYPE    127    100     72    132
D80V6, multiclass
        clus
vv       XQ LOSS MUTATED XQ LOSS WILD-TYPE
  CLUS_1               8               127
  CLUS_2              12               100
  CLUS_3              13                72
  CLUS_4               7               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 CLUS_4 CLUS_5
  XQ LOSS MUTATED       14      9      3     15      4
  XQ LOSS WILD-TYPE     67    161     78    138     36
D80V7, multiclass
        clus
vv       XQ LOSS MUTATED XQ LOSS WILD-TYPE
  CLUS_1              14                67
  CLUS_2               9               161
  CLUS_3               3                78
  CLUS_4              15               138
  CLUS_5               4                36
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  XQ LOSS MUTATED        8      2     10     15      4      6
  XQ LOSS WILD-TYPE    109     31    173    117     31     19
D80V8, multiclass
        clus
vv       XQ LOSS MUTATED XQ LOSS WILD-TYPE
  CLUS_1               8               109
  CLUS_2               2                31
  CLUS_3              10               173
  CLUS_4              15               117
  CLUS_5               4                31
  CLUS_6               6                19
[1] 6 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  XQ LOSS MUTATED        6      5     10     20      3
  XQ LOSS WILD-TYPE     85     52    176     99     54
D80V9, multiclass
        clus
vv       XQ LOSS MUTATED XQ LOSS WILD-TYPE
  CLUS_1               6                85
  CLUS_2               5                52
  CLUS_3              10               176
  CLUS_4              20                99
  CLUS_5               3                54
[1] 5 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  XQ LOSS MUTATED       13     10     21
  XQ LOSS WILD-TYPE    160    199    107
D80V10, multiclass
        clus
vv       XQ LOSS MUTATED XQ LOSS WILD-TYPE
  CLUS_1              13               160
  CLUS_2              10               199
  CLUS_3              21               107
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  XQ LOSS MUTATED        5      1      1      3
  XQ LOSS WILD-TYPE     34     20     43     35
D80V11, multiclass
        clus
vv       XQ LOSS MUTATED XQ LOSS WILD-TYPE
  CLUS_1               5                34
  CLUS_2               1                20
  CLUS_3               1                43
  CLUS_4               3                35
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  XQ LOSS MUTATED        4      5      0      1
  XQ LOSS WILD-TYPE     36     47     28     21
D80V12, multiclass
        clus
vv       XQ LOSS MUTATED XQ LOSS WILD-TYPE
  CLUS_1               4                36
  CLUS_2               5                47
  CLUS_3               0                28
  CLUS_4               1                21
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
