[1] "ofn"        "-oTKIRP-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/KIRP-TP/15098835/KIRP-TP.transferedmergedcluster.txt"
[1] "dfn:"
[1] "/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_Correlate_Genomic_Events_Preprocess/KIRP-TP/15174863/transformed.cor.cli.txt"

nPatients in clinical file=291, in cluster file=161, common to both=161
[1]  19 161
[1] "HNRNPM MUTATION ANALYSIS"
[1] 3
  HNRNPM MUTATED HNRNPM WILD-TYPE 
              10              151 
  HNRNPM MUTATED HNRNPM WILD-TYPE 
              10              151 
[1] "NEFH MUTATION ANALYSIS"
[1] 3
  NEFH MUTATED NEFH WILD-TYPE 
            10            151 
  NEFH MUTATED NEFH WILD-TYPE 
            10            151 
[1] "ZNF598 MUTATION ANALYSIS"
[1] 3
  ZNF598 MUTATED ZNF598 WILD-TYPE 
              10              151 
  ZNF598 MUTATED ZNF598 WILD-TYPE 
              10              151 
[1] "NF2 MUTATION ANALYSIS"
[1] 3
  NF2 MUTATED NF2 WILD-TYPE 
           10           151 
  NF2 MUTATED NF2 WILD-TYPE 
           10           151 
[1] "TDG MUTATION ANALYSIS"
[1] 3
  TDG MUTATED TDG WILD-TYPE 
            5           156 
  TDG MUTATED TDG WILD-TYPE 
            5           156 
[1] "SKI MUTATION ANALYSIS"
[1] 3
  SKI MUTATED SKI WILD-TYPE 
            6           155 
  SKI MUTATED SKI WILD-TYPE 
            6           155 
[1] "MUC5B MUTATION ANALYSIS"
[1] 3
  MUC5B MUTATED MUC5B WILD-TYPE 
             14             147 
  MUC5B MUTATED MUC5B WILD-TYPE 
             14             147 
[1] "ZNF814 MUTATION ANALYSIS"
[1] 3
  ZNF814 MUTATED ZNF814 WILD-TYPE 
               8              153 
  ZNF814 MUTATED ZNF814 WILD-TYPE 
               8              153 
[1] "MET MUTATION ANALYSIS"
[1] 3
  MET MUTATED MET WILD-TYPE 
           15           146 
  MET MUTATED MET WILD-TYPE 
           15           146 
[1] "SMARCB1 MUTATION ANALYSIS"
[1] 3
  SMARCB1 MUTATED SMARCB1 WILD-TYPE 
                4               157 
  SMARCB1 MUTATED SMARCB1 WILD-TYPE 
                4               157 
[1] "KDM6A MUTATION ANALYSIS"
[1] 3
  KDM6A MUTATED KDM6A WILD-TYPE 
              7             154 
  KDM6A MUTATED KDM6A WILD-TYPE 
              7             154 
[1] "SETD2 MUTATION ANALYSIS"
[1] 3
  SETD2 MUTATED SETD2 WILD-TYPE 
             10             151 
  SETD2 MUTATED SETD2 WILD-TYPE 
             10             151 
[1] "AHNAK2 MUTATION ANALYSIS"
[1] 3
  AHNAK2 MUTATED AHNAK2 WILD-TYPE 
               7              154 
  AHNAK2 MUTATED AHNAK2 WILD-TYPE 
               7              154 
[1] "AHCY MUTATION ANALYSIS"
[1] 3
  AHCY MUTATED AHCY WILD-TYPE 
             4            157 
  AHCY MUTATED AHCY WILD-TYPE 
             4            157 
[1] "IDUA MUTATION ANALYSIS"
[1] 3
  IDUA MUTATED IDUA WILD-TYPE 
             5            156 
  IDUA MUTATED IDUA WILD-TYPE 
             5            156 
[1] "OR2L8 MUTATION ANALYSIS"
[1] 3
  OR2L8 MUTATED OR2L8 WILD-TYPE 
              4             157 
  OR2L8 MUTATED OR2L8 WILD-TYPE 
              4             157 
[1] "HOXD8 MUTATION ANALYSIS"
[1] 3
  HOXD8 MUTATED HOXD8 WILD-TYPE 
              4             157 
  HOXD8 MUTATED HOXD8 WILD-TYPE 
              4             157 
[1] "PAM MUTATION ANALYSIS"
[1] 3
  PAM MUTATED PAM WILD-TYPE 
            3           158 
  PAM MUTATED PAM WILD-TYPE 
            3           158 
[1] "CSGALNACT2 MUTATION ANALYSIS"
[1] 3
  CSGALNACT2 MUTATED CSGALNACT2 WILD-TYPE 
                   5                  156 
  CSGALNACT2 MUTATED CSGALNACT2 WILD-TYPE 
                   5                  156 
[1] "data2feature, selection=ALL"
 [1] "CN_CNMF"                     "METHLYATION_CNMF"           
 [3] "RPPA_CNMF"                   "RPPA_CHIERARCHICAL"         
 [5] "MRNASEQ_CNMF"                "MRNASEQ_CHIERARCHICAL"      
 [7] "MIRSEQ_CNMF"                 "MIRSEQ_CHIERARCHICAL"       
 [9] "MIRSEQ_MATURE_CNMF"          "MIRSEQ_MATURE_CHIERARCHICAL"

Input Data has 10 rows and 161 columns.

Variable 1:'CN_CNMF':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 2:'METHLYATION_CNMF':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 3:'RPPA_CNMF':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 4:'RPPA_CHIERARCHICAL':	nDistinctValues=7,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 5:'MRNASEQ_CNMF':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 6:'MRNASEQ_CHIERARCHICAL':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 7:'MIRSEQ_CNMF':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 8:'MIRSEQ_CHIERARCHICAL':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 9:'MIRSEQ_MATURE_CNMF':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 10:'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 161 columns, 0 survival variables, and 10 non-survival variables.
[1] "* survival variables: "
NULL
[1] "* non-survival variables: "
 [1] "CN_CNMF"                     "METHLYATION_CNMF"           
 [3] "RPPA_CNMF"                   "RPPA_CHIERARCHICAL"         
 [5] "MRNASEQ_CNMF"                "MRNASEQ_CHIERARCHICAL"      
 [7] "MIRSEQ_CNMF"                 "MIRSEQ_CHIERARCHICAL"       
 [9] "MIRSEQ_MATURE_CNMF"          "MIRSEQ_MATURE_CHIERARCHICAL"
CN_CNMF, nv=4, binary=FALSE, numeric=FALSE
METHLYATION_CNMF, nv=3, binary=FALSE, numeric=FALSE
RPPA_CNMF, nv=3, binary=FALSE, numeric=FALSE
RPPA_CHIERARCHICAL, nv=7, binary=FALSE, numeric=FALSE
MRNASEQ_CNMF, nv=4, binary=FALSE, numeric=FALSE
MRNASEQ_CHIERARCHICAL, nv=3, binary=FALSE, numeric=FALSE
MIRSEQ_CNMF, nv=3, binary=FALSE, numeric=FALSE
MIRSEQ_CHIERARCHICAL, nv=4, binary=FALSE, numeric=FALSE
MIRSEQ_MATURE_CNMF, nv=3, binary=FALSE, numeric=FALSE
MIRSEQ_MATURE_CHIERARCHICAL, nv=4, binary=FALSE, numeric=FALSE

Clustering(1) Variable = HNRNPM MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  HNRNPM MUTATED        7      0      2      1
  HNRNPM WILD-TYPE     54     39     23     35
D1V1, multiclass
        clus
vv       HNRNPM MUTATED HNRNPM WILD-TYPE
  CLUS_1              7               54
  CLUS_2              0               39
  CLUS_3              2               23
  CLUS_4              1               35
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  HNRNPM MUTATED        5      3      2
  HNRNPM WILD-TYPE     38     42     58
D1V2, multiclass
        clus
vv       HNRNPM MUTATED HNRNPM WILD-TYPE
  CLUS_1              5               38
  CLUS_2              3               42
  CLUS_3              2               58
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  HNRNPM MUTATED        4      4      2
  HNRNPM WILD-TYPE     42     42     30
D1V3, multiclass
        clus
vv       HNRNPM MUTATED HNRNPM WILD-TYPE
  CLUS_1              4               42
  CLUS_2              4               42
  CLUS_3              2               30
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  HNRNPM MUTATED        3      1      1      2      1      1      1
  HNRNPM WILD-TYPE      8     11     20     21     15     24     15
D1V4, multiclass
        clus
vv       HNRNPM MUTATED HNRNPM WILD-TYPE
  CLUS_1              3                8
  CLUS_2              1               11
  CLUS_3              1               20
  CLUS_4              2               21
  CLUS_5              1               15
  CLUS_6              1               24
  CLUS_7              1               15
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  HNRNPM MUTATED        3      2      1      4
  HNRNPM WILD-TYPE     20     43     34     54
D1V5, multiclass
        clus
vv       HNRNPM MUTATED HNRNPM WILD-TYPE
  CLUS_1              3               20
  CLUS_2              2               43
  CLUS_3              1               34
  CLUS_4              4               54
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  HNRNPM MUTATED        4      3      3
  HNRNPM WILD-TYPE     63     61     27
D1V6, multiclass
        clus
vv       HNRNPM MUTATED HNRNPM WILD-TYPE
  CLUS_1              4               63
  CLUS_2              3               61
  CLUS_3              3               27
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  HNRNPM MUTATED        2      3      5
  HNRNPM WILD-TYPE     45     51     55
D1V7, multiclass
        clus
vv       HNRNPM MUTATED HNRNPM WILD-TYPE
  CLUS_1              2               45
  CLUS_2              3               51
  CLUS_3              5               55
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  HNRNPM MUTATED        0      4      2      4
  HNRNPM WILD-TYPE     30     31     37     53
D1V8, multiclass
        clus
vv       HNRNPM MUTATED HNRNPM WILD-TYPE
  CLUS_1              0               30
  CLUS_2              4               31
  CLUS_3              2               37
  CLUS_4              4               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
  HNRNPM MUTATED        3      1      5
  HNRNPM WILD-TYPE     34     38     41
D1V9, multiclass
        clus
vv       HNRNPM MUTATED HNRNPM WILD-TYPE
  CLUS_1              3               34
  CLUS_2              1               38
  CLUS_3              5               41
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  HNRNPM MUTATED        4      5      0      0
  HNRNPM WILD-TYPE     43     42     12     16
D1V10, multiclass
        clus
vv       HNRNPM MUTATED HNRNPM WILD-TYPE
  CLUS_1              4               43
  CLUS_2              5               42
  CLUS_3              0               12
  CLUS_4              0               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(2) Variable = NEFH MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NEFH MUTATED        3      1      2      4
  NEFH WILD-TYPE     58     38     23     32
D2V1, multiclass
        clus
vv       NEFH MUTATED NEFH WILD-TYPE
  CLUS_1            3             58
  CLUS_2            1             38
  CLUS_3            2             23
  CLUS_4            4             32
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NEFH MUTATED        3      2      4
  NEFH WILD-TYPE     40     43     56
D2V2, multiclass
        clus
vv       NEFH MUTATED NEFH WILD-TYPE
  CLUS_1            3             40
  CLUS_2            2             43
  CLUS_3            4             56
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NEFH MUTATED        3      1      3
  NEFH WILD-TYPE     43     45     29
D2V3, multiclass
        clus
vv       NEFH MUTATED NEFH WILD-TYPE
  CLUS_1            3             43
  CLUS_2            1             45
  CLUS_3            3             29
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  NEFH MUTATED        0      1      0      3      0      1      2
  NEFH WILD-TYPE     11     11     21     20     16     24     14
D2V4, multiclass
        clus
vv       NEFH MUTATED NEFH WILD-TYPE
  CLUS_1            0             11
  CLUS_2            1             11
  CLUS_3            0             21
  CLUS_4            3             20
  CLUS_5            0             16
  CLUS_6            1             24
  CLUS_7            2             14
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NEFH MUTATED        0      3      5      2
  NEFH WILD-TYPE     23     42     30     56
D2V5, multiclass
        clus
vv       NEFH MUTATED NEFH WILD-TYPE
  CLUS_1            0             23
  CLUS_2            3             42
  CLUS_3            5             30
  CLUS_4            2             56
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NEFH MUTATED        6      3      1
  NEFH WILD-TYPE     61     61     29
D2V6, multiclass
        clus
vv       NEFH MUTATED NEFH WILD-TYPE
  CLUS_1            6             61
  CLUS_2            3             61
  CLUS_3            1             29
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NEFH MUTATED        5      5      0
  NEFH WILD-TYPE     42     49     60
D2V7, multiclass
        clus
vv       NEFH MUTATED NEFH WILD-TYPE
  CLUS_1            5             42
  CLUS_2            5             49
  CLUS_3            0             60
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NEFH MUTATED        3      4      3      0
  NEFH WILD-TYPE     27     31     36     57
D2V8, multiclass
        clus
vv       NEFH MUTATED NEFH WILD-TYPE
  CLUS_1            3             27
  CLUS_2            4             31
  CLUS_3            3             36
  CLUS_4            0             57
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NEFH MUTATED        2      1      0
  NEFH WILD-TYPE     35     38     46
D2V9, multiclass
        clus
vv       NEFH MUTATED NEFH WILD-TYPE
  CLUS_1            2             35
  CLUS_2            1             38
  CLUS_3            0             46
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NEFH MUTATED        3      0      0      0
  NEFH WILD-TYPE     44     47     12     16
D2V10, multiclass
        clus
vv       NEFH MUTATED NEFH WILD-TYPE
  CLUS_1            3             44
  CLUS_2            0             47
  CLUS_3            0             12
  CLUS_4            0             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(3) Variable = ZNF598 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZNF598 MUTATED        4      1      1      4
  ZNF598 WILD-TYPE     57     38     24     32
D3V1, multiclass
        clus
vv       ZNF598 MUTATED ZNF598 WILD-TYPE
  CLUS_1              4               57
  CLUS_2              1               38
  CLUS_3              1               24
  CLUS_4              4               32
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF598 MUTATED        3      3      3
  ZNF598 WILD-TYPE     40     42     57
D3V2, multiclass
        clus
vv       ZNF598 MUTATED ZNF598 WILD-TYPE
  CLUS_1              3               40
  CLUS_2              3               42
  CLUS_3              3               57
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF598 MUTATED        4      4      1
  ZNF598 WILD-TYPE     42     42     31
D3V3, multiclass
        clus
vv       ZNF598 MUTATED ZNF598 WILD-TYPE
  CLUS_1              4               42
  CLUS_2              4               42
  CLUS_3              1               31
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  ZNF598 MUTATED        2      1      1      1      3      0      1
  ZNF598 WILD-TYPE      9     11     20     22     13     25     15
D3V4, multiclass
        clus
vv       ZNF598 MUTATED ZNF598 WILD-TYPE
  CLUS_1              2                9
  CLUS_2              1               11
  CLUS_3              1               20
  CLUS_4              1               22
  CLUS_5              3               13
  CLUS_6              0               25
  CLUS_7              1               15
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZNF598 MUTATED        4      2      1      3
  ZNF598 WILD-TYPE     19     43     34     55
D3V5, multiclass
        clus
vv       ZNF598 MUTATED ZNF598 WILD-TYPE
  CLUS_1              4               19
  CLUS_2              2               43
  CLUS_3              1               34
  CLUS_4              3               55
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF598 MUTATED        3      4      3
  ZNF598 WILD-TYPE     64     60     27
D3V6, multiclass
        clus
vv       ZNF598 MUTATED ZNF598 WILD-TYPE
  CLUS_1              3               64
  CLUS_2              4               60
  CLUS_3              3               27
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF598 MUTATED        2      2      6
  ZNF598 WILD-TYPE     45     52     54
D3V7, multiclass
        clus
vv       ZNF598 MUTATED ZNF598 WILD-TYPE
  CLUS_1              2               45
  CLUS_2              2               52
  CLUS_3              6               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
  ZNF598 MUTATED        2      0      2      6
  ZNF598 WILD-TYPE     28     35     37     51
D3V8, multiclass
        clus
vv       ZNF598 MUTATED ZNF598 WILD-TYPE
  CLUS_1              2               28
  CLUS_2              0               35
  CLUS_3              2               37
  CLUS_4              6               51
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF598 MUTATED        2      1      7
  ZNF598 WILD-TYPE     35     38     39
D3V9, multiclass
        clus
vv       ZNF598 MUTATED ZNF598 WILD-TYPE
  CLUS_1              2               35
  CLUS_2              1               38
  CLUS_3              7               39
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZNF598 MUTATED        1      7      1      1
  ZNF598 WILD-TYPE     46     40     11     15
D3V10, multiclass
        clus
vv       ZNF598 MUTATED ZNF598 WILD-TYPE
  CLUS_1              1               46
  CLUS_2              7               40
  CLUS_3              1               11
  CLUS_4              1               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(4) Variable = NF2 MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NF2 MUTATED        4      1      0      5
  NF2 WILD-TYPE     57     38     25     31
D4V1, multiclass
        clus
vv       NF2 MUTATED NF2 WILD-TYPE
  CLUS_1           4            57
  CLUS_2           1            38
  CLUS_3           0            25
  CLUS_4           5            31
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  NF2 MUTATED        0      6      3
  NF2 WILD-TYPE     43     39     57
D4V2, multiclass
        clus
vv       NF2 MUTATED NF2 WILD-TYPE
  CLUS_1           0            43
  CLUS_2           6            39
  CLUS_3           3            57
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  NF2 MUTATED        2      4      3
  NF2 WILD-TYPE     44     42     29
D4V3, multiclass
        clus
vv       NF2 MUTATED NF2 WILD-TYPE
  CLUS_1           2            44
  CLUS_2           4            42
  CLUS_3           3            29
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  NF2 MUTATED        0      1      2      0      3      2      1
  NF2 WILD-TYPE     11     11     19     23     13     23     15
D4V4, multiclass
        clus
vv       NF2 MUTATED NF2 WILD-TYPE
  CLUS_1           0            11
  CLUS_2           1            11
  CLUS_3           2            19
  CLUS_4           0            23
  CLUS_5           3            13
  CLUS_6           2            23
  CLUS_7           1            15
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NF2 MUTATED        0      4      0      6
  NF2 WILD-TYPE     23     41     35     52
D4V5, multiclass
        clus
vv       NF2 MUTATED NF2 WILD-TYPE
  CLUS_1           0            23
  CLUS_2           4            41
  CLUS_3           0            35
  CLUS_4           6            52
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  NF2 MUTATED        3      3      4
  NF2 WILD-TYPE     64     61     26
D4V6, multiclass
        clus
vv       NF2 MUTATED NF2 WILD-TYPE
  CLUS_1           3            64
  CLUS_2           3            61
  CLUS_3           4            26
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  NF2 MUTATED        3      2      5
  NF2 WILD-TYPE     44     52     55
D4V7, multiclass
        clus
vv       NF2 MUTATED NF2 WILD-TYPE
  CLUS_1           3            44
  CLUS_2           2            52
  CLUS_3           5            55
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NF2 MUTATED        1      3      1      5
  NF2 WILD-TYPE     29     32     38     52
D4V8, multiclass
        clus
vv       NF2 MUTATED NF2 WILD-TYPE
  CLUS_1           1            29
  CLUS_2           3            32
  CLUS_3           1            38
  CLUS_4           5            52
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  NF2 MUTATED        2      1      4
  NF2 WILD-TYPE     35     38     42
D4V9, multiclass
        clus
vv       NF2 MUTATED NF2 WILD-TYPE
  CLUS_1           2            35
  CLUS_2           1            38
  CLUS_3           4            42
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NF2 MUTATED        3      1      3      0
  NF2 WILD-TYPE     44     46      9     16
D4V10, multiclass
        clus
vv       NF2 MUTATED NF2 WILD-TYPE
  CLUS_1           3            44
  CLUS_2           1            46
  CLUS_3           3             9
  CLUS_4           0            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(5) Variable = TDG MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TDG MUTATED        0      2      2      1
  TDG WILD-TYPE     61     37     23     35
D5V1, multiclass
        clus
vv       TDG MUTATED TDG WILD-TYPE
  CLUS_1           0            61
  CLUS_2           2            37
  CLUS_3           2            23
  CLUS_4           1            35
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  TDG MUTATED        0      4      1
  TDG WILD-TYPE     43     41     59
D5V2, multiclass
        clus
vv       TDG MUTATED TDG WILD-TYPE
  CLUS_1           0            43
  CLUS_2           4            41
  CLUS_3           1            59
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  TDG MUTATED        1      2      2
  TDG WILD-TYPE     45     44     30
D5V3, multiclass
        clus
vv       TDG MUTATED TDG WILD-TYPE
  CLUS_1           1            45
  CLUS_2           2            44
  CLUS_3           2            30
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  TDG MUTATED        0      0      0      3      1      0      1
  TDG WILD-TYPE     11     12     21     20     15     25     15
D5V4, multiclass
        clus
vv       TDG MUTATED TDG WILD-TYPE
  CLUS_1           0            11
  CLUS_2           0            12
  CLUS_3           0            21
  CLUS_4           3            20
  CLUS_5           1            15
  CLUS_6           0            25
  CLUS_7           1            15
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TDG MUTATED        0      1      1      3
  TDG WILD-TYPE     23     44     34     55
D5V5, multiclass
        clus
vv       TDG MUTATED TDG WILD-TYPE
  CLUS_1           0            23
  CLUS_2           1            44
  CLUS_3           1            34
  CLUS_4           3            55
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  TDG MUTATED        4      1      0
  TDG WILD-TYPE     63     63     30
D5V6, multiclass
        clus
vv       TDG MUTATED TDG WILD-TYPE
  CLUS_1           4            63
  CLUS_2           1            63
  CLUS_3           0            30
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  TDG MUTATED        3      1      1
  TDG WILD-TYPE     44     53     59
D5V7, multiclass
        clus
vv       TDG MUTATED TDG WILD-TYPE
  CLUS_1           3            44
  CLUS_2           1            53
  CLUS_3           1            59
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TDG MUTATED        2      2      0      1
  TDG WILD-TYPE     28     33     39     56
D5V8, multiclass
        clus
vv       TDG MUTATED TDG WILD-TYPE
  CLUS_1           2            28
  CLUS_2           2            33
  CLUS_3           0            39
  CLUS_4           1            56
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  TDG MUTATED        3      1      1
  TDG WILD-TYPE     34     38     45
D5V9, multiclass
        clus
vv       TDG MUTATED TDG WILD-TYPE
  CLUS_1           3            34
  CLUS_2           1            38
  CLUS_3           1            45
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TDG MUTATED        3      2      0      0
  TDG WILD-TYPE     44     45     12     16
D5V10, multiclass
        clus
vv       TDG MUTATED TDG WILD-TYPE
  CLUS_1           3            44
  CLUS_2           2            45
  CLUS_3           0            12
  CLUS_4           0            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(6) Variable = SKI MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SKI MUTATED        5      0      1      0
  SKI WILD-TYPE     56     39     24     36
D6V1, multiclass
        clus
vv       SKI MUTATED SKI WILD-TYPE
  CLUS_1           5            56
  CLUS_2           0            39
  CLUS_3           1            24
  CLUS_4           0            36
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  SKI MUTATED        4      0      2
  SKI WILD-TYPE     39     45     58
D6V2, multiclass
        clus
vv       SKI MUTATED SKI WILD-TYPE
  CLUS_1           4            39
  CLUS_2           0            45
  CLUS_3           2            58
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  SKI MUTATED        3      1      1
  SKI WILD-TYPE     43     45     31
D6V3, multiclass
        clus
vv       SKI MUTATED SKI WILD-TYPE
  CLUS_1           3            43
  CLUS_2           1            45
  CLUS_3           1            31
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  SKI MUTATED        1      1      0      1      1      1      0
  SKI WILD-TYPE     10     11     21     22     15     24     16
D6V4, multiclass
        clus
vv       SKI MUTATED SKI WILD-TYPE
  CLUS_1           1            10
  CLUS_2           1            11
  CLUS_3           0            21
  CLUS_4           1            22
  CLUS_5           1            15
  CLUS_6           1            24
  CLUS_7           0            16
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SKI MUTATED        3      1      1      1
  SKI WILD-TYPE     20     44     34     57
D6V5, multiclass
        clus
vv       SKI MUTATED SKI WILD-TYPE
  CLUS_1           3            20
  CLUS_2           1            44
  CLUS_3           1            34
  CLUS_4           1            57
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  SKI MUTATED        3      2      1
  SKI WILD-TYPE     64     62     29
D6V6, multiclass
        clus
vv       SKI MUTATED SKI WILD-TYPE
  CLUS_1           3            64
  CLUS_2           2            62
  CLUS_3           1            29
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  SKI MUTATED        3      1      2
  SKI WILD-TYPE     44     53     58
D6V7, multiclass
        clus
vv       SKI MUTATED SKI WILD-TYPE
  CLUS_1           3            44
  CLUS_2           1            53
  CLUS_3           2            58
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SKI MUTATED        2      0      1      3
  SKI WILD-TYPE     28     35     38     54
D6V8, multiclass
        clus
vv       SKI MUTATED SKI WILD-TYPE
  CLUS_1           2            28
  CLUS_2           0            35
  CLUS_3           1            38
  CLUS_4           3            54
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  SKI MUTATED        2      1      2
  SKI WILD-TYPE     35     38     44
D6V9, multiclass
        clus
vv       SKI MUTATED SKI WILD-TYPE
  CLUS_1           2            35
  CLUS_2           1            38
  CLUS_3           2            44
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SKI MUTATED        1      4      0      0
  SKI WILD-TYPE     46     43     12     16
D6V10, multiclass
        clus
vv       SKI MUTATED SKI WILD-TYPE
  CLUS_1           1            46
  CLUS_2           4            43
  CLUS_3           0            12
  CLUS_4           0            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(7) Variable = MUC5B MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MUC5B MUTATED        2      3      4      5
  MUC5B WILD-TYPE     59     36     21     31
D7V1, multiclass
        clus
vv       MUC5B MUTATED MUC5B WILD-TYPE
  CLUS_1             2              59
  CLUS_2             3              36
  CLUS_3             4              21
  CLUS_4             5              31
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MUC5B MUTATED        5      4      4
  MUC5B WILD-TYPE     38     41     56
D7V2, multiclass
        clus
vv       MUC5B MUTATED MUC5B WILD-TYPE
  CLUS_1             5              38
  CLUS_2             4              41
  CLUS_3             4              56
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MUC5B MUTATED        2      5      2
  MUC5B WILD-TYPE     44     41     30
D7V3, multiclass
        clus
vv       MUC5B MUTATED MUC5B WILD-TYPE
  CLUS_1             2              44
  CLUS_2             5              41
  CLUS_3             2              30
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  MUC5B MUTATED        2      1      2      1      0      3      0
  MUC5B WILD-TYPE      9     11     19     22     16     22     16
D7V4, multiclass
        clus
vv       MUC5B MUTATED MUC5B WILD-TYPE
  CLUS_1             2               9
  CLUS_2             1              11
  CLUS_3             2              19
  CLUS_4             1              22
  CLUS_5             0              16
  CLUS_6             3              22
  CLUS_7             0              16
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MUC5B MUTATED        1      3      3      7
  MUC5B WILD-TYPE     22     42     32     51
D7V5, multiclass
        clus
vv       MUC5B MUTATED MUC5B WILD-TYPE
  CLUS_1             1              22
  CLUS_2             3              42
  CLUS_3             3              32
  CLUS_4             7              51
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MUC5B MUTATED        9      2      3
  MUC5B WILD-TYPE     58     62     27
D7V6, multiclass
        clus
vv       MUC5B MUTATED MUC5B WILD-TYPE
  CLUS_1             9              58
  CLUS_2             2              62
  CLUS_3             3              27
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MUC5B MUTATED        5      4      5
  MUC5B WILD-TYPE     42     50     55
D7V7, multiclass
        clus
vv       MUC5B MUTATED MUC5B WILD-TYPE
  CLUS_1             5              42
  CLUS_2             4              50
  CLUS_3             5              55
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MUC5B MUTATED        4      4      4      2
  MUC5B WILD-TYPE     26     31     35     55
D7V8, multiclass
        clus
vv       MUC5B MUTATED MUC5B WILD-TYPE
  CLUS_1             4              26
  CLUS_2             4              31
  CLUS_3             4              35
  CLUS_4             2              55
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MUC5B MUTATED        5      2      5
  MUC5B WILD-TYPE     32     37     41
D7V9, multiclass
        clus
vv       MUC5B MUTATED MUC5B WILD-TYPE
  CLUS_1             5              32
  CLUS_2             2              37
  CLUS_3             5              41
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MUC5B MUTATED        4      5      1      2
  MUC5B WILD-TYPE     43     42     11     14
D7V10, multiclass
        clus
vv       MUC5B MUTATED MUC5B WILD-TYPE
  CLUS_1             4              43
  CLUS_2             5              42
  CLUS_3             1              11
  CLUS_4             2              14
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(8) Variable = ZNF814 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZNF814 MUTATED        2      2      1      3
  ZNF814 WILD-TYPE     59     37     24     33
D8V1, multiclass
        clus
vv       ZNF814 MUTATED ZNF814 WILD-TYPE
  CLUS_1              2               59
  CLUS_2              2               37
  CLUS_3              1               24
  CLUS_4              3               33
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF814 MUTATED        1      4      3
  ZNF814 WILD-TYPE     42     41     57
D8V2, multiclass
        clus
vv       ZNF814 MUTATED ZNF814 WILD-TYPE
  CLUS_1              1               42
  CLUS_2              4               41
  CLUS_3              3               57
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF814 MUTATED        3      2      2
  ZNF814 WILD-TYPE     43     44     30
D8V3, multiclass
        clus
vv       ZNF814 MUTATED ZNF814 WILD-TYPE
  CLUS_1              3               43
  CLUS_2              2               44
  CLUS_3              2               30
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  ZNF814 MUTATED        0      0      2      1      0      2      2
  ZNF814 WILD-TYPE     11     12     19     22     16     23     14
D8V4, multiclass
        clus
vv       ZNF814 MUTATED ZNF814 WILD-TYPE
  CLUS_1              0               11
  CLUS_2              0               12
  CLUS_3              2               19
  CLUS_4              1               22
  CLUS_5              0               16
  CLUS_6              2               23
  CLUS_7              2               14
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZNF814 MUTATED        0      2      2      4
  ZNF814 WILD-TYPE     23     43     33     54
D8V5, multiclass
        clus
vv       ZNF814 MUTATED ZNF814 WILD-TYPE
  CLUS_1              0               23
  CLUS_2              2               43
  CLUS_3              2               33
  CLUS_4              4               54
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF814 MUTATED        5      3      0
  ZNF814 WILD-TYPE     62     61     30
D8V6, multiclass
        clus
vv       ZNF814 MUTATED ZNF814 WILD-TYPE
  CLUS_1              5               62
  CLUS_2              3               61
  CLUS_3              0               30
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF814 MUTATED        3      1      4
  ZNF814 WILD-TYPE     44     53     56
D8V7, multiclass
        clus
vv       ZNF814 MUTATED ZNF814 WILD-TYPE
  CLUS_1              3               44
  CLUS_2              1               53
  CLUS_3              4               56
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZNF814 MUTATED        2      3      1      2
  ZNF814 WILD-TYPE     28     32     38     55
D8V8, multiclass
        clus
vv       ZNF814 MUTATED ZNF814 WILD-TYPE
  CLUS_1              2               28
  CLUS_2              3               32
  CLUS_3              1               38
  CLUS_4              2               55
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF814 MUTATED        0      3      4
  ZNF814 WILD-TYPE     37     36     42
D8V9, multiclass
        clus
vv       ZNF814 MUTATED ZNF814 WILD-TYPE
  CLUS_1              0               37
  CLUS_2              3               36
  CLUS_3              4               42
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZNF814 MUTATED        2      4      0      1
  ZNF814 WILD-TYPE     45     43     12     15
D8V10, multiclass
        clus
vv       ZNF814 MUTATED ZNF814 WILD-TYPE
  CLUS_1              2               45
  CLUS_2              4               43
  CLUS_3              0               12
  CLUS_4              1               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(9) Variable = MET MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MET MUTATED        5      6      0      4
  MET WILD-TYPE     56     33     25     32
D9V1, multiclass
        clus
vv       MET MUTATED MET WILD-TYPE
  CLUS_1           5            56
  CLUS_2           6            33
  CLUS_3           0            25
  CLUS_4           4            32
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  MET MUTATED        3      1      9
  MET WILD-TYPE     40     44     51
D9V2, multiclass
        clus
vv       MET MUTATED MET WILD-TYPE
  CLUS_1           3            40
  CLUS_2           1            44
  CLUS_3           9            51
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  MET MUTATED        7      5      1
  MET WILD-TYPE     39     41     31
D9V3, multiclass
        clus
vv       MET MUTATED MET WILD-TYPE
  CLUS_1           7            39
  CLUS_2           5            41
  CLUS_3           1            31
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  MET MUTATED        3      0      4      2      2      0      2
  MET WILD-TYPE      8     12     17     21     14     25     14
D9V4, multiclass
        clus
vv       MET MUTATED MET WILD-TYPE
  CLUS_1           3             8
  CLUS_2           0            12
  CLUS_3           4            17
  CLUS_4           2            21
  CLUS_5           2            14
  CLUS_6           0            25
  CLUS_7           2            14
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MET MUTATED        5      8      1      1
  MET WILD-TYPE     18     37     34     57
D9V5, multiclass
        clus
vv       MET MUTATED MET WILD-TYPE
  CLUS_1           5            18
  CLUS_2           8            37
  CLUS_3           1            34
  CLUS_4           1            57
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  MET MUTATED        3     10      2
  MET WILD-TYPE     64     54     28
D9V6, multiclass
        clus
vv       MET MUTATED MET WILD-TYPE
  CLUS_1           3            64
  CLUS_2          10            54
  CLUS_3           2            28
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  MET MUTATED        5      4      6
  MET WILD-TYPE     42     50     54
D9V7, multiclass
        clus
vv       MET MUTATED MET WILD-TYPE
  CLUS_1           5            42
  CLUS_2           4            50
  CLUS_3           6            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
  MET MUTATED        3      2      3      7
  MET WILD-TYPE     27     33     36     50
D9V8, multiclass
        clus
vv       MET MUTATED MET WILD-TYPE
  CLUS_1           3            27
  CLUS_2           2            33
  CLUS_3           3            36
  CLUS_4           7            50
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  MET MUTATED        4      5      3
  MET WILD-TYPE     33     34     43
D9V9, multiclass
        clus
vv       MET MUTATED MET WILD-TYPE
  CLUS_1           4            33
  CLUS_2           5            34
  CLUS_3           3            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
  MET MUTATED        5      3      0      4
  MET WILD-TYPE     42     44     12     12
D9V10, multiclass
        clus
vv       MET MUTATED MET WILD-TYPE
  CLUS_1           5            42
  CLUS_2           3            44
  CLUS_3           0            12
  CLUS_4           4            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(10) Variable = SMARCB1 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SMARCB1 MUTATED        2      1      1      0
  SMARCB1 WILD-TYPE     59     38     24     36
D10V1, multiclass
        clus
vv       SMARCB1 MUTATED SMARCB1 WILD-TYPE
  CLUS_1               2                59
  CLUS_2               1                38
  CLUS_3               1                24
  CLUS_4               0                36
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SMARCB1 MUTATED        0      3      1
  SMARCB1 WILD-TYPE     43     42     59
D10V2, multiclass
        clus
vv       SMARCB1 MUTATED SMARCB1 WILD-TYPE
  CLUS_1               0                43
  CLUS_2               3                42
  CLUS_3               1                59
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SMARCB1 MUTATED        1      1      1
  SMARCB1 WILD-TYPE     45     45     31
D10V3, multiclass
        clus
vv       SMARCB1 MUTATED SMARCB1 WILD-TYPE
  CLUS_1               1                45
  CLUS_2               1                45
  CLUS_3               1                31
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  SMARCB1 MUTATED        0      1      0      1      0      1      0
  SMARCB1 WILD-TYPE     11     11     21     22     16     24     16
D10V4, multiclass
        clus
vv       SMARCB1 MUTATED SMARCB1 WILD-TYPE
  CLUS_1               0                11
  CLUS_2               1                11
  CLUS_3               0                21
  CLUS_4               1                22
  CLUS_5               0                16
  CLUS_6               1                24
  CLUS_7               0                16
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SMARCB1 MUTATED        0      1      0      3
  SMARCB1 WILD-TYPE     23     44     35     55
D10V5, multiclass
        clus
vv       SMARCB1 MUTATED SMARCB1 WILD-TYPE
  CLUS_1               0                23
  CLUS_2               1                44
  CLUS_3               0                35
  CLUS_4               3                55
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SMARCB1 MUTATED        3      1      0
  SMARCB1 WILD-TYPE     64     63     30
D10V6, multiclass
        clus
vv       SMARCB1 MUTATED SMARCB1 WILD-TYPE
  CLUS_1               3                64
  CLUS_2               1                63
  CLUS_3               0                30
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SMARCB1 MUTATED        0      0      4
  SMARCB1 WILD-TYPE     47     54     56
D10V7, multiclass
        clus
vv       SMARCB1 MUTATED SMARCB1 WILD-TYPE
  CLUS_1               0                47
  CLUS_2               0                54
  CLUS_3               4                56
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SMARCB1 MUTATED        0      1      0      3
  SMARCB1 WILD-TYPE     30     34     39     54
D10V8, multiclass
        clus
vv       SMARCB1 MUTATED SMARCB1 WILD-TYPE
  CLUS_1               0                30
  CLUS_2               1                34
  CLUS_3               0                39
  CLUS_4               3                54
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SMARCB1 MUTATED        0      0      3
  SMARCB1 WILD-TYPE     37     39     43
D10V9, multiclass
        clus
vv       SMARCB1 MUTATED SMARCB1 WILD-TYPE
  CLUS_1               0                37
  CLUS_2               0                39
  CLUS_3               3                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
  SMARCB1 MUTATED        0      3      0      0
  SMARCB1 WILD-TYPE     47     44     12     16
D10V10, multiclass
        clus
vv       SMARCB1 MUTATED SMARCB1 WILD-TYPE
  CLUS_1               0                47
  CLUS_2               3                44
  CLUS_3               0                12
  CLUS_4               0                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(11) Variable = KDM6A MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KDM6A MUTATED        3      2      1      1
  KDM6A WILD-TYPE     58     37     24     35
D11V1, multiclass
        clus
vv       KDM6A MUTATED KDM6A WILD-TYPE
  CLUS_1             3              58
  CLUS_2             2              37
  CLUS_3             1              24
  CLUS_4             1              35
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KDM6A MUTATED        3      2      2
  KDM6A WILD-TYPE     40     43     58
D11V2, multiclass
        clus
vv       KDM6A MUTATED KDM6A WILD-TYPE
  CLUS_1             3              40
  CLUS_2             2              43
  CLUS_3             2              58
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KDM6A MUTATED        1      2      2
  KDM6A WILD-TYPE     45     44     30
D11V3, multiclass
        clus
vv       KDM6A MUTATED KDM6A WILD-TYPE
  CLUS_1             1              45
  CLUS_2             2              44
  CLUS_3             2              30
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  KDM6A MUTATED        0      0      1      1      0      3      0
  KDM6A WILD-TYPE     11     12     20     22     16     22     16
D11V4, multiclass
        clus
vv       KDM6A MUTATED KDM6A WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0              12
  CLUS_3             1              20
  CLUS_4             1              22
  CLUS_5             0              16
  CLUS_6             3              22
  CLUS_7             0              16
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KDM6A MUTATED        0      1      5      1
  KDM6A WILD-TYPE     23     44     30     57
D11V5, multiclass
        clus
vv       KDM6A MUTATED KDM6A WILD-TYPE
  CLUS_1             0              23
  CLUS_2             1              44
  CLUS_3             5              30
  CLUS_4             1              57
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KDM6A MUTATED        5      1      1
  KDM6A WILD-TYPE     62     63     29
D11V6, multiclass
        clus
vv       KDM6A MUTATED KDM6A WILD-TYPE
  CLUS_1             5              62
  CLUS_2             1              63
  CLUS_3             1              29
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KDM6A MUTATED        3      3      1
  KDM6A WILD-TYPE     44     51     59
D11V7, multiclass
        clus
vv       KDM6A MUTATED KDM6A WILD-TYPE
  CLUS_1             3              44
  CLUS_2             3              51
  CLUS_3             1              59
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KDM6A MUTATED        1      4      1      1
  KDM6A WILD-TYPE     29     31     38     56
D11V8, multiclass
        clus
vv       KDM6A MUTATED KDM6A WILD-TYPE
  CLUS_1             1              29
  CLUS_2             4              31
  CLUS_3             1              38
  CLUS_4             1              56
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  KDM6A MUTATED        2      0      1
  KDM6A WILD-TYPE     35     39     45
D11V9, multiclass
        clus
vv       KDM6A MUTATED KDM6A WILD-TYPE
  CLUS_1             2              35
  CLUS_2             0              39
  CLUS_3             1              45
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KDM6A MUTATED        2      0      1      0
  KDM6A WILD-TYPE     45     47     11     16
D11V10, multiclass
        clus
vv       KDM6A MUTATED KDM6A WILD-TYPE
  CLUS_1             2              45
  CLUS_2             0              47
  CLUS_3             1              11
  CLUS_4             0              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(12) Variable = SETD2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SETD2 MUTATED        4      1      0      5
  SETD2 WILD-TYPE     57     38     25     31
D12V1, multiclass
        clus
vv       SETD2 MUTATED SETD2 WILD-TYPE
  CLUS_1             4              57
  CLUS_2             1              38
  CLUS_3             0              25
  CLUS_4             5              31
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SETD2 MUTATED        1      9      0
  SETD2 WILD-TYPE     42     36     60
D12V2, multiclass
        clus
vv       SETD2 MUTATED SETD2 WILD-TYPE
  CLUS_1             1              42
  CLUS_2             9              36
  CLUS_3             0              60
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SETD2 MUTATED        1      2      4
  SETD2 WILD-TYPE     45     44     28
D12V3, multiclass
        clus
vv       SETD2 MUTATED SETD2 WILD-TYPE
  CLUS_1             1              45
  CLUS_2             2              44
  CLUS_3             4              28
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  SETD2 MUTATED        0      0      0      1      1      4      1
  SETD2 WILD-TYPE     11     12     21     22     15     21     15
D12V4, multiclass
        clus
vv       SETD2 MUTATED SETD2 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0              12
  CLUS_3             0              21
  CLUS_4             1              22
  CLUS_5             1              15
  CLUS_6             4              21
  CLUS_7             1              15
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SETD2 MUTATED        0      0      2      8
  SETD2 WILD-TYPE     23     45     33     50
D12V5, multiclass
        clus
vv       SETD2 MUTATED SETD2 WILD-TYPE
  CLUS_1             0              23
  CLUS_2             0              45
  CLUS_3             2              33
  CLUS_4             8              50
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SETD2 MUTATED        9      0      1
  SETD2 WILD-TYPE     58     64     29
D12V6, multiclass
        clus
vv       SETD2 MUTATED SETD2 WILD-TYPE
  CLUS_1             9              58
  CLUS_2             0              64
  CLUS_3             1              29
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SETD2 MUTATED        6      0      4
  SETD2 WILD-TYPE     41     54     56
D12V7, multiclass
        clus
vv       SETD2 MUTATED SETD2 WILD-TYPE
  CLUS_1             6              41
  CLUS_2             0              54
  CLUS_3             4              56
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SETD2 MUTATED        5      3      0      2
  SETD2 WILD-TYPE     25     32     39     55
D12V8, multiclass
        clus
vv       SETD2 MUTATED SETD2 WILD-TYPE
  CLUS_1             5              25
  CLUS_2             3              32
  CLUS_3             0              39
  CLUS_4             2              55
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SETD2 MUTATED        4      0      5
  SETD2 WILD-TYPE     33     39     41
D12V9, multiclass
        clus
vv       SETD2 MUTATED SETD2 WILD-TYPE
  CLUS_1             4              33
  CLUS_2             0              39
  CLUS_3             5              41
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SETD2 MUTATED        3      6      0      0
  SETD2 WILD-TYPE     44     41     12     16
D12V10, multiclass
        clus
vv       SETD2 MUTATED SETD2 WILD-TYPE
  CLUS_1             3              44
  CLUS_2             6              41
  CLUS_3             0              12
  CLUS_4             0              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(13) Variable = AHNAK2 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  AHNAK2 MUTATED        3      1      1      2
  AHNAK2 WILD-TYPE     58     38     24     34
D13V1, multiclass
        clus
vv       AHNAK2 MUTATED AHNAK2 WILD-TYPE
  CLUS_1              3               58
  CLUS_2              1               38
  CLUS_3              1               24
  CLUS_4              2               34
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  AHNAK2 MUTATED        2      1      3
  AHNAK2 WILD-TYPE     41     44     57
D13V2, multiclass
        clus
vv       AHNAK2 MUTATED AHNAK2 WILD-TYPE
  CLUS_1              2               41
  CLUS_2              1               44
  CLUS_3              3               57
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  AHNAK2 MUTATED        3      1      2
  AHNAK2 WILD-TYPE     43     45     30
D13V3, multiclass
        clus
vv       AHNAK2 MUTATED AHNAK2 WILD-TYPE
  CLUS_1              3               43
  CLUS_2              1               45
  CLUS_3              2               30
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  AHNAK2 MUTATED        0      1      1      0      1      2      1
  AHNAK2 WILD-TYPE     11     11     20     23     15     23     15
D13V4, multiclass
        clus
vv       AHNAK2 MUTATED AHNAK2 WILD-TYPE
  CLUS_1              0               11
  CLUS_2              1               11
  CLUS_3              1               20
  CLUS_4              0               23
  CLUS_5              1               15
  CLUS_6              2               23
  CLUS_7              1               15
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  AHNAK2 MUTATED        2      1      2      2
  AHNAK2 WILD-TYPE     21     44     33     56
D13V5, multiclass
        clus
vv       AHNAK2 MUTATED AHNAK2 WILD-TYPE
  CLUS_1              2               21
  CLUS_2              1               44
  CLUS_3              2               33
  CLUS_4              2               56
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  AHNAK2 MUTATED        4      2      1
  AHNAK2 WILD-TYPE     63     62     29
D13V6, multiclass
        clus
vv       AHNAK2 MUTATED AHNAK2 WILD-TYPE
  CLUS_1              4               63
  CLUS_2              2               62
  CLUS_3              1               29
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  AHNAK2 MUTATED        4      1      2
  AHNAK2 WILD-TYPE     43     53     58
D13V7, multiclass
        clus
vv       AHNAK2 MUTATED AHNAK2 WILD-TYPE
  CLUS_1              4               43
  CLUS_2              1               53
  CLUS_3              2               58
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  AHNAK2 MUTATED        2      3      0      2
  AHNAK2 WILD-TYPE     28     32     39     55
D13V8, multiclass
        clus
vv       AHNAK2 MUTATED AHNAK2 WILD-TYPE
  CLUS_1              2               28
  CLUS_2              3               32
  CLUS_3              0               39
  CLUS_4              2               55
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  AHNAK2 MUTATED        4      2      1
  AHNAK2 WILD-TYPE     33     37     45
D13V9, multiclass
        clus
vv       AHNAK2 MUTATED AHNAK2 WILD-TYPE
  CLUS_1              4               33
  CLUS_2              2               37
  CLUS_3              1               45
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  AHNAK2 MUTATED        5      1      0      1
  AHNAK2 WILD-TYPE     42     46     12     15
D13V10, multiclass
        clus
vv       AHNAK2 MUTATED AHNAK2 WILD-TYPE
  CLUS_1              5               42
  CLUS_2              1               46
  CLUS_3              0               12
  CLUS_4              1               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(14) Variable = AHCY MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  AHCY MUTATED        0      1      0      3
  AHCY WILD-TYPE     61     38     25     33
D14V1, multiclass
        clus
vv       AHCY MUTATED AHCY WILD-TYPE
  CLUS_1            0             61
  CLUS_2            1             38
  CLUS_3            0             25
  CLUS_4            3             33
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  AHCY MUTATED        0      2      1
  AHCY WILD-TYPE     43     43     59
D14V2, multiclass
        clus
vv       AHCY MUTATED AHCY WILD-TYPE
  CLUS_1            0             43
  CLUS_2            2             43
  CLUS_3            1             59
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  AHCY MUTATED        2      0      0
  AHCY WILD-TYPE     44     46     32
D14V3, multiclass
[1] "Remove cluster labels:" "AHCY MUTATED"          
clus
  AHCY MUTATED AHCY WILD-TYPE 
             2            122 
    TCGA-A4-7288     TCGA-A4-7583     TCGA-A4-7584     TCGA-A4-7585 
"AHCY WILD-TYPE" "AHCY WILD-TYPE" "AHCY WILD-TYPE" "AHCY WILD-TYPE" 
    TCGA-A4-7734     TCGA-A4-7915     TCGA-A4-7996     TCGA-A4-7997 
"AHCY WILD-TYPE" "AHCY WILD-TYPE" "AHCY WILD-TYPE" "AHCY WILD-TYPE" 
    TCGA-A4-8098     TCGA-A4-8311     TCGA-A4-8517     TCGA-A4-8630 
"AHCY WILD-TYPE" "AHCY WILD-TYPE" "AHCY WILD-TYPE" "AHCY WILD-TYPE" 
    TCGA-A4-A57E     TCGA-AL-3472     TCGA-AL-3473     TCGA-AL-7173 
"AHCY WILD-TYPE" "AHCY WILD-TYPE" "AHCY WILD-TYPE" "AHCY WILD-TYPE" 
    TCGA-B1-5398     TCGA-B1-A47M     TCGA-B1-A47N     TCGA-B1-A654 
"AHCY WILD-TYPE" "AHCY WILD-TYPE" "AHCY WILD-TYPE" "AHCY WILD-TYPE" 
    TCGA-B1-A657     TCGA-B3-8121     TCGA-B9-5156     TCGA-B9-7268 
"AHCY WILD-TYPE" "AHCY WILD-TYPE" "AHCY WILD-TYPE" "AHCY WILD-TYPE" 
    TCGA-B9-A44B     TCGA-B9-A5W7     TCGA-B9-A5W8     TCGA-B9-A5W9 
"AHCY WILD-TYPE" "AHCY WILD-TYPE" "AHCY WILD-TYPE" "AHCY WILD-TYPE" 
    TCGA-B9-A69E     TCGA-BQ-5875     TCGA-BQ-5877     TCGA-BQ-5878 
"AHCY WILD-TYPE" "AHCY WILD-TYPE" "AHCY WILD-TYPE" "AHCY WILD-TYPE" 
    TCGA-BQ-5879     TCGA-BQ-5880     TCGA-BQ-5881     TCGA-BQ-5883 
"AHCY WILD-TYPE" "AHCY WILD-TYPE" "AHCY WILD-TYPE" "AHCY WILD-TYPE" 
    TCGA-BQ-5885     TCGA-BQ-5887     TCGA-BQ-5888     TCGA-BQ-5889 
"AHCY WILD-TYPE" "AHCY WILD-TYPE" "AHCY WILD-TYPE" "AHCY WILD-TYPE" 
    TCGA-BQ-5890     TCGA-BQ-5891     TCGA-BQ-5892     TCGA-BQ-5893 
"AHCY WILD-TYPE" "AHCY WILD-TYPE" "AHCY WILD-TYPE" "AHCY WILD-TYPE" 
    TCGA-BQ-5894     TCGA-BQ-7044     TCGA-BQ-7046     TCGA-BQ-7048 
"AHCY WILD-TYPE" "AHCY WILD-TYPE" "AHCY WILD-TYPE" "AHCY WILD-TYPE" 
    TCGA-BQ-7050     TCGA-BQ-7051     TCGA-BQ-7053     TCGA-BQ-7055 
"AHCY WILD-TYPE" "AHCY WILD-TYPE" "AHCY WILD-TYPE" "AHCY WILD-TYPE" 
    TCGA-BQ-7058     TCGA-BQ-7059     TCGA-BQ-7060     TCGA-BQ-7061 
"AHCY WILD-TYPE" "AHCY WILD-TYPE" "AHCY WILD-TYPE" "AHCY WILD-TYPE" 
    TCGA-BQ-7062     TCGA-DW-5560     TCGA-DW-5561     TCGA-DW-7834 
"AHCY WILD-TYPE" "AHCY WILD-TYPE" "AHCY WILD-TYPE" "AHCY WILD-TYPE" 
    TCGA-DW-7837     TCGA-DW-7838     TCGA-DW-7839     TCGA-DW-7840 
"AHCY WILD-TYPE" "AHCY WILD-TYPE" "AHCY WILD-TYPE" "AHCY WILD-TYPE" 
    TCGA-DW-7841     TCGA-DW-7842     TCGA-DW-7963     TCGA-DZ-6131 
"AHCY WILD-TYPE" "AHCY WILD-TYPE" "AHCY WILD-TYPE" "AHCY WILD-TYPE" 
    TCGA-DZ-6132     TCGA-DZ-6133     TCGA-DZ-6134     TCGA-DZ-6135 
"AHCY WILD-TYPE" "AHCY WILD-TYPE" "AHCY WILD-TYPE" "AHCY WILD-TYPE" 
    TCGA-EV-5901     TCGA-EV-5902     TCGA-EV-5903     TCGA-F9-A4JJ 
"AHCY WILD-TYPE" "AHCY WILD-TYPE" "AHCY WILD-TYPE" "AHCY WILD-TYPE" 
    TCGA-G7-6789     TCGA-G7-6790     TCGA-G7-6792     TCGA-G7-6793 
"AHCY WILD-TYPE" "AHCY WILD-TYPE" "AHCY WILD-TYPE" "AHCY WILD-TYPE" 
    TCGA-G7-6795     TCGA-G7-6796     TCGA-G7-6797     TCGA-G7-7501 
"AHCY WILD-TYPE" "AHCY WILD-TYPE" "AHCY WILD-TYPE" "AHCY WILD-TYPE" 
    TCGA-G7-7502     TCGA-G7-A4TM     TCGA-GL-6846     TCGA-GL-7773 
"AHCY WILD-TYPE" "AHCY WILD-TYPE" "AHCY WILD-TYPE" "AHCY WILD-TYPE" 
    TCGA-GL-7966     TCGA-GL-8500     TCGA-GL-A4EM     TCGA-GL-A59R 
"AHCY WILD-TYPE" "AHCY WILD-TYPE" "AHCY WILD-TYPE" "AHCY WILD-TYPE" 
    TCGA-HE-7128     TCGA-HE-7129     TCGA-HE-7130     TCGA-HE-A5NF 
"AHCY WILD-TYPE" "AHCY WILD-TYPE" "AHCY WILD-TYPE" "AHCY WILD-TYPE" 
    TCGA-HE-A5NH     TCGA-HE-A5NI     TCGA-HE-A5NJ     TCGA-HE-A5NK 
"AHCY WILD-TYPE" "AHCY WILD-TYPE" "AHCY WILD-TYPE" "AHCY WILD-TYPE" 
    TCGA-HE-A5NL     TCGA-IA-A40U     TCGA-IA-A40X     TCGA-IZ-8195 
"AHCY WILD-TYPE" "AHCY WILD-TYPE" "AHCY WILD-TYPE" "AHCY WILD-TYPE" 
    TCGA-IZ-8196     TCGA-IZ-A6M8     TCGA-J7-6720     TCGA-J7-8537 
"AHCY WILD-TYPE" "AHCY WILD-TYPE" "AHCY WILD-TYPE" "AHCY WILD-TYPE" 
    TCGA-KV-A6GD     TCGA-KV-A6GE     TCGA-MH-A55Z     TCGA-MH-A560 
"AHCY WILD-TYPE" "AHCY WILD-TYPE" "AHCY WILD-TYPE" "AHCY WILD-TYPE" 
    TCGA-MH-A562     TCGA-P4-A5E6     TCGA-P4-A5E7     TCGA-P4-A5E8 
"AHCY WILD-TYPE" "AHCY WILD-TYPE" "AHCY WILD-TYPE" "AHCY WILD-TYPE" 
    TCGA-P4-A5EA     TCGA-P4-A5EB     TCGA-P4-A5ED     TCGA-PJ-A5Z8 
"AHCY WILD-TYPE" "AHCY WILD-TYPE" "AHCY WILD-TYPE" "AHCY WILD-TYPE" 
    TCGA-PJ-A5Z9     TCGA-Q2-A5QZ 
"AHCY WILD-TYPE" "AHCY WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  AHCY MUTATED        0      1      0      0      0      0      1
  AHCY WILD-TYPE     11     11     21     23     16     25     15
D14V4, multiclass
[1] "Remove cluster labels:" "AHCY MUTATED"          
clus
  AHCY MUTATED AHCY WILD-TYPE 
             2            122 
    TCGA-A4-7288     TCGA-A4-7583     TCGA-A4-7584     TCGA-A4-7585 
"AHCY WILD-TYPE" "AHCY WILD-TYPE" "AHCY WILD-TYPE" "AHCY WILD-TYPE" 
    TCGA-A4-7734     TCGA-A4-7915     TCGA-A4-7996     TCGA-A4-7997 
"AHCY WILD-TYPE" "AHCY WILD-TYPE" "AHCY WILD-TYPE" "AHCY WILD-TYPE" 
    TCGA-A4-8098     TCGA-A4-8311     TCGA-A4-8517     TCGA-A4-8630 
"AHCY WILD-TYPE" "AHCY WILD-TYPE" "AHCY WILD-TYPE" "AHCY WILD-TYPE" 
    TCGA-A4-A57E     TCGA-AL-3472     TCGA-AL-3473     TCGA-AL-7173 
"AHCY WILD-TYPE" "AHCY WILD-TYPE" "AHCY WILD-TYPE" "AHCY WILD-TYPE" 
    TCGA-B1-5398     TCGA-B1-A47M     TCGA-B1-A47N     TCGA-B1-A654 
"AHCY WILD-TYPE" "AHCY WILD-TYPE" "AHCY WILD-TYPE" "AHCY WILD-TYPE" 
    TCGA-B1-A657     TCGA-B3-8121     TCGA-B9-5156     TCGA-B9-7268 
"AHCY WILD-TYPE" "AHCY WILD-TYPE" "AHCY WILD-TYPE" "AHCY WILD-TYPE" 
    TCGA-B9-A44B     TCGA-B9-A5W7     TCGA-B9-A5W8     TCGA-B9-A5W9 
"AHCY WILD-TYPE" "AHCY WILD-TYPE" "AHCY WILD-TYPE" "AHCY WILD-TYPE" 
    TCGA-B9-A69E     TCGA-BQ-5875     TCGA-BQ-5877     TCGA-BQ-5878 
"AHCY WILD-TYPE" "AHCY WILD-TYPE" "AHCY WILD-TYPE" "AHCY WILD-TYPE" 
    TCGA-BQ-5879     TCGA-BQ-5880     TCGA-BQ-5881     TCGA-BQ-5883 
"AHCY WILD-TYPE" "AHCY WILD-TYPE" "AHCY WILD-TYPE" "AHCY WILD-TYPE" 
    TCGA-BQ-5885     TCGA-BQ-5887     TCGA-BQ-5888     TCGA-BQ-5889 
"AHCY WILD-TYPE" "AHCY WILD-TYPE" "AHCY WILD-TYPE" "AHCY WILD-TYPE" 
    TCGA-BQ-5890     TCGA-BQ-5891     TCGA-BQ-5892     TCGA-BQ-5893 
"AHCY WILD-TYPE" "AHCY WILD-TYPE" "AHCY WILD-TYPE" "AHCY WILD-TYPE" 
    TCGA-BQ-5894     TCGA-BQ-7044     TCGA-BQ-7046     TCGA-BQ-7048 
"AHCY WILD-TYPE" "AHCY WILD-TYPE" "AHCY WILD-TYPE" "AHCY WILD-TYPE" 
    TCGA-BQ-7050     TCGA-BQ-7051     TCGA-BQ-7053     TCGA-BQ-7055 
"AHCY WILD-TYPE" "AHCY WILD-TYPE" "AHCY WILD-TYPE" "AHCY WILD-TYPE" 
    TCGA-BQ-7058     TCGA-BQ-7059     TCGA-BQ-7060     TCGA-BQ-7061 
"AHCY WILD-TYPE" "AHCY WILD-TYPE" "AHCY WILD-TYPE" "AHCY WILD-TYPE" 
    TCGA-BQ-7062     TCGA-DW-5560     TCGA-DW-5561     TCGA-DW-7834 
"AHCY WILD-TYPE" "AHCY WILD-TYPE" "AHCY WILD-TYPE" "AHCY WILD-TYPE" 
    TCGA-DW-7837     TCGA-DW-7838     TCGA-DW-7839     TCGA-DW-7840 
"AHCY WILD-TYPE" "AHCY WILD-TYPE" "AHCY WILD-TYPE" "AHCY WILD-TYPE" 
    TCGA-DW-7841     TCGA-DW-7842     TCGA-DW-7963     TCGA-DZ-6131 
"AHCY WILD-TYPE" "AHCY WILD-TYPE" "AHCY WILD-TYPE" "AHCY WILD-TYPE" 
    TCGA-DZ-6132     TCGA-DZ-6133     TCGA-DZ-6134     TCGA-DZ-6135 
"AHCY WILD-TYPE" "AHCY WILD-TYPE" "AHCY WILD-TYPE" "AHCY WILD-TYPE" 
    TCGA-EV-5901     TCGA-EV-5902     TCGA-EV-5903     TCGA-F9-A4JJ 
"AHCY WILD-TYPE" "AHCY WILD-TYPE" "AHCY WILD-TYPE" "AHCY WILD-TYPE" 
    TCGA-G7-6789     TCGA-G7-6790     TCGA-G7-6792     TCGA-G7-6793 
"AHCY WILD-TYPE" "AHCY WILD-TYPE" "AHCY WILD-TYPE" "AHCY WILD-TYPE" 
    TCGA-G7-6795     TCGA-G7-6796     TCGA-G7-6797     TCGA-G7-7501 
"AHCY WILD-TYPE" "AHCY WILD-TYPE" "AHCY WILD-TYPE" "AHCY WILD-TYPE" 
    TCGA-G7-7502     TCGA-G7-A4TM     TCGA-GL-6846     TCGA-GL-7773 
"AHCY WILD-TYPE" "AHCY WILD-TYPE" "AHCY WILD-TYPE" "AHCY WILD-TYPE" 
    TCGA-GL-7966     TCGA-GL-8500     TCGA-GL-A4EM     TCGA-GL-A59R 
"AHCY WILD-TYPE" "AHCY WILD-TYPE" "AHCY WILD-TYPE" "AHCY WILD-TYPE" 
    TCGA-HE-7128     TCGA-HE-7129     TCGA-HE-7130     TCGA-HE-A5NF 
"AHCY WILD-TYPE" "AHCY WILD-TYPE" "AHCY WILD-TYPE" "AHCY WILD-TYPE" 
    TCGA-HE-A5NH     TCGA-HE-A5NI     TCGA-HE-A5NJ     TCGA-HE-A5NK 
"AHCY WILD-TYPE" "AHCY WILD-TYPE" "AHCY WILD-TYPE" "AHCY WILD-TYPE" 
    TCGA-HE-A5NL     TCGA-IA-A40U     TCGA-IA-A40X     TCGA-IZ-8195 
"AHCY WILD-TYPE" "AHCY WILD-TYPE" "AHCY WILD-TYPE" "AHCY WILD-TYPE" 
    TCGA-IZ-8196     TCGA-IZ-A6M8     TCGA-J7-6720     TCGA-J7-8537 
"AHCY WILD-TYPE" "AHCY WILD-TYPE" "AHCY WILD-TYPE" "AHCY WILD-TYPE" 
    TCGA-KV-A6GD     TCGA-KV-A6GE     TCGA-MH-A55Z     TCGA-MH-A560 
"AHCY WILD-TYPE" "AHCY WILD-TYPE" "AHCY WILD-TYPE" "AHCY WILD-TYPE" 
    TCGA-MH-A562     TCGA-P4-A5E6     TCGA-P4-A5E7     TCGA-P4-A5E8 
"AHCY WILD-TYPE" "AHCY WILD-TYPE" "AHCY WILD-TYPE" "AHCY WILD-TYPE" 
    TCGA-P4-A5EA     TCGA-P4-A5EB     TCGA-P4-A5ED     TCGA-PJ-A5Z8 
"AHCY WILD-TYPE" "AHCY WILD-TYPE" "AHCY WILD-TYPE" "AHCY WILD-TYPE" 
    TCGA-PJ-A5Z9     TCGA-Q2-A5QZ 
"AHCY WILD-TYPE" "AHCY WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  AHCY MUTATED        0      2      0      2
  AHCY WILD-TYPE     23     43     35     56
D14V5, multiclass
        clus
vv       AHCY MUTATED AHCY WILD-TYPE
  CLUS_1            0             23
  CLUS_2            2             43
  CLUS_3            0             35
  CLUS_4            2             56
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  AHCY MUTATED        3      1      0
  AHCY WILD-TYPE     64     63     30
D14V6, multiclass
        clus
vv       AHCY MUTATED AHCY WILD-TYPE
  CLUS_1            3             64
  CLUS_2            1             63
  CLUS_3            0             30
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  AHCY MUTATED        2      2      0
  AHCY WILD-TYPE     45     52     60
D14V7, multiclass
        clus
vv       AHCY MUTATED AHCY WILD-TYPE
  CLUS_1            2             45
  CLUS_2            2             52
  CLUS_3            0             60
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  AHCY MUTATED        0      2      1      1
  AHCY WILD-TYPE     30     33     38     56
D14V8, multiclass
        clus
vv       AHCY MUTATED AHCY WILD-TYPE
  CLUS_1            0             30
  CLUS_2            2             33
  CLUS_3            1             38
  CLUS_4            1             56
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  AHCY MUTATED        2      1      0
  AHCY WILD-TYPE     35     38     46
D14V9, multiclass
        clus
vv       AHCY MUTATED AHCY WILD-TYPE
  CLUS_1            2             35
  CLUS_2            1             38
  CLUS_3            0             46
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  AHCY MUTATED        2      1      0      0
  AHCY WILD-TYPE     45     46     12     16
D14V10, multiclass
        clus
vv       AHCY MUTATED AHCY WILD-TYPE
  CLUS_1            2             45
  CLUS_2            1             46
  CLUS_3            0             12
  CLUS_4            0             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 = IDUA MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  IDUA MUTATED        4      0      0      1
  IDUA WILD-TYPE     57     39     25     35
D15V1, multiclass
        clus
vv       IDUA MUTATED IDUA WILD-TYPE
  CLUS_1            4             57
  CLUS_2            0             39
  CLUS_3            0             25
  CLUS_4            1             35
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  IDUA MUTATED        3      1      1
  IDUA WILD-TYPE     40     44     59
D15V2, multiclass
        clus
vv       IDUA MUTATED IDUA WILD-TYPE
  CLUS_1            3             40
  CLUS_2            1             44
  CLUS_3            1             59
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  IDUA MUTATED        1      1      3
  IDUA WILD-TYPE     45     45     29
D15V3, multiclass
        clus
vv       IDUA MUTATED IDUA WILD-TYPE
  CLUS_1            1             45
  CLUS_2            1             45
  CLUS_3            3             29
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  IDUA MUTATED        0      1      0      2      0      2      0
  IDUA WILD-TYPE     11     11     21     21     16     23     16
D15V4, multiclass
        clus
vv       IDUA MUTATED IDUA WILD-TYPE
  CLUS_1            0             11
  CLUS_2            1             11
  CLUS_3            0             21
  CLUS_4            2             21
  CLUS_5            0             16
  CLUS_6            2             23
  CLUS_7            0             16
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  IDUA MUTATED        1      0      2      2
  IDUA WILD-TYPE     22     45     33     56
D15V5, multiclass
        clus
vv       IDUA MUTATED IDUA WILD-TYPE
  CLUS_1            1             22
  CLUS_2            0             45
  CLUS_3            2             33
  CLUS_4            2             56
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  IDUA MUTATED        2      1      2
  IDUA WILD-TYPE     65     63     28
D15V6, multiclass
        clus
vv       IDUA MUTATED IDUA WILD-TYPE
  CLUS_1            2             65
  CLUS_2            1             63
  CLUS_3            2             28
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  IDUA MUTATED        3      1      1
  IDUA WILD-TYPE     44     53     59
D15V7, multiclass
        clus
vv       IDUA MUTATED IDUA WILD-TYPE
  CLUS_1            3             44
  CLUS_2            1             53
  CLUS_3            1             59
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  IDUA MUTATED        3      0      0      2
  IDUA WILD-TYPE     27     35     39     55
D15V8, multiclass
        clus
vv       IDUA MUTATED IDUA WILD-TYPE
  CLUS_1            3             27
  CLUS_2            0             35
  CLUS_3            0             39
  CLUS_4            2             55
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  IDUA MUTATED        1      2      1
  IDUA WILD-TYPE     36     37     45
D15V9, multiclass
        clus
vv       IDUA MUTATED IDUA WILD-TYPE
  CLUS_1            1             36
  CLUS_2            2             37
  CLUS_3            1             45
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  IDUA MUTATED        1      2      0      1
  IDUA WILD-TYPE     46     45     12     15
D15V10, multiclass
        clus
vv       IDUA MUTATED IDUA WILD-TYPE
  CLUS_1            1             46
  CLUS_2            2             45
  CLUS_3            0             12
  CLUS_4            1             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(16) Variable = OR2L8 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  OR2L8 MUTATED        1      2      1      0
  OR2L8 WILD-TYPE     60     37     24     36
D16V1, multiclass
        clus
vv       OR2L8 MUTATED OR2L8 WILD-TYPE
  CLUS_1             1              60
  CLUS_2             2              37
  CLUS_3             1              24
  CLUS_4             0              36
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR2L8 MUTATED        2      0      2
  OR2L8 WILD-TYPE     41     45     58
D16V2, multiclass
        clus
vv       OR2L8 MUTATED OR2L8 WILD-TYPE
  CLUS_1             2              41
  CLUS_2             0              45
  CLUS_3             2              58
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR2L8 MUTATED        2      2      0
  OR2L8 WILD-TYPE     44     44     32
D16V3, multiclass
        clus
vv       OR2L8 MUTATED OR2L8 WILD-TYPE
  CLUS_1             2              44
  CLUS_2             2              44
  CLUS_3             0              32
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  OR2L8 MUTATED        0      1      2      0      0      0      1
  OR2L8 WILD-TYPE     11     11     19     23     16     25     15
D16V4, multiclass
        clus
vv       OR2L8 MUTATED OR2L8 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             1              11
  CLUS_3             2              19
  CLUS_4             0              23
  CLUS_5             0              16
  CLUS_6             0              25
  CLUS_7             1              15
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  OR2L8 MUTATED        2      2      0      0
  OR2L8 WILD-TYPE     21     43     35     58
D16V5, multiclass
        clus
vv       OR2L8 MUTATED OR2L8 WILD-TYPE
  CLUS_1             2              21
  CLUS_2             2              43
  CLUS_3             0              35
  CLUS_4             0              58
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR2L8 MUTATED        0      3      1
  OR2L8 WILD-TYPE     67     61     29
D16V6, multiclass
        clus
vv       OR2L8 MUTATED OR2L8 WILD-TYPE
  CLUS_1             0              67
  CLUS_2             3              61
  CLUS_3             1              29
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR2L8 MUTATED        0      1      3
  OR2L8 WILD-TYPE     47     53     57
D16V7, multiclass
        clus
vv       OR2L8 MUTATED OR2L8 WILD-TYPE
  CLUS_1             0              47
  CLUS_2             1              53
  CLUS_3             3              57
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  OR2L8 MUTATED        0      0      1      3
  OR2L8 WILD-TYPE     30     35     38     54
D16V8, multiclass
        clus
vv       OR2L8 MUTATED OR2L8 WILD-TYPE
  CLUS_1             0              30
  CLUS_2             0              35
  CLUS_3             1              38
  CLUS_4             3              54
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  OR2L8 MUTATED        0      2      2
  OR2L8 WILD-TYPE     37     37     44
D16V9, multiclass
        clus
vv       OR2L8 MUTATED OR2L8 WILD-TYPE
  CLUS_1             0              37
  CLUS_2             2              37
  CLUS_3             2              44
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  OR2L8 MUTATED        1      2      0      1
  OR2L8 WILD-TYPE     46     45     12     15
D16V10, multiclass
        clus
vv       OR2L8 MUTATED OR2L8 WILD-TYPE
  CLUS_1             1              46
  CLUS_2             2              45
  CLUS_3             0              12
  CLUS_4             1              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(17) Variable = HOXD8 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  HOXD8 MUTATED        1      3      0      0
  HOXD8 WILD-TYPE     60     36     25     36
D17V1, multiclass
        clus
vv       HOXD8 MUTATED HOXD8 WILD-TYPE
  CLUS_1             1              60
  CLUS_2             3              36
  CLUS_3             0              25
  CLUS_4             0              36
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HOXD8 MUTATED        0      1      2
  HOXD8 WILD-TYPE     43     44     58
D17V2, multiclass
        clus
vv       HOXD8 MUTATED HOXD8 WILD-TYPE
  CLUS_1             0              43
  CLUS_2             1              44
  CLUS_3             2              58
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HOXD8 MUTATED        0      4      0
  HOXD8 WILD-TYPE     46     42     32
D17V3, multiclass
        clus
vv       HOXD8 MUTATED HOXD8 WILD-TYPE
  CLUS_1             0              46
  CLUS_2             4              42
  CLUS_3             0              32
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  HOXD8 MUTATED        0      0      3      1      0      0      0
  HOXD8 WILD-TYPE     11     12     18     22     16     25     16
D17V4, multiclass
        clus
vv       HOXD8 MUTATED HOXD8 WILD-TYPE
  CLUS_1             0              11
  CLUS_2             0              12
  CLUS_3             3              18
  CLUS_4             1              22
  CLUS_5             0              16
  CLUS_6             0              25
  CLUS_7             0              16
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  HOXD8 MUTATED        0      3      0      1
  HOXD8 WILD-TYPE     23     42     35     57
D17V5, multiclass
        clus
vv       HOXD8 MUTATED HOXD8 WILD-TYPE
  CLUS_1             0              23
  CLUS_2             3              42
  CLUS_3             0              35
  CLUS_4             1              57
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HOXD8 MUTATED        1      3      0
  HOXD8 WILD-TYPE     66     61     30
D17V6, multiclass
        clus
vv       HOXD8 MUTATED HOXD8 WILD-TYPE
  CLUS_1             1              66
  CLUS_2             3              61
  CLUS_3             0              30
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HOXD8 MUTATED        1      0      3
  HOXD8 WILD-TYPE     46     54     57
D17V7, multiclass
        clus
vv       HOXD8 MUTATED HOXD8 WILD-TYPE
  CLUS_1             1              46
  CLUS_2             0              54
  CLUS_3             3              57
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  HOXD8 MUTATED        1      0      1      2
  HOXD8 WILD-TYPE     29     35     38     55
D17V8, multiclass
        clus
vv       HOXD8 MUTATED HOXD8 WILD-TYPE
  CLUS_1             1              29
  CLUS_2             0              35
  CLUS_3             1              38
  CLUS_4             2              55
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HOXD8 MUTATED        0      4      0
  HOXD8 WILD-TYPE     37     35     46
D17V9, multiclass
        clus
vv       HOXD8 MUTATED HOXD8 WILD-TYPE
  CLUS_1             0              37
  CLUS_2             4              35
  CLUS_3             0              46
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  HOXD8 MUTATED        1      0      0      3
  HOXD8 WILD-TYPE     46     47     12     13
D17V10, multiclass
        clus
vv       HOXD8 MUTATED HOXD8 WILD-TYPE
  CLUS_1             1              46
  CLUS_2             0              47
  CLUS_3             0              12
  CLUS_4             3              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(18) Variable = PAM MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PAM MUTATED        1      0      1      1
  PAM WILD-TYPE     60     39     24     35
D18V1, multiclass
        clus
vv       PAM MUTATED PAM WILD-TYPE
  CLUS_1           1            60
  CLUS_2           0            39
  CLUS_3           1            24
  CLUS_4           1            35
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  PAM MUTATED        0      1      2
  PAM WILD-TYPE     43     44     58
D18V2, multiclass
        clus
vv       PAM MUTATED PAM WILD-TYPE
  CLUS_1           0            43
  CLUS_2           1            44
  CLUS_3           2            58
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  PAM MUTATED        3      0      0
  PAM WILD-TYPE     43     46     32
D18V3, multiclass
        clus
vv       PAM MUTATED PAM WILD-TYPE
  CLUS_1           3            43
  CLUS_2           0            46
  CLUS_3           0            32
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  PAM MUTATED        0      0      1      2      0      0      0
  PAM WILD-TYPE     11     12     20     21     16     25     16
D18V4, multiclass
        clus
vv       PAM MUTATED PAM WILD-TYPE
  CLUS_1           0            11
  CLUS_2           0            12
  CLUS_3           1            20
  CLUS_4           2            21
  CLUS_5           0            16
  CLUS_6           0            25
  CLUS_7           0            16
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PAM MUTATED        0      1      2      0
  PAM WILD-TYPE     23     44     33     58
D18V5, multiclass
        clus
vv       PAM MUTATED PAM WILD-TYPE
  CLUS_1           0            23
  CLUS_2           1            44
  CLUS_3           2            33
  CLUS_4           0            58
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  PAM MUTATED        1      2      0
  PAM WILD-TYPE     66     62     30
D18V6, multiclass
        clus
vv       PAM MUTATED PAM WILD-TYPE
  CLUS_1           1            66
  CLUS_2           2            62
  CLUS_3           0            30
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  PAM MUTATED        1      2      0
  PAM WILD-TYPE     46     52     60
D18V7, multiclass
        clus
vv       PAM MUTATED PAM WILD-TYPE
  CLUS_1           1            46
  CLUS_2           2            52
  CLUS_3           0            60
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PAM MUTATED        0      0      3      0
  PAM WILD-TYPE     30     35     36     57
D18V8, multiclass
        clus
vv       PAM MUTATED PAM WILD-TYPE
  CLUS_1           0            30
  CLUS_2           0            35
  CLUS_3           3            36
  CLUS_4           0            57
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  PAM MUTATED        0      2      0
  PAM WILD-TYPE     37     37     46
D18V9, multiclass
[1] "Remove cluster labels:" "PAM MUTATED"           
clus
  PAM MUTATED PAM WILD-TYPE 
            2           120 
   TCGA-A4-7286    TCGA-A4-7287    TCGA-A4-7288    TCGA-A4-7585    TCGA-A4-7734 
"PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" 
   TCGA-A4-7828    TCGA-A4-7915    TCGA-A4-7996    TCGA-A4-7997    TCGA-A4-8098 
"PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" 
   TCGA-A4-8310    TCGA-A4-8312    TCGA-A4-8515    TCGA-A4-8517    TCGA-A4-8518 
"PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" 
   TCGA-A4-8630    TCGA-A4-A57E    TCGA-A4-A5XZ    TCGA-A4-A5Y0    TCGA-A4-A5Y1 
"PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" 
   TCGA-AL-3466    TCGA-AL-3472    TCGA-AL-3473    TCGA-AL-7173    TCGA-AT-A5NU 
"PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" 
   TCGA-B1-5398    TCGA-B1-A47N    TCGA-B1-A654    TCGA-B1-A656    TCGA-B1-A657 
"PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" 
   TCGA-B3-3925    TCGA-B3-4104    TCGA-B3-8121    TCGA-B9-4115    TCGA-B9-4117 
"PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" 
   TCGA-B9-5156    TCGA-B9-A44B    TCGA-B9-A5W9    TCGA-B9-A69E    TCGA-BQ-5876 
"PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" 
   TCGA-BQ-5877    TCGA-BQ-5878    TCGA-BQ-5879    TCGA-BQ-5880    TCGA-BQ-5881 
"PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" 
   TCGA-BQ-5882    TCGA-BQ-5883    TCGA-BQ-5884    TCGA-BQ-5886    TCGA-BQ-5887 
"PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" 
   TCGA-BQ-5888    TCGA-BQ-5889    TCGA-BQ-5890    TCGA-BQ-5891    TCGA-BQ-5892 
"PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" 
   TCGA-BQ-5893    TCGA-BQ-5894    TCGA-BQ-7044    TCGA-BQ-7045    TCGA-BQ-7046 
"PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" 
   TCGA-BQ-7048    TCGA-BQ-7050    TCGA-BQ-7051    TCGA-BQ-7053    TCGA-BQ-7055 
"PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" 
   TCGA-BQ-7058    TCGA-BQ-7059    TCGA-BQ-7060    TCGA-BQ-7061    TCGA-BQ-7062 
"PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" 
   TCGA-DW-5560    TCGA-DW-5561    TCGA-DW-7834    TCGA-DW-7837    TCGA-DW-7838 
"PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" 
   TCGA-DW-7839    TCGA-DW-7840    TCGA-DW-7842    TCGA-DZ-6131    TCGA-DZ-6132 
"PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" 
   TCGA-DZ-6133    TCGA-DZ-6134    TCGA-DZ-6135    TCGA-EV-5901    TCGA-EV-5902 
"PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" 
   TCGA-EV-5903    TCGA-F9-A4JJ    TCGA-G7-6789    TCGA-G7-6790    TCGA-G7-6792 
"PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" 
   TCGA-G7-6793    TCGA-G7-6795    TCGA-G7-6796    TCGA-G7-7501    TCGA-G7-7502 
"PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" 
   TCGA-G7-A4TM    TCGA-GL-6846    TCGA-GL-7773    TCGA-GL-7966    TCGA-GL-8500 
"PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" 
   TCGA-GL-A4EM    TCGA-GL-A59T    TCGA-HE-7128    TCGA-HE-7130    TCGA-HE-A5NJ 
"PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" 
   TCGA-IA-A40X    TCGA-IA-A40Y    TCGA-IZ-8195    TCGA-IZ-8196    TCGA-IZ-A6M9 
"PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" 
   TCGA-J7-6720    TCGA-J7-8537    TCGA-KV-A6GD    TCGA-KV-A6GE    TCGA-P4-A5E7 
"PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" 
   TCGA-P4-A5E8    TCGA-P4-A5EA    TCGA-PJ-A5Z8    TCGA-PJ-A5Z9    TCGA-Q2-A5QZ 
"PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" 
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PAM MUTATED        2      0      0      0
  PAM WILD-TYPE     45     47     12     16
D18V10, multiclass
[1] "Remove cluster labels:" "PAM MUTATED"           
clus
  PAM MUTATED PAM WILD-TYPE 
            2           120 
   TCGA-A4-7286    TCGA-A4-7287    TCGA-A4-7288    TCGA-A4-7585    TCGA-A4-7734 
"PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" 
   TCGA-A4-7828    TCGA-A4-7915    TCGA-A4-7996    TCGA-A4-7997    TCGA-A4-8098 
"PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" 
   TCGA-A4-8310    TCGA-A4-8312    TCGA-A4-8515    TCGA-A4-8517    TCGA-A4-8518 
"PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" 
   TCGA-A4-8630    TCGA-A4-A57E    TCGA-A4-A5XZ    TCGA-A4-A5Y0    TCGA-A4-A5Y1 
"PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" 
   TCGA-AL-3466    TCGA-AL-3472    TCGA-AL-3473    TCGA-AL-7173    TCGA-AT-A5NU 
"PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" 
   TCGA-B1-5398    TCGA-B1-A47N    TCGA-B1-A654    TCGA-B1-A656    TCGA-B1-A657 
"PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" 
   TCGA-B3-3925    TCGA-B3-4104    TCGA-B3-8121    TCGA-B9-4115    TCGA-B9-4117 
"PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" 
   TCGA-B9-5156    TCGA-B9-A44B    TCGA-B9-A5W9    TCGA-B9-A69E    TCGA-BQ-5876 
"PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" 
   TCGA-BQ-5877    TCGA-BQ-5878    TCGA-BQ-5879    TCGA-BQ-5880    TCGA-BQ-5881 
"PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" 
   TCGA-BQ-5882    TCGA-BQ-5883    TCGA-BQ-5884    TCGA-BQ-5886    TCGA-BQ-5887 
"PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" 
   TCGA-BQ-5888    TCGA-BQ-5889    TCGA-BQ-5890    TCGA-BQ-5891    TCGA-BQ-5892 
"PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" 
   TCGA-BQ-5893    TCGA-BQ-5894    TCGA-BQ-7044    TCGA-BQ-7045    TCGA-BQ-7046 
"PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" 
   TCGA-BQ-7048    TCGA-BQ-7050    TCGA-BQ-7051    TCGA-BQ-7053    TCGA-BQ-7055 
"PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" 
   TCGA-BQ-7058    TCGA-BQ-7059    TCGA-BQ-7060    TCGA-BQ-7061    TCGA-BQ-7062 
"PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" 
   TCGA-DW-5560    TCGA-DW-5561    TCGA-DW-7834    TCGA-DW-7837    TCGA-DW-7838 
"PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" 
   TCGA-DW-7839    TCGA-DW-7840    TCGA-DW-7842    TCGA-DZ-6131    TCGA-DZ-6132 
"PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" 
   TCGA-DZ-6133    TCGA-DZ-6134    TCGA-DZ-6135    TCGA-EV-5901    TCGA-EV-5902 
"PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" 
   TCGA-EV-5903    TCGA-F9-A4JJ    TCGA-G7-6789    TCGA-G7-6790    TCGA-G7-6792 
"PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" 
   TCGA-G7-6793    TCGA-G7-6795    TCGA-G7-6796    TCGA-G7-7501    TCGA-G7-7502 
"PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" 
   TCGA-G7-A4TM    TCGA-GL-6846    TCGA-GL-7773    TCGA-GL-7966    TCGA-GL-8500 
"PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" 
   TCGA-GL-A4EM    TCGA-GL-A59T    TCGA-HE-7128    TCGA-HE-7130    TCGA-HE-A5NJ 
"PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" 
   TCGA-IA-A40X    TCGA-IA-A40Y    TCGA-IZ-8195    TCGA-IZ-8196    TCGA-IZ-A6M9 
"PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" 
   TCGA-J7-6720    TCGA-J7-8537    TCGA-KV-A6GD    TCGA-KV-A6GE    TCGA-P4-A5E7 
"PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" 
   TCGA-P4-A5E8    TCGA-P4-A5EA    TCGA-PJ-A5Z8    TCGA-PJ-A5Z9    TCGA-Q2-A5QZ 
"PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" 

Clustering(19) Variable = CSGALNACT2 MUTATION ANALYSIS
                      vv
clus                   CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CSGALNACT2 MUTATED        1      0      1      3
  CSGALNACT2 WILD-TYPE     60     39     24     33
D19V1, multiclass
        clus
vv       CSGALNACT2 MUTATED CSGALNACT2 WILD-TYPE
  CLUS_1                  1                   60
  CLUS_2                  0                   39
  CLUS_3                  1                   24
  CLUS_4                  3                   33
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                      vv
clus                   CLUS_1 CLUS_2 CLUS_3
  CSGALNACT2 MUTATED        3      1      1
  CSGALNACT2 WILD-TYPE     40     44     59
D19V2, multiclass
        clus
vv       CSGALNACT2 MUTATED CSGALNACT2 WILD-TYPE
  CLUS_1                  3                   40
  CLUS_2                  1                   44
  CLUS_3                  1                   59
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                      vv
clus                   CLUS_1 CLUS_2 CLUS_3
  CSGALNACT2 MUTATED        1      2      1
  CSGALNACT2 WILD-TYPE     45     44     31
D19V3, multiclass
        clus
vv       CSGALNACT2 MUTATED CSGALNACT2 WILD-TYPE
  CLUS_1                  1                   45
  CLUS_2                  2                   44
  CLUS_3                  1                   31
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                      vv
clus                   CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  CSGALNACT2 MUTATED        1      0      0      1      0      1      1
  CSGALNACT2 WILD-TYPE     10     12     21     22     16     24     15
D19V4, multiclass
        clus
vv       CSGALNACT2 MUTATED CSGALNACT2 WILD-TYPE
  CLUS_1                  1                   10
  CLUS_2                  0                   12
  CLUS_3                  0                   21
  CLUS_4                  1                   22
  CLUS_5                  0                   16
  CLUS_6                  1                   24
  CLUS_7                  1                   15
[1] 7 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                      vv
clus                   CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CSGALNACT2 MUTATED        1      1      0      3
  CSGALNACT2 WILD-TYPE     22     44     35     55
D19V5, multiclass
        clus
vv       CSGALNACT2 MUTATED CSGALNACT2 WILD-TYPE
  CLUS_1                  1                   22
  CLUS_2                  1                   44
  CLUS_3                  0                   35
  CLUS_4                  3                   55
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                      vv
clus                   CLUS_1 CLUS_2 CLUS_3
  CSGALNACT2 MUTATED        2      1      2
  CSGALNACT2 WILD-TYPE     65     63     28
D19V6, multiclass
        clus
vv       CSGALNACT2 MUTATED CSGALNACT2 WILD-TYPE
  CLUS_1                  2                   65
  CLUS_2                  1                   63
  CLUS_3                  2                   28
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                      vv
clus                   CLUS_1 CLUS_2 CLUS_3
  CSGALNACT2 MUTATED        1      3      1
  CSGALNACT2 WILD-TYPE     46     51     59
D19V7, multiclass
        clus
vv       CSGALNACT2 MUTATED CSGALNACT2 WILD-TYPE
  CLUS_1                  1                   46
  CLUS_2                  3                   51
  CLUS_3                  1                   59
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                      vv
clus                   CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CSGALNACT2 MUTATED        0      2      1      2
  CSGALNACT2 WILD-TYPE     30     33     38     55
D19V8, multiclass
        clus
vv       CSGALNACT2 MUTATED CSGALNACT2 WILD-TYPE
  CLUS_1                  0                   30
  CLUS_2                  2                   33
  CLUS_3                  1                   38
  CLUS_4                  2                   55
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                      vv
clus                   CLUS_1 CLUS_2 CLUS_3
  CSGALNACT2 MUTATED        0      0      2
  CSGALNACT2 WILD-TYPE     37     39     44
D19V9, multiclass
[1] "Remove cluster labels:" "CSGALNACT2 MUTATED"    
clus
  CSGALNACT2 MUTATED CSGALNACT2 WILD-TYPE 
                   2                  120 
          TCGA-A4-7286           TCGA-A4-7287           TCGA-A4-7288 
"CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" 
          TCGA-A4-7585           TCGA-A4-7734           TCGA-A4-7828 
"CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" 
          TCGA-A4-7915           TCGA-A4-7996           TCGA-A4-7997 
"CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" 
          TCGA-A4-8098           TCGA-A4-8310           TCGA-A4-8312 
"CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" 
          TCGA-A4-8515           TCGA-A4-8517           TCGA-A4-8518 
"CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" 
          TCGA-A4-8630           TCGA-A4-A57E           TCGA-A4-A5XZ 
"CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" 
          TCGA-A4-A5Y0           TCGA-A4-A5Y1           TCGA-AL-3466 
"CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" 
          TCGA-AL-3472           TCGA-AL-3473           TCGA-AL-7173 
"CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" 
          TCGA-AT-A5NU           TCGA-B1-5398           TCGA-B1-A47N 
"CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" 
          TCGA-B1-A654           TCGA-B1-A656           TCGA-B1-A657 
"CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" 
          TCGA-B3-3925           TCGA-B3-4104           TCGA-B3-8121 
"CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" 
          TCGA-B9-4115           TCGA-B9-4117           TCGA-B9-5156 
"CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" 
          TCGA-B9-A44B           TCGA-B9-A5W9           TCGA-B9-A69E 
"CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" 
          TCGA-BQ-5876           TCGA-BQ-5877           TCGA-BQ-5878 
"CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" 
          TCGA-BQ-5879           TCGA-BQ-5880           TCGA-BQ-5881 
"CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" 
          TCGA-BQ-5882           TCGA-BQ-5883           TCGA-BQ-5884 
"CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" 
          TCGA-BQ-5886           TCGA-BQ-5887           TCGA-BQ-5888 
"CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" 
          TCGA-BQ-5889           TCGA-BQ-5890           TCGA-BQ-5891 
"CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" 
          TCGA-BQ-5892           TCGA-BQ-5893           TCGA-BQ-5894 
"CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" 
          TCGA-BQ-7044           TCGA-BQ-7045           TCGA-BQ-7046 
"CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" 
          TCGA-BQ-7048           TCGA-BQ-7050           TCGA-BQ-7051 
"CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" 
          TCGA-BQ-7053           TCGA-BQ-7055           TCGA-BQ-7058 
"CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" 
          TCGA-BQ-7059           TCGA-BQ-7060           TCGA-BQ-7061 
"CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" 
          TCGA-BQ-7062           TCGA-DW-5560           TCGA-DW-5561 
"CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" 
          TCGA-DW-7834           TCGA-DW-7837           TCGA-DW-7838 
"CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" 
          TCGA-DW-7839           TCGA-DW-7840           TCGA-DW-7842 
"CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" 
          TCGA-DZ-6131           TCGA-DZ-6132           TCGA-DZ-6133 
"CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" 
          TCGA-DZ-6134           TCGA-DZ-6135           TCGA-EV-5901 
"CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" 
          TCGA-EV-5902           TCGA-EV-5903           TCGA-F9-A4JJ 
"CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" 
          TCGA-G7-6789           TCGA-G7-6790           TCGA-G7-6792 
"CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" 
          TCGA-G7-6793           TCGA-G7-6795           TCGA-G7-6796 
"CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" 
          TCGA-G7-7501           TCGA-G7-7502           TCGA-G7-A4TM 
"CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" 
          TCGA-GL-6846           TCGA-GL-7773           TCGA-GL-7966 
"CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" 
          TCGA-GL-8500           TCGA-GL-A4EM           TCGA-GL-A59T 
"CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" 
          TCGA-HE-7128           TCGA-HE-A5NJ           TCGA-IA-A40U 
"CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" 
          TCGA-IA-A40X           TCGA-IA-A40Y           TCGA-IZ-8195 
"CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" 
          TCGA-IZ-8196           TCGA-IZ-A6M9           TCGA-J7-6720 
"CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" 
          TCGA-J7-8537           TCGA-KV-A6GE           TCGA-P4-A5E6 
"CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" 
          TCGA-P4-A5E7           TCGA-P4-A5E8           TCGA-P4-A5EA 
"CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" 
          TCGA-PJ-A5Z8           TCGA-PJ-A5Z9           TCGA-Q2-A5QZ 
"CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" 
                      vv
clus                   CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CSGALNACT2 MUTATED        0      1      1      0
  CSGALNACT2 WILD-TYPE     47     46     11     16
D19V10, multiclass
[1] "Remove cluster labels:" "CSGALNACT2 MUTATED"    
clus
  CSGALNACT2 MUTATED CSGALNACT2 WILD-TYPE 
                   2                  120 
          TCGA-A4-7286           TCGA-A4-7287           TCGA-A4-7288 
"CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" 
          TCGA-A4-7585           TCGA-A4-7734           TCGA-A4-7828 
"CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" 
          TCGA-A4-7915           TCGA-A4-7996           TCGA-A4-7997 
"CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" 
          TCGA-A4-8098           TCGA-A4-8310           TCGA-A4-8312 
"CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" 
          TCGA-A4-8515           TCGA-A4-8517           TCGA-A4-8518 
"CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" 
          TCGA-A4-8630           TCGA-A4-A57E           TCGA-A4-A5XZ 
"CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" 
          TCGA-A4-A5Y0           TCGA-A4-A5Y1           TCGA-AL-3466 
"CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" 
          TCGA-AL-3472           TCGA-AL-3473           TCGA-AL-7173 
"CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" 
          TCGA-AT-A5NU           TCGA-B1-5398           TCGA-B1-A47N 
"CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" 
          TCGA-B1-A654           TCGA-B1-A656           TCGA-B1-A657 
"CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" 
          TCGA-B3-3925           TCGA-B3-4104           TCGA-B3-8121 
"CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" 
          TCGA-B9-4115           TCGA-B9-4117           TCGA-B9-5156 
"CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" 
          TCGA-B9-A44B           TCGA-B9-A5W9           TCGA-B9-A69E 
"CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" 
          TCGA-BQ-5876           TCGA-BQ-5877           TCGA-BQ-5878 
"CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" 
          TCGA-BQ-5879           TCGA-BQ-5880           TCGA-BQ-5881 
"CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" 
          TCGA-BQ-5882           TCGA-BQ-5883           TCGA-BQ-5884 
"CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" 
          TCGA-BQ-5886           TCGA-BQ-5887           TCGA-BQ-5888 
"CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" 
          TCGA-BQ-5889           TCGA-BQ-5890           TCGA-BQ-5891 
"CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" 
          TCGA-BQ-5892           TCGA-BQ-5893           TCGA-BQ-5894 
"CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" 
          TCGA-BQ-7044           TCGA-BQ-7045           TCGA-BQ-7046 
"CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" 
          TCGA-BQ-7048           TCGA-BQ-7050           TCGA-BQ-7051 
"CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" 
          TCGA-BQ-7053           TCGA-BQ-7055           TCGA-BQ-7058 
"CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" 
          TCGA-BQ-7059           TCGA-BQ-7060           TCGA-BQ-7061 
"CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" 
          TCGA-BQ-7062           TCGA-DW-5560           TCGA-DW-5561 
"CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" 
          TCGA-DW-7834           TCGA-DW-7837           TCGA-DW-7838 
"CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" 
          TCGA-DW-7839           TCGA-DW-7840           TCGA-DW-7842 
"CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" 
          TCGA-DZ-6131           TCGA-DZ-6132           TCGA-DZ-6133 
"CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" 
          TCGA-DZ-6134           TCGA-DZ-6135           TCGA-EV-5901 
"CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" 
          TCGA-EV-5902           TCGA-EV-5903           TCGA-F9-A4JJ 
"CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" 
          TCGA-G7-6789           TCGA-G7-6790           TCGA-G7-6792 
"CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" 
          TCGA-G7-6793           TCGA-G7-6795           TCGA-G7-6796 
"CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" 
          TCGA-G7-7501           TCGA-G7-7502           TCGA-G7-A4TM 
"CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" 
          TCGA-GL-6846           TCGA-GL-7773           TCGA-GL-7966 
"CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" 
          TCGA-GL-8500           TCGA-GL-A4EM           TCGA-GL-A59T 
"CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" 
          TCGA-HE-7128           TCGA-HE-A5NJ           TCGA-IA-A40U 
"CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" 
          TCGA-IA-A40X           TCGA-IA-A40Y           TCGA-IZ-8195 
"CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" 
          TCGA-IZ-8196           TCGA-IZ-A6M9           TCGA-J7-6720 
"CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" 
          TCGA-J7-8537           TCGA-KV-A6GE           TCGA-P4-A5E6 
"CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" 
          TCGA-P4-A5E7           TCGA-P4-A5E8           TCGA-P4-A5EA 
"CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" 
          TCGA-PJ-A5Z8           TCGA-PJ-A5Z9           TCGA-Q2-A5QZ 
"CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" 
