[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/20139337/KIRP-TP.transferedmergedcluster.txt"
[1] "dfn:"
[1] "/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_Correlate_Genomic_Events_Preprocess/KIRP-TP/19898020/transformed.cor.cli.txt"

nPatients in clinical file=291, in cluster file=161, common to both=161
[1]  19 161
[1] "FAM18B2 MUTATION ANALYSIS"
[1] 3
  FAM18B2 MUTATED FAM18B2 WILD-TYPE 
               35               126 
  FAM18B2 MUTATED FAM18B2 WILD-TYPE 
               35               126 
[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] "MET MUTATION ANALYSIS"
[1] 3
  MET MUTATED MET WILD-TYPE 
           15           146 
  MET MUTATED MET WILD-TYPE 
           15           146 
[1] "SETD2 MUTATION ANALYSIS"
[1] 3
  SETD2 MUTATED SETD2 WILD-TYPE 
             11             150 
  SETD2 MUTATED SETD2 WILD-TYPE 
             11             150 
[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] "KDM6A MUTATION ANALYSIS"
[1] 3
  KDM6A MUTATED KDM6A WILD-TYPE 
              7             154 
  KDM6A MUTATED KDM6A WILD-TYPE 
              7             154 
[1] "ZNF814 MUTATION ANALYSIS"
[1] 3
  ZNF814 MUTATED ZNF814 WILD-TYPE 
               8              153 
  ZNF814 MUTATED ZNF814 WILD-TYPE 
               8              153 
[1] "SMARCB1 MUTATION ANALYSIS"
[1] 3
  SMARCB1 MUTATED SMARCB1 WILD-TYPE 
                4               157 
  SMARCB1 MUTATED SMARCB1 WILD-TYPE 
                4               157 
[1] "AHNAK2 MUTATION ANALYSIS"
[1] 3
  AHNAK2 MUTATED AHNAK2 WILD-TYPE 
               7              154 
  AHNAK2 MUTATED AHNAK2 WILD-TYPE 
               7              154 
[1] "OR2L8 MUTATION ANALYSIS"
[1] 3
  OR2L8 MUTATED OR2L8 WILD-TYPE 
              4             157 
  OR2L8 MUTATED OR2L8 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] "IDUA MUTATION ANALYSIS"
[1] 3
  IDUA MUTATED IDUA WILD-TYPE 
             5            156 
  IDUA MUTATED IDUA WILD-TYPE 
             5            156 
[1] "CSGALNACT2 MUTATION ANALYSIS"
[1] 3
  CSGALNACT2 MUTATED CSGALNACT2 WILD-TYPE 
                   5                  156 
  CSGALNACT2 MUTATED CSGALNACT2 WILD-TYPE 
                   5                  156 
[1] "RPL7A MUTATION ANALYSIS"
[1] 3
  RPL7A MUTATED RPL7A WILD-TYPE 
              3             158 
  RPL7A MUTATED RPL7A WILD-TYPE 
              3             158 
[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=4,	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=3,	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=4, 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=3, 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 = FAM18B2 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FAM18B2 MUTATED       13     10      4      8
  FAM18B2 WILD-TYPE     48     29     21     28
D1V1, multiclass
        clus
vv       FAM18B2 MUTATED FAM18B2 WILD-TYPE
  CLUS_1              13                48
  CLUS_2              10                29
  CLUS_3               4                21
  CLUS_4               8                28
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  FAM18B2 MUTATED        7     12     12
  FAM18B2 WILD-TYPE     36     33     48
D1V2, multiclass
        clus
vv       FAM18B2 MUTATED FAM18B2 WILD-TYPE
  CLUS_1               7                36
  CLUS_2              12                33
  CLUS_3              12                48
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  FAM18B2 MUTATED        8      7     10
  FAM18B2 WILD-TYPE     40     34     25
D1V3, multiclass
        clus
vv       FAM18B2 MUTATED FAM18B2 WILD-TYPE
  CLUS_1               8                40
  CLUS_2               7                34
  CLUS_3              10                25
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FAM18B2 MUTATED        5      8      7      5
  FAM18B2 WILD-TYPE     18     26     35     20
D1V4, multiclass
        clus
vv       FAM18B2 MUTATED FAM18B2 WILD-TYPE
  CLUS_1               5                18
  CLUS_2               8                26
  CLUS_3               7                35
  CLUS_4               5                20
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FAM18B2 MUTATED        7      9      5     14
  FAM18B2 WILD-TYPE     16     36     30     44
D1V5, multiclass
        clus
vv       FAM18B2 MUTATED FAM18B2 WILD-TYPE
  CLUS_1               7                16
  CLUS_2               9                36
  CLUS_3               5                30
  CLUS_4              14                44
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  FAM18B2 MUTATED       14     16      5
  FAM18B2 WILD-TYPE     53     48     25
D1V6, multiclass
        clus
vv       FAM18B2 MUTATED FAM18B2 WILD-TYPE
  CLUS_1              14                53
  CLUS_2              16                48
  CLUS_3               5                25
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  FAM18B2 MUTATED       16     10      9
  FAM18B2 WILD-TYPE     31     47     48
D1V7, multiclass
        clus
vv       FAM18B2 MUTATED FAM18B2 WILD-TYPE
  CLUS_1              16                31
  CLUS_2              10                47
  CLUS_3               9                48
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  FAM18B2 MUTATED       17      7     11
  FAM18B2 WILD-TYPE     46     32     48
D1V8, multiclass
        clus
vv       FAM18B2 MUTATED FAM18B2 WILD-TYPE
  CLUS_1              17                46
  CLUS_2               7                32
  CLUS_3              11                48
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  FAM18B2 MUTATED        9     11      9
  FAM18B2 WILD-TYPE     29     28     37
D1V9, multiclass
        clus
vv       FAM18B2 MUTATED FAM18B2 WILD-TYPE
  CLUS_1               9                29
  CLUS_2              11                28
  CLUS_3               9                37
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FAM18B2 MUTATED       14     11      3      1
  FAM18B2 WILD-TYPE     33     38      9     14
D1V10, multiclass
        clus
vv       FAM18B2 MUTATED FAM18B2 WILD-TYPE
  CLUS_1              14                33
  CLUS_2              11                38
  CLUS_3               3                 9
  CLUS_4               1                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(2) 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
D2V1, 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
D2V2, 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     44     37     33
D2V3, multiclass
        clus
vv       HNRNPM MUTATED HNRNPM WILD-TYPE
  CLUS_1              4               44
  CLUS_2              4               37
  CLUS_3              2               33
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  HNRNPM MUTATED        4      2      3      1
  HNRNPM WILD-TYPE     19     32     39     24
D2V4, multiclass
        clus
vv       HNRNPM MUTATED HNRNPM WILD-TYPE
  CLUS_1              4               19
  CLUS_2              2               32
  CLUS_3              3               39
  CLUS_4              1               24
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  HNRNPM MUTATED        3      2      1      4
  HNRNPM WILD-TYPE     20     43     34     54
D2V5, 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
D2V6, 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      4      4
  HNRNPM WILD-TYPE     45     53     53
D2V7, multiclass
        clus
vv       HNRNPM MUTATED HNRNPM WILD-TYPE
  CLUS_1              2               45
  CLUS_2              4               53
  CLUS_3              4               53
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  HNRNPM MUTATED        4      2      4
  HNRNPM WILD-TYPE     59     37     55
D2V8, multiclass
        clus
vv       HNRNPM MUTATED HNRNPM WILD-TYPE
  CLUS_1              4               59
  CLUS_2              2               37
  CLUS_3              4               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
  HNRNPM MUTATED        3      1      5
  HNRNPM WILD-TYPE     35     38     41
D2V9, multiclass
        clus
vv       HNRNPM MUTATED HNRNPM WILD-TYPE
  CLUS_1              3               35
  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     44     12     15
D2V10, multiclass
        clus
vv       HNRNPM MUTATED HNRNPM WILD-TYPE
  CLUS_1              4               43
  CLUS_2              5               44
  CLUS_3              0               12
  CLUS_4              0               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(3) 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
D3V1, 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
D3V2, 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     45     40     32
D3V3, multiclass
        clus
vv       NEFH MUTATED NEFH WILD-TYPE
  CLUS_1            3             45
  CLUS_2            1             40
  CLUS_3            3             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
  NEFH MUTATED        1      1      4      1
  NEFH WILD-TYPE     22     33     38     24
D3V4, multiclass
        clus
vv       NEFH MUTATED NEFH WILD-TYPE
  CLUS_1            1             22
  CLUS_2            1             33
  CLUS_3            4             38
  CLUS_4            1             24
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NEFH MUTATED        0      3      5      2
  NEFH WILD-TYPE     23     42     30     56
D3V5, 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
D3V6, 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     52     57
D3V7, multiclass
        clus
vv       NEFH MUTATED NEFH WILD-TYPE
  CLUS_1            5             42
  CLUS_2            5             52
  CLUS_3            0             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
  NEFH MUTATED        6      4      0
  NEFH WILD-TYPE     57     35     59
D3V8, multiclass
        clus
vv       NEFH MUTATED NEFH WILD-TYPE
  CLUS_1            6             57
  CLUS_2            4             35
  CLUS_3            0             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
  NEFH MUTATED        3      1      0
  NEFH WILD-TYPE     35     38     46
D3V9, multiclass
        clus
vv       NEFH MUTATED NEFH WILD-TYPE
  CLUS_1            3             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        4      0      0      0
  NEFH WILD-TYPE     43     49     12     15
D3V10, multiclass
        clus
vv       NEFH MUTATED NEFH WILD-TYPE
  CLUS_1            4             43
  CLUS_2            0             49
  CLUS_3            0             12
  CLUS_4            0             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 = 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
D4V1, 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
D4V2, 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        5      3      1
  ZNF598 WILD-TYPE     43     38     34
D4V3, multiclass
        clus
vv       ZNF598 MUTATED ZNF598 WILD-TYPE
  CLUS_1              5               43
  CLUS_2              3               38
  CLUS_3              1               34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZNF598 MUTATED        3      2      4      0
  ZNF598 WILD-TYPE     20     32     38     25
D4V4, multiclass
        clus
vv       ZNF598 MUTATED ZNF598 WILD-TYPE
  CLUS_1              3               20
  CLUS_2              2               32
  CLUS_3              4               38
  CLUS_4              0               25
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZNF598 MUTATED        4      2      1      3
  ZNF598 WILD-TYPE     19     43     34     55
D4V5, 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
D4V6, 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      3      5
  ZNF598 WILD-TYPE     45     54     52
D4V7, multiclass
        clus
vv       ZNF598 MUTATED ZNF598 WILD-TYPE
  CLUS_1              2               45
  CLUS_2              3               54
  CLUS_3              5               52
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF598 MUTATED        2      2      6
  ZNF598 WILD-TYPE     61     37     53
D4V8, multiclass
        clus
vv       ZNF598 MUTATED ZNF598 WILD-TYPE
  CLUS_1              2               61
  CLUS_2              2               37
  CLUS_3              6               53
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF598 MUTATED        2      1      7
  ZNF598 WILD-TYPE     36     38     39
D4V9, multiclass
        clus
vv       ZNF598 MUTATED ZNF598 WILD-TYPE
  CLUS_1              2               36
  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        2      6      1      1
  ZNF598 WILD-TYPE     45     43     11     14
D4V10, multiclass
        clus
vv       ZNF598 MUTATED ZNF598 WILD-TYPE
  CLUS_1              2               45
  CLUS_2              6               43
  CLUS_3              1               11
  CLUS_4              1               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(5) 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
D5V1, 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
D5V2, 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        3      2      4
  NF2 WILD-TYPE     45     39     31
D5V3, multiclass
        clus
vv       NF2 MUTATED NF2 WILD-TYPE
  CLUS_1           3            45
  CLUS_2           2            39
  CLUS_3           4            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
  NF2 MUTATED        1      2      4      2
  NF2 WILD-TYPE     22     32     38     23
D5V4, multiclass
        clus
vv       NF2 MUTATED NF2 WILD-TYPE
  CLUS_1           1            22
  CLUS_2           2            32
  CLUS_3           4            38
  CLUS_4           2            23
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NF2 MUTATED        0      4      0      6
  NF2 WILD-TYPE     23     41     35     52
D5V5, 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
D5V6, 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     55     52
D5V7, multiclass
        clus
vv       NF2 MUTATED NF2 WILD-TYPE
  CLUS_1           3            44
  CLUS_2           2            55
  CLUS_3           5            52
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  NF2 MUTATED        4      1      5
  NF2 WILD-TYPE     59     38     54
D5V8, multiclass
        clus
vv       NF2 MUTATED NF2 WILD-TYPE
  CLUS_1           4            59
  CLUS_2           1            38
  CLUS_3           5            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
  NF2 MUTATED        2      1      4
  NF2 WILD-TYPE     36     38     42
D5V9, multiclass
        clus
vv       NF2 MUTATED NF2 WILD-TYPE
  CLUS_1           2            36
  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     48      9     15
D5V10, multiclass
        clus
vv       NF2 MUTATED NF2 WILD-TYPE
  CLUS_1           3            44
  CLUS_2           1            48
  CLUS_3           3             9
  CLUS_4           0            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(6) 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
D6V1, 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
D6V2, 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     47     39     33
D6V3, multiclass
        clus
vv       TDG MUTATED TDG WILD-TYPE
  CLUS_1           1            47
  CLUS_2           2            39
  CLUS_3           2            33
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TDG MUTATED        0      2      3      0
  TDG WILD-TYPE     23     32     39     25
D6V4, multiclass
        clus
vv       TDG MUTATED TDG WILD-TYPE
  CLUS_1           0            23
  CLUS_2           2            32
  CLUS_3           3            39
  CLUS_4           0            25
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TDG MUTATED        0      1      1      3
  TDG WILD-TYPE     23     44     34     55
D6V5, 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
D6V6, 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     56     56
D6V7, multiclass
        clus
vv       TDG MUTATED TDG WILD-TYPE
  CLUS_1           3            44
  CLUS_2           1            56
  CLUS_3           1            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
  TDG MUTATED        4      0      1
  TDG WILD-TYPE     59     39     58
D6V8, multiclass
        clus
vv       TDG MUTATED TDG WILD-TYPE
  CLUS_1           4            59
  CLUS_2           0            39
  CLUS_3           1            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
  TDG MUTATED        3      1      1
  TDG WILD-TYPE     35     38     45
D6V9, multiclass
        clus
vv       TDG MUTATED TDG WILD-TYPE
  CLUS_1           3            35
  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        2      3      0      0
  TDG WILD-TYPE     45     46     12     15
D6V10, multiclass
        clus
vv       TDG MUTATED TDG WILD-TYPE
  CLUS_1           2            45
  CLUS_2           3            46
  CLUS_3           0            12
  CLUS_4           0            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(7) 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
D7V1, 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
D7V2, 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     41     36     34
D7V3, multiclass
        clus
vv       MET MUTATED MET WILD-TYPE
  CLUS_1           7            41
  CLUS_2           5            36
  CLUS_3           1            34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MET MUTATED        3      5      5      0
  MET WILD-TYPE     20     29     37     25
D7V4, multiclass
        clus
vv       MET MUTATED MET WILD-TYPE
  CLUS_1           3            20
  CLUS_2           5            29
  CLUS_3           5            37
  CLUS_4           0            25
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MET MUTATED        5      8      1      1
  MET WILD-TYPE     18     37     34     57
D7V5, 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
D7V6, 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     53     51
D7V7, multiclass
        clus
vv       MET MUTATED MET WILD-TYPE
  CLUS_1           5            42
  CLUS_2           4            53
  CLUS_3           6            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        5      3      7
  MET WILD-TYPE     58     36     52
D7V8, multiclass
        clus
vv       MET MUTATED MET WILD-TYPE
  CLUS_1           5            58
  CLUS_2           3            36
  CLUS_3           7            52
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  MET MUTATED        4      5      3
  MET WILD-TYPE     34     34     43
D7V9, multiclass
        clus
vv       MET MUTATED MET WILD-TYPE
  CLUS_1           4            34
  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     46     12     11
D7V10, multiclass
        clus
vv       MET MUTATED MET WILD-TYPE
  CLUS_1           5            42
  CLUS_2           3            46
  CLUS_3           0            12
  CLUS_4           4            11
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"

Clustering(8) Variable = SETD2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SETD2 MUTATED        5      1      0      5
  SETD2 WILD-TYPE     56     38     25     31
D8V1, multiclass
        clus
vv       SETD2 MUTATED SETD2 WILD-TYPE
  CLUS_1             5              56
  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     10      0
  SETD2 WILD-TYPE     42     35     60
D8V2, multiclass
        clus
vv       SETD2 MUTATED SETD2 WILD-TYPE
  CLUS_1             1              42
  CLUS_2            10              35
  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        2      1      5
  SETD2 WILD-TYPE     46     40     30
D8V3, multiclass
        clus
vv       SETD2 MUTATED SETD2 WILD-TYPE
  CLUS_1             2              46
  CLUS_2             1              40
  CLUS_3             5              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
  SETD2 MUTATED        0      1      2      5
  SETD2 WILD-TYPE     23     33     40     20
D8V4, multiclass
        clus
vv       SETD2 MUTATED SETD2 WILD-TYPE
  CLUS_1             0              23
  CLUS_2             1              33
  CLUS_3             2              40
  CLUS_4             5              20
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SETD2 MUTATED        0      0      2      9
  SETD2 WILD-TYPE     23     45     33     49
D8V5, multiclass
        clus
vv       SETD2 MUTATED SETD2 WILD-TYPE
  CLUS_1             0              23
  CLUS_2             0              45
  CLUS_3             2              33
  CLUS_4             9              49
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SETD2 MUTATED       10      0      1
  SETD2 WILD-TYPE     57     64     29
D8V6, multiclass
        clus
vv       SETD2 MUTATED SETD2 WILD-TYPE
  CLUS_1            10              57
  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      5
  SETD2 WILD-TYPE     41     57     52
D8V7, multiclass
        clus
vv       SETD2 MUTATED SETD2 WILD-TYPE
  CLUS_1             6              41
  CLUS_2             0              57
  CLUS_3             5              52
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SETD2 MUTATED        9      0      2
  SETD2 WILD-TYPE     54     39     57
D8V8, multiclass
        clus
vv       SETD2 MUTATED SETD2 WILD-TYPE
  CLUS_1             9              54
  CLUS_2             0              39
  CLUS_3             2              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
  SETD2 MUTATED        4      0      6
  SETD2 WILD-TYPE     34     39     40
D8V9, multiclass
        clus
vv       SETD2 MUTATED SETD2 WILD-TYPE
  CLUS_1             4              34
  CLUS_2             0              39
  CLUS_3             6              40
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SETD2 MUTATED        2      8      0      0
  SETD2 WILD-TYPE     45     41     12     15
D8V10, multiclass
        clus
vv       SETD2 MUTATED SETD2 WILD-TYPE
  CLUS_1             2              45
  CLUS_2             8              41
  CLUS_3             0              12
  CLUS_4             0              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 = 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
D9V1, 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
D9V2, 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     45     40     34
D9V3, multiclass
        clus
vv       SKI MUTATED SKI WILD-TYPE
  CLUS_1           3            45
  CLUS_2           1            40
  CLUS_3           1            34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SKI MUTATED        2      1      1      1
  SKI WILD-TYPE     21     33     41     24
D9V4, multiclass
        clus
vv       SKI MUTATED SKI WILD-TYPE
  CLUS_1           2            21
  CLUS_2           1            33
  CLUS_3           1            41
  CLUS_4           1            24
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SKI MUTATED        3      1      1      1
  SKI WILD-TYPE     20     44     34     57
D9V5, 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
D9V6, 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     56     55
D9V7, multiclass
        clus
vv       SKI MUTATED SKI WILD-TYPE
  CLUS_1           3            44
  CLUS_2           1            56
  CLUS_3           2            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
  SKI MUTATED        2      1      3
  SKI WILD-TYPE     61     38     56
D9V8, multiclass
        clus
vv       SKI MUTATED SKI WILD-TYPE
  CLUS_1           2            61
  CLUS_2           1            38
  CLUS_3           3            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
  SKI MUTATED        2      1      2
  SKI WILD-TYPE     36     38     44
D9V9, multiclass
        clus
vv       SKI MUTATED SKI WILD-TYPE
  CLUS_1           2            36
  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     45     12     15
D9V10, multiclass
        clus
vv       SKI MUTATED SKI WILD-TYPE
  CLUS_1           1            46
  CLUS_2           4            45
  CLUS_3           0            12
  CLUS_4           0            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(10) 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
D10V1, 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
D10V2, 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     46     36     33
D10V3, multiclass
        clus
vv       MUC5B MUTATED MUC5B WILD-TYPE
  CLUS_1             2              46
  CLUS_2             5              36
  CLUS_3             2              33
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MUC5B MUTATED        3      3      0      3
  MUC5B WILD-TYPE     20     31     42     22
D10V4, multiclass
        clus
vv       MUC5B MUTATED MUC5B WILD-TYPE
  CLUS_1             3              20
  CLUS_2             3              31
  CLUS_3             0              42
  CLUS_4             3              22
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MUC5B MUTATED        1      3      3      7
  MUC5B WILD-TYPE     22     42     32     51
D10V5, 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
D10V6, 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     53     52
D10V7, multiclass
        clus
vv       MUC5B MUTATED MUC5B WILD-TYPE
  CLUS_1             5              42
  CLUS_2             4              53
  CLUS_3             5              52
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MUC5B MUTATED        7      4      3
  MUC5B WILD-TYPE     56     35     56
D10V8, multiclass
        clus
vv       MUC5B MUTATED MUC5B WILD-TYPE
  CLUS_1             7              56
  CLUS_2             4              35
  CLUS_3             3              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        5      2      5
  MUC5B WILD-TYPE     33     37     41
D10V9, multiclass
        clus
vv       MUC5B MUTATED MUC5B WILD-TYPE
  CLUS_1             5              33
  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        5      4      1      2
  MUC5B WILD-TYPE     42     45     11     13
D10V10, multiclass
        clus
vv       MUC5B MUTATED MUC5B WILD-TYPE
  CLUS_1             5              42
  CLUS_2             4              45
  CLUS_3             1              11
  CLUS_4             2              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(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      1      3
  KDM6A WILD-TYPE     47     40     32
D11V3, multiclass
        clus
vv       KDM6A MUTATED KDM6A WILD-TYPE
  CLUS_1             1              47
  CLUS_2             1              40
  CLUS_3             3              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
  KDM6A MUTATED        0      1      1      3
  KDM6A WILD-TYPE     23     33     41     22
D11V4, multiclass
        clus
vv       KDM6A MUTATED KDM6A WILD-TYPE
  CLUS_1             0              23
  CLUS_2             1              33
  CLUS_3             1              41
  CLUS_4             3              22
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  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     54     56
D11V7, multiclass
        clus
vv       KDM6A MUTATED KDM6A WILD-TYPE
  CLUS_1             3              44
  CLUS_2             3              54
  CLUS_3             1              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
  KDM6A MUTATED        5      1      1
  KDM6A WILD-TYPE     58     38     58
D11V8, multiclass
        clus
vv       KDM6A MUTATED KDM6A WILD-TYPE
  CLUS_1             5              58
  CLUS_2             1              38
  CLUS_3             1              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        2      0      1
  KDM6A WILD-TYPE     36     39     45
D11V9, multiclass
        clus
vv       KDM6A MUTATED KDM6A WILD-TYPE
  CLUS_1             2              36
  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     49     11     15
D11V10, multiclass
        clus
vv       KDM6A MUTATED KDM6A WILD-TYPE
  CLUS_1             2              45
  CLUS_2             0              49
  CLUS_3             1              11
  CLUS_4             0              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(12) 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
D12V1, 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
D12V2, 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     45     39     33
D12V3, multiclass
        clus
vv       ZNF814 MUTATED ZNF814 WILD-TYPE
  CLUS_1              3               45
  CLUS_2              2               39
  CLUS_3              2               33
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZNF814 MUTATED        0      2      3      2
  ZNF814 WILD-TYPE     23     32     39     23
D12V4, multiclass
        clus
vv       ZNF814 MUTATED ZNF814 WILD-TYPE
  CLUS_1              0               23
  CLUS_2              2               32
  CLUS_3              3               39
  CLUS_4              2               23
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZNF814 MUTATED        0      2      2      4
  ZNF814 WILD-TYPE     23     43     33     54
D12V5, 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
D12V6, 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     56     53
D12V7, multiclass
        clus
vv       ZNF814 MUTATED ZNF814 WILD-TYPE
  CLUS_1              3               44
  CLUS_2              1               56
  CLUS_3              4               53
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ZNF814 MUTATED        5      0      3
  ZNF814 WILD-TYPE     58     39     56
D12V8, multiclass
        clus
vv       ZNF814 MUTATED ZNF814 WILD-TYPE
  CLUS_1              5               58
  CLUS_2              0               39
  CLUS_3              3               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
  ZNF814 MUTATED        0      3      4
  ZNF814 WILD-TYPE     38     36     42
D12V9, multiclass
        clus
vv       ZNF814 MUTATED ZNF814 WILD-TYPE
  CLUS_1              0               38
  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     45     12     14
D12V10, multiclass
        clus
vv       ZNF814 MUTATED ZNF814 WILD-TYPE
  CLUS_1              2               45
  CLUS_2              4               45
  CLUS_3              0               12
  CLUS_4              1               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(13) 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
D13V1, 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
D13V2, 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     47     40     34
D13V3, multiclass
        clus
vv       SMARCB1 MUTATED SMARCB1 WILD-TYPE
  CLUS_1               1                47
  CLUS_2               1                40
  CLUS_3               1                34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SMARCB1 MUTATED        1      1      0      1
  SMARCB1 WILD-TYPE     22     33     42     24
D13V4, multiclass
        clus
vv       SMARCB1 MUTATED SMARCB1 WILD-TYPE
  CLUS_1               1                22
  CLUS_2               1                33
  CLUS_3               0                42
  CLUS_4               1                24
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SMARCB1 MUTATED        0      1      0      3
  SMARCB1 WILD-TYPE     23     44     35     55
D13V5, 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
D13V6, 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     57     53
D13V7, multiclass
        clus
vv       SMARCB1 MUTATED SMARCB1 WILD-TYPE
  CLUS_1               0                47
  CLUS_2               0                57
  CLUS_3               4                53
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SMARCB1 MUTATED        1      0      3
  SMARCB1 WILD-TYPE     62     39     56
D13V8, multiclass
        clus
vv       SMARCB1 MUTATED SMARCB1 WILD-TYPE
  CLUS_1               1                62
  CLUS_2               0                39
  CLUS_3               3                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
  SMARCB1 MUTATED        0      0      3
  SMARCB1 WILD-TYPE     38     39     43
D13V9, multiclass
        clus
vv       SMARCB1 MUTATED SMARCB1 WILD-TYPE
  CLUS_1               0                38
  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     46     12     15
D13V10, multiclass
        clus
vv       SMARCB1 MUTATED SMARCB1 WILD-TYPE
  CLUS_1               0                47
  CLUS_2               3                46
  CLUS_3               0                12
  CLUS_4               0                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 = 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
D14V1, 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
D14V2, 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     45     40     33
D14V3, multiclass
        clus
vv       AHNAK2 MUTATED AHNAK2 WILD-TYPE
  CLUS_1              3               45
  CLUS_2              1               40
  CLUS_3              2               33
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  AHNAK2 MUTATED        1      1      2      2
  AHNAK2 WILD-TYPE     22     33     40     23
D14V4, multiclass
        clus
vv       AHNAK2 MUTATED AHNAK2 WILD-TYPE
  CLUS_1              1               22
  CLUS_2              1               33
  CLUS_3              2               40
  CLUS_4              2               23
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  AHNAK2 MUTATED        2      1      2      2
  AHNAK2 WILD-TYPE     21     44     33     56
D14V5, 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
D14V6, 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     56     55
D14V7, multiclass
        clus
vv       AHNAK2 MUTATED AHNAK2 WILD-TYPE
  CLUS_1              4               43
  CLUS_2              1               56
  CLUS_3              2               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
  AHNAK2 MUTATED        5      0      2
  AHNAK2 WILD-TYPE     58     39     57
D14V8, multiclass
        clus
vv       AHNAK2 MUTATED AHNAK2 WILD-TYPE
  CLUS_1              5               58
  CLUS_2              0               39
  CLUS_3              2               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        4      2      1
  AHNAK2 WILD-TYPE     34     37     45
D14V9, multiclass
        clus
vv       AHNAK2 MUTATED AHNAK2 WILD-TYPE
  CLUS_1              4               34
  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        4      2      0      1
  AHNAK2 WILD-TYPE     43     47     12     14
D14V10, multiclass
        clus
vv       AHNAK2 MUTATED AHNAK2 WILD-TYPE
  CLUS_1              4               43
  CLUS_2              2               47
  CLUS_3              0               12
  CLUS_4              1               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(15) 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
D15V1, 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
D15V2, 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     46     39     35
D15V3, multiclass
        clus
vv       OR2L8 MUTATED OR2L8 WILD-TYPE
  CLUS_1             2              46
  CLUS_2             2              39
  CLUS_3             0              35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  OR2L8 MUTATED        1      2      1      0
  OR2L8 WILD-TYPE     22     32     41     25
D15V4, multiclass
        clus
vv       OR2L8 MUTATED OR2L8 WILD-TYPE
  CLUS_1             1              22
  CLUS_2             2              32
  CLUS_3             1              41
  CLUS_4             0              25
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  OR2L8 MUTATED        2      2      0      0
  OR2L8 WILD-TYPE     21     43     35     58
D15V5, 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
D15V6, 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     56     54
D15V7, multiclass
        clus
vv       OR2L8 MUTATED OR2L8 WILD-TYPE
  CLUS_1             0              47
  CLUS_2             1              56
  CLUS_3             3              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
  OR2L8 MUTATED        0      1      3
  OR2L8 WILD-TYPE     63     38     56
D15V8, multiclass
        clus
vv       OR2L8 MUTATED OR2L8 WILD-TYPE
  CLUS_1             0              63
  CLUS_2             1              38
  CLUS_3             3              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
  OR2L8 MUTATED        0      2      2
  OR2L8 WILD-TYPE     38     37     44
D15V9, multiclass
        clus
vv       OR2L8 MUTATED OR2L8 WILD-TYPE
  CLUS_1             0              38
  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     47     12     14
D15V10, multiclass
        clus
vv       OR2L8 MUTATED OR2L8 WILD-TYPE
  CLUS_1             1              46
  CLUS_2             2              47
  CLUS_3             0              12
  CLUS_4             1              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(16) 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
D16V1, 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
D16V2, 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     45     41     35
D16V3, multiclass
        clus
vv       PAM MUTATED PAM WILD-TYPE
  CLUS_1           3            45
  CLUS_2           0            41
  CLUS_3           0            35
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PAM MUTATED        0      1      2      0
  PAM WILD-TYPE     23     33     40     25
D16V4, multiclass
        clus
vv       PAM MUTATED PAM WILD-TYPE
  CLUS_1           0            23
  CLUS_2           1            33
  CLUS_3           2            40
  CLUS_4           0            25
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PAM MUTATED        0      1      2      0
  PAM WILD-TYPE     23     44     33     58
D16V5, 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
D16V6, 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     55     57
D16V7, multiclass
        clus
vv       PAM MUTATED PAM WILD-TYPE
  CLUS_1           1            46
  CLUS_2           2            55
  CLUS_3           0            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
  PAM MUTATED        0      3      0
  PAM WILD-TYPE     63     36     59
D16V8, multiclass
        clus
vv       PAM MUTATED PAM WILD-TYPE
  CLUS_1           0            63
  CLUS_2           3            36
  CLUS_3           0            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
  PAM MUTATED        0      2      0
  PAM WILD-TYPE     38     37     46
D16V9, multiclass
[1] "Remove cluster labels:" "PAM MUTATED"           
clus
  PAM MUTATED PAM WILD-TYPE 
            2           121 
   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-HE-A5NL    TCGA-IA-A40X    TCGA-IA-A40Y    TCGA-IZ-8195    TCGA-IZ-8196 
"PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" 
   TCGA-IZ-A6M9    TCGA-J7-6720    TCGA-J7-8537    TCGA-KV-A6GD    TCGA-KV-A6GE 
"PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" 
   TCGA-P4-A5E7    TCGA-P4-A5E8    TCGA-P4-A5EA    TCGA-PJ-A5Z8    TCGA-PJ-A5Z9 
"PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" 
   TCGA-Q2-A5QZ 
"PAM WILD-TYPE" 
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PAM MUTATED        2      0      0      0
  PAM WILD-TYPE     45     49     12     15
D16V10, multiclass
[1] "Remove cluster labels:" "PAM MUTATED"           
clus
  PAM MUTATED PAM WILD-TYPE 
            2           121 
   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-HE-A5NL    TCGA-IA-A40X    TCGA-IA-A40Y    TCGA-IZ-8195    TCGA-IZ-8196 
"PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" 
   TCGA-IZ-A6M9    TCGA-J7-6720    TCGA-J7-8537    TCGA-KV-A6GD    TCGA-KV-A6GE 
"PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" 
   TCGA-P4-A5E7    TCGA-P4-A5E8    TCGA-P4-A5EA    TCGA-PJ-A5Z8    TCGA-PJ-A5Z9 
"PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" "PAM WILD-TYPE" 
   TCGA-Q2-A5QZ 
"PAM WILD-TYPE" 

Clustering(17) 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
D17V1, 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
D17V2, 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     47     40     32
D17V3, multiclass
        clus
vv       IDUA MUTATED IDUA WILD-TYPE
  CLUS_1            1             47
  CLUS_2            1             40
  CLUS_3            3             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
  IDUA MUTATED        1      1      1      2
  IDUA WILD-TYPE     22     33     41     23
D17V4, multiclass
        clus
vv       IDUA MUTATED IDUA WILD-TYPE
  CLUS_1            1             22
  CLUS_2            1             33
  CLUS_3            1             41
  CLUS_4            2             23
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  IDUA MUTATED        1      0      2      2
  IDUA WILD-TYPE     22     45     33     56
D17V5, 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
D17V6, 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     56     56
D17V7, multiclass
        clus
vv       IDUA MUTATED IDUA WILD-TYPE
  CLUS_1            3             44
  CLUS_2            1             56
  CLUS_3            1             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
  IDUA MUTATED        3      0      2
  IDUA WILD-TYPE     60     39     57
D17V8, multiclass
        clus
vv       IDUA MUTATED IDUA WILD-TYPE
  CLUS_1            3             60
  CLUS_2            0             39
  CLUS_3            2             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
  IDUA MUTATED        1      2      1
  IDUA WILD-TYPE     37     37     45
D17V9, multiclass
        clus
vv       IDUA MUTATED IDUA WILD-TYPE
  CLUS_1            1             37
  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     47     12     14
D17V10, multiclass
        clus
vv       IDUA MUTATED IDUA WILD-TYPE
  CLUS_1            1             46
  CLUS_2            2             47
  CLUS_3            0             12
  CLUS_4            1             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(18) 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
D18V1, 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
D18V2, 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      1      2
  CSGALNACT2 WILD-TYPE     47     40     33
D18V3, multiclass
        clus
vv       CSGALNACT2 MUTATED CSGALNACT2 WILD-TYPE
  CLUS_1                  1                   47
  CLUS_2                  1                   40
  CLUS_3                  2                   33
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                      vv
clus                   CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CSGALNACT2 MUTATED        1      0      2      1
  CSGALNACT2 WILD-TYPE     22     34     40     24
D18V4, multiclass
        clus
vv       CSGALNACT2 MUTATED CSGALNACT2 WILD-TYPE
  CLUS_1                  1                   22
  CLUS_2                  0                   34
  CLUS_3                  2                   40
  CLUS_4                  1                   24
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                      vv
clus                   CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CSGALNACT2 MUTATED        1      1      0      3
  CSGALNACT2 WILD-TYPE     22     44     35     55
D18V5, 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
D18V6, 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     54     56
D18V7, multiclass
        clus
vv       CSGALNACT2 MUTATED CSGALNACT2 WILD-TYPE
  CLUS_1                  1                   46
  CLUS_2                  3                   54
  CLUS_3                  1                   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
  CSGALNACT2 MUTATED        1      2      2
  CSGALNACT2 WILD-TYPE     62     37     57
D18V8, multiclass
        clus
vv       CSGALNACT2 MUTATED CSGALNACT2 WILD-TYPE
  CLUS_1                  1                   62
  CLUS_2                  2                   37
  CLUS_3                  2                   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
  CSGALNACT2 MUTATED        0      0      2
  CSGALNACT2 WILD-TYPE     38     39     44
D18V9, multiclass
[1] "Remove cluster labels:" "CSGALNACT2 MUTATED"    
clus
  CSGALNACT2 MUTATED CSGALNACT2 WILD-TYPE 
                   2                  121 
          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-HE-A5NL 
"CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" 
          TCGA-IA-A40U           TCGA-IA-A40X           TCGA-IA-A40Y 
"CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" 
          TCGA-IZ-8195           TCGA-IZ-8196           TCGA-IZ-A6M9 
"CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" 
          TCGA-J7-6720           TCGA-J7-8537           TCGA-KV-A6GE 
"CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" 
          TCGA-P4-A5E6           TCGA-P4-A5E7           TCGA-P4-A5E8 
"CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" 
          TCGA-P4-A5EA           TCGA-PJ-A5Z8           TCGA-PJ-A5Z9 
"CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" 
          TCGA-Q2-A5QZ 
"CSGALNACT2 WILD-TYPE" 
                      vv
clus                   CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CSGALNACT2 MUTATED        0      1      1      0
  CSGALNACT2 WILD-TYPE     47     48     11     15
D18V10, multiclass
[1] "Remove cluster labels:" "CSGALNACT2 MUTATED"    
clus
  CSGALNACT2 MUTATED CSGALNACT2 WILD-TYPE 
                   2                  121 
          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-HE-A5NL 
"CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" 
          TCGA-IA-A40U           TCGA-IA-A40X           TCGA-IA-A40Y 
"CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" 
          TCGA-IZ-8195           TCGA-IZ-8196           TCGA-IZ-A6M9 
"CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" 
          TCGA-J7-6720           TCGA-J7-8537           TCGA-KV-A6GE 
"CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" 
          TCGA-P4-A5E6           TCGA-P4-A5E7           TCGA-P4-A5E8 
"CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" 
          TCGA-P4-A5EA           TCGA-PJ-A5Z8           TCGA-PJ-A5Z9 
"CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" "CSGALNACT2 WILD-TYPE" 
          TCGA-Q2-A5QZ 
"CSGALNACT2 WILD-TYPE" 

Clustering(19) Variable = RPL7A MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RPL7A MUTATED        2      0      0      1
  RPL7A WILD-TYPE     59     39     25     35
D19V1, multiclass
        clus
vv       RPL7A MUTATED RPL7A WILD-TYPE
  CLUS_1             2              59
  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
  RPL7A MUTATED        2      1      0
  RPL7A WILD-TYPE     41     44     60
D19V2, multiclass
        clus
vv       RPL7A MUTATED RPL7A WILD-TYPE
  CLUS_1             2              41
  CLUS_2             1              44
  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
  RPL7A MUTATED        2      0      1
  RPL7A WILD-TYPE     46     41     34
D19V3, multiclass
        clus
vv       RPL7A MUTATED RPL7A WILD-TYPE
  CLUS_1             2              46
  CLUS_2             0              41
  CLUS_3             1              34
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RPL7A MUTATED        1      0      2      0
  RPL7A WILD-TYPE     22     34     40     25
D19V4, multiclass
        clus
vv       RPL7A MUTATED RPL7A WILD-TYPE
  CLUS_1             1              22
  CLUS_2             0              34
  CLUS_3             2              40
  CLUS_4             0              25
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RPL7A MUTATED        2      0      1      0
  RPL7A WILD-TYPE     21     45     34     58
D19V5, multiclass
        clus
vv       RPL7A MUTATED RPL7A WILD-TYPE
  CLUS_1             2              21
  CLUS_2             0              45
  CLUS_3             1              34
  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
  RPL7A MUTATED        1      1      1
  RPL7A WILD-TYPE     66     63     29
D19V6, multiclass
        clus
vv       RPL7A MUTATED RPL7A WILD-TYPE
  CLUS_1             1              66
  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
  RPL7A MUTATED        2      0      1
  RPL7A WILD-TYPE     45     57     56
D19V7, multiclass
        clus
vv       RPL7A MUTATED RPL7A WILD-TYPE
  CLUS_1             2              45
  CLUS_2             0              57
  CLUS_3             1              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
  RPL7A MUTATED        2      0      1
  RPL7A WILD-TYPE     61     39     58
D19V8, multiclass
        clus
vv       RPL7A MUTATED RPL7A WILD-TYPE
  CLUS_1             2              61
  CLUS_2             0              39
  CLUS_3             1              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
  RPL7A MUTATED        0      0      1
  RPL7A WILD-TYPE     38     39     45
D19V9, multiclass
[1] "Remove cluster labels:" "RPL7A MUTATED"         
clus
  RPL7A MUTATED RPL7A WILD-TYPE 
              1             122 
     TCGA-A4-7286      TCGA-A4-7287      TCGA-A4-7288      TCGA-A4-7585 
"RPL7A WILD-TYPE" "RPL7A WILD-TYPE" "RPL7A WILD-TYPE" "RPL7A WILD-TYPE" 
     TCGA-A4-7734      TCGA-A4-7828      TCGA-A4-7915      TCGA-A4-7996 
"RPL7A WILD-TYPE" "RPL7A WILD-TYPE" "RPL7A WILD-TYPE" "RPL7A WILD-TYPE" 
     TCGA-A4-7997      TCGA-A4-8098      TCGA-A4-8310      TCGA-A4-8312 
"RPL7A WILD-TYPE" "RPL7A WILD-TYPE" "RPL7A WILD-TYPE" "RPL7A WILD-TYPE" 
     TCGA-A4-8515      TCGA-A4-8517      TCGA-A4-8518      TCGA-A4-8630 
"RPL7A WILD-TYPE" "RPL7A WILD-TYPE" "RPL7A WILD-TYPE" "RPL7A WILD-TYPE" 
     TCGA-A4-A57E      TCGA-A4-A5XZ      TCGA-A4-A5Y0      TCGA-A4-A5Y1 
"RPL7A WILD-TYPE" "RPL7A WILD-TYPE" "RPL7A WILD-TYPE" "RPL7A WILD-TYPE" 
     TCGA-AL-3466      TCGA-AL-3472      TCGA-AL-3473      TCGA-AL-7173 
"RPL7A WILD-TYPE" "RPL7A WILD-TYPE" "RPL7A WILD-TYPE" "RPL7A WILD-TYPE" 
     TCGA-AT-A5NU      TCGA-B1-5398      TCGA-B1-A47N      TCGA-B1-A654 
"RPL7A WILD-TYPE" "RPL7A WILD-TYPE" "RPL7A WILD-TYPE" "RPL7A WILD-TYPE" 
     TCGA-B1-A656      TCGA-B1-A657      TCGA-B3-3925      TCGA-B3-4104 
"RPL7A WILD-TYPE" "RPL7A WILD-TYPE" "RPL7A WILD-TYPE" "RPL7A WILD-TYPE" 
     TCGA-B3-8121      TCGA-B9-4115      TCGA-B9-4117      TCGA-B9-5156 
"RPL7A WILD-TYPE" "RPL7A WILD-TYPE" "RPL7A WILD-TYPE" "RPL7A WILD-TYPE" 
     TCGA-B9-A44B      TCGA-B9-A5W9      TCGA-B9-A69E      TCGA-BQ-5876 
"RPL7A WILD-TYPE" "RPL7A WILD-TYPE" "RPL7A WILD-TYPE" "RPL7A WILD-TYPE" 
     TCGA-BQ-5877      TCGA-BQ-5878      TCGA-BQ-5879      TCGA-BQ-5880 
"RPL7A WILD-TYPE" "RPL7A WILD-TYPE" "RPL7A WILD-TYPE" "RPL7A WILD-TYPE" 
     TCGA-BQ-5881      TCGA-BQ-5882      TCGA-BQ-5883      TCGA-BQ-5884 
"RPL7A WILD-TYPE" "RPL7A WILD-TYPE" "RPL7A WILD-TYPE" "RPL7A WILD-TYPE" 
     TCGA-BQ-5886      TCGA-BQ-5887      TCGA-BQ-5888      TCGA-BQ-5890 
"RPL7A WILD-TYPE" "RPL7A WILD-TYPE" "RPL7A WILD-TYPE" "RPL7A WILD-TYPE" 
     TCGA-BQ-5891      TCGA-BQ-5892      TCGA-BQ-5893      TCGA-BQ-5894 
"RPL7A WILD-TYPE" "RPL7A WILD-TYPE" "RPL7A WILD-TYPE" "RPL7A WILD-TYPE" 
     TCGA-BQ-7044      TCGA-BQ-7045      TCGA-BQ-7046      TCGA-BQ-7048 
"RPL7A WILD-TYPE" "RPL7A WILD-TYPE" "RPL7A WILD-TYPE" "RPL7A WILD-TYPE" 
     TCGA-BQ-7050      TCGA-BQ-7051      TCGA-BQ-7053      TCGA-BQ-7055 
"RPL7A WILD-TYPE" "RPL7A WILD-TYPE" "RPL7A WILD-TYPE" "RPL7A WILD-TYPE" 
     TCGA-BQ-7058      TCGA-BQ-7059      TCGA-BQ-7060      TCGA-BQ-7061 
"RPL7A WILD-TYPE" "RPL7A WILD-TYPE" "RPL7A WILD-TYPE" "RPL7A WILD-TYPE" 
     TCGA-BQ-7062      TCGA-DW-5560      TCGA-DW-5561      TCGA-DW-7834 
"RPL7A WILD-TYPE" "RPL7A WILD-TYPE" "RPL7A WILD-TYPE" "RPL7A WILD-TYPE" 
     TCGA-DW-7837      TCGA-DW-7838      TCGA-DW-7839      TCGA-DW-7840 
"RPL7A WILD-TYPE" "RPL7A WILD-TYPE" "RPL7A WILD-TYPE" "RPL7A WILD-TYPE" 
     TCGA-DW-7842      TCGA-DZ-6131      TCGA-DZ-6132      TCGA-DZ-6133 
"RPL7A WILD-TYPE" "RPL7A WILD-TYPE" "RPL7A WILD-TYPE" "RPL7A WILD-TYPE" 
     TCGA-DZ-6134      TCGA-DZ-6135      TCGA-EV-5901      TCGA-EV-5902 
"RPL7A WILD-TYPE" "RPL7A WILD-TYPE" "RPL7A WILD-TYPE" "RPL7A WILD-TYPE" 
     TCGA-EV-5903      TCGA-F9-A4JJ      TCGA-G7-6789      TCGA-G7-6790 
"RPL7A WILD-TYPE" "RPL7A WILD-TYPE" "RPL7A WILD-TYPE" "RPL7A WILD-TYPE" 
     TCGA-G7-6792      TCGA-G7-6793      TCGA-G7-6795      TCGA-G7-6796 
"RPL7A WILD-TYPE" "RPL7A WILD-TYPE" "RPL7A WILD-TYPE" "RPL7A WILD-TYPE" 
     TCGA-G7-7501      TCGA-G7-7502      TCGA-G7-A4TM      TCGA-GL-6846 
"RPL7A WILD-TYPE" "RPL7A WILD-TYPE" "RPL7A WILD-TYPE" "RPL7A WILD-TYPE" 
     TCGA-GL-7773      TCGA-GL-7966      TCGA-GL-8500      TCGA-GL-A4EM 
"RPL7A WILD-TYPE" "RPL7A WILD-TYPE" "RPL7A WILD-TYPE" "RPL7A WILD-TYPE" 
     TCGA-GL-A59T      TCGA-HE-7128      TCGA-HE-7130      TCGA-HE-A5NJ 
"RPL7A WILD-TYPE" "RPL7A WILD-TYPE" "RPL7A WILD-TYPE" "RPL7A WILD-TYPE" 
     TCGA-HE-A5NL      TCGA-IA-A40U      TCGA-IA-A40X      TCGA-IA-A40Y 
"RPL7A WILD-TYPE" "RPL7A WILD-TYPE" "RPL7A WILD-TYPE" "RPL7A WILD-TYPE" 
     TCGA-IZ-8195      TCGA-IZ-8196      TCGA-IZ-A6M9      TCGA-J7-6720 
"RPL7A WILD-TYPE" "RPL7A WILD-TYPE" "RPL7A WILD-TYPE" "RPL7A WILD-TYPE" 
     TCGA-J7-8537      TCGA-KV-A6GD      TCGA-KV-A6GE      TCGA-P4-A5E6 
"RPL7A WILD-TYPE" "RPL7A WILD-TYPE" "RPL7A WILD-TYPE" "RPL7A WILD-TYPE" 
     TCGA-P4-A5E7      TCGA-P4-A5E8      TCGA-P4-A5EA      TCGA-PJ-A5Z8 
"RPL7A WILD-TYPE" "RPL7A WILD-TYPE" "RPL7A WILD-TYPE" "RPL7A WILD-TYPE" 
     TCGA-PJ-A5Z9      TCGA-Q2-A5QZ 
"RPL7A WILD-TYPE" "RPL7A WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RPL7A MUTATED        0      1      0      0
  RPL7A WILD-TYPE     47     48     12     15
D19V10, multiclass
[1] "Remove cluster labels:" "RPL7A MUTATED"         
clus
  RPL7A MUTATED RPL7A WILD-TYPE 
              1             122 
     TCGA-A4-7286      TCGA-A4-7287      TCGA-A4-7288      TCGA-A4-7585 
"RPL7A WILD-TYPE" "RPL7A WILD-TYPE" "RPL7A WILD-TYPE" "RPL7A WILD-TYPE" 
     TCGA-A4-7734      TCGA-A4-7828      TCGA-A4-7915      TCGA-A4-7996 
"RPL7A WILD-TYPE" "RPL7A WILD-TYPE" "RPL7A WILD-TYPE" "RPL7A WILD-TYPE" 
     TCGA-A4-7997      TCGA-A4-8098      TCGA-A4-8310      TCGA-A4-8312 
"RPL7A WILD-TYPE" "RPL7A WILD-TYPE" "RPL7A WILD-TYPE" "RPL7A WILD-TYPE" 
     TCGA-A4-8515      TCGA-A4-8517      TCGA-A4-8518      TCGA-A4-8630 
"RPL7A WILD-TYPE" "RPL7A WILD-TYPE" "RPL7A WILD-TYPE" "RPL7A WILD-TYPE" 
     TCGA-A4-A57E      TCGA-A4-A5XZ      TCGA-A4-A5Y0      TCGA-A4-A5Y1 
"RPL7A WILD-TYPE" "RPL7A WILD-TYPE" "RPL7A WILD-TYPE" "RPL7A WILD-TYPE" 
     TCGA-AL-3466      TCGA-AL-3472      TCGA-AL-3473      TCGA-AL-7173 
"RPL7A WILD-TYPE" "RPL7A WILD-TYPE" "RPL7A WILD-TYPE" "RPL7A WILD-TYPE" 
     TCGA-AT-A5NU      TCGA-B1-5398      TCGA-B1-A47N      TCGA-B1-A654 
"RPL7A WILD-TYPE" "RPL7A WILD-TYPE" "RPL7A WILD-TYPE" "RPL7A WILD-TYPE" 
     TCGA-B1-A656      TCGA-B1-A657      TCGA-B3-3925      TCGA-B3-4104 
"RPL7A WILD-TYPE" "RPL7A WILD-TYPE" "RPL7A WILD-TYPE" "RPL7A WILD-TYPE" 
     TCGA-B3-8121      TCGA-B9-4115      TCGA-B9-4117      TCGA-B9-5156 
"RPL7A WILD-TYPE" "RPL7A WILD-TYPE" "RPL7A WILD-TYPE" "RPL7A WILD-TYPE" 
     TCGA-B9-A44B      TCGA-B9-A5W9      TCGA-B9-A69E      TCGA-BQ-5876 
"RPL7A WILD-TYPE" "RPL7A WILD-TYPE" "RPL7A WILD-TYPE" "RPL7A WILD-TYPE" 
     TCGA-BQ-5877      TCGA-BQ-5878      TCGA-BQ-5879      TCGA-BQ-5880 
"RPL7A WILD-TYPE" "RPL7A WILD-TYPE" "RPL7A WILD-TYPE" "RPL7A WILD-TYPE" 
     TCGA-BQ-5881      TCGA-BQ-5882      TCGA-BQ-5883      TCGA-BQ-5884 
"RPL7A WILD-TYPE" "RPL7A WILD-TYPE" "RPL7A WILD-TYPE" "RPL7A WILD-TYPE" 
     TCGA-BQ-5886      TCGA-BQ-5887      TCGA-BQ-5888      TCGA-BQ-5890 
"RPL7A WILD-TYPE" "RPL7A WILD-TYPE" "RPL7A WILD-TYPE" "RPL7A WILD-TYPE" 
     TCGA-BQ-5891      TCGA-BQ-5892      TCGA-BQ-5893      TCGA-BQ-5894 
"RPL7A WILD-TYPE" "RPL7A WILD-TYPE" "RPL7A WILD-TYPE" "RPL7A WILD-TYPE" 
     TCGA-BQ-7044      TCGA-BQ-7045      TCGA-BQ-7046      TCGA-BQ-7048 
"RPL7A WILD-TYPE" "RPL7A WILD-TYPE" "RPL7A WILD-TYPE" "RPL7A WILD-TYPE" 
     TCGA-BQ-7050      TCGA-BQ-7051      TCGA-BQ-7053      TCGA-BQ-7055 
"RPL7A WILD-TYPE" "RPL7A WILD-TYPE" "RPL7A WILD-TYPE" "RPL7A WILD-TYPE" 
     TCGA-BQ-7058      TCGA-BQ-7059      TCGA-BQ-7060      TCGA-BQ-7061 
"RPL7A WILD-TYPE" "RPL7A WILD-TYPE" "RPL7A WILD-TYPE" "RPL7A WILD-TYPE" 
     TCGA-BQ-7062      TCGA-DW-5560      TCGA-DW-5561      TCGA-DW-7834 
"RPL7A WILD-TYPE" "RPL7A WILD-TYPE" "RPL7A WILD-TYPE" "RPL7A WILD-TYPE" 
     TCGA-DW-7837      TCGA-DW-7838      TCGA-DW-7839      TCGA-DW-7840 
"RPL7A WILD-TYPE" "RPL7A WILD-TYPE" "RPL7A WILD-TYPE" "RPL7A WILD-TYPE" 
     TCGA-DW-7842      TCGA-DZ-6131      TCGA-DZ-6132      TCGA-DZ-6133 
"RPL7A WILD-TYPE" "RPL7A WILD-TYPE" "RPL7A WILD-TYPE" "RPL7A WILD-TYPE" 
     TCGA-DZ-6134      TCGA-DZ-6135      TCGA-EV-5901      TCGA-EV-5902 
"RPL7A WILD-TYPE" "RPL7A WILD-TYPE" "RPL7A WILD-TYPE" "RPL7A WILD-TYPE" 
     TCGA-EV-5903      TCGA-F9-A4JJ      TCGA-G7-6789      TCGA-G7-6790 
"RPL7A WILD-TYPE" "RPL7A WILD-TYPE" "RPL7A WILD-TYPE" "RPL7A WILD-TYPE" 
     TCGA-G7-6792      TCGA-G7-6793      TCGA-G7-6795      TCGA-G7-6796 
"RPL7A WILD-TYPE" "RPL7A WILD-TYPE" "RPL7A WILD-TYPE" "RPL7A WILD-TYPE" 
     TCGA-G7-7501      TCGA-G7-7502      TCGA-G7-A4TM      TCGA-GL-6846 
"RPL7A WILD-TYPE" "RPL7A WILD-TYPE" "RPL7A WILD-TYPE" "RPL7A WILD-TYPE" 
     TCGA-GL-7773      TCGA-GL-7966      TCGA-GL-8500      TCGA-GL-A4EM 
"RPL7A WILD-TYPE" "RPL7A WILD-TYPE" "RPL7A WILD-TYPE" "RPL7A WILD-TYPE" 
     TCGA-GL-A59T      TCGA-HE-7128      TCGA-HE-7130      TCGA-HE-A5NJ 
"RPL7A WILD-TYPE" "RPL7A WILD-TYPE" "RPL7A WILD-TYPE" "RPL7A WILD-TYPE" 
     TCGA-HE-A5NL      TCGA-IA-A40U      TCGA-IA-A40X      TCGA-IA-A40Y 
"RPL7A WILD-TYPE" "RPL7A WILD-TYPE" "RPL7A WILD-TYPE" "RPL7A WILD-TYPE" 
     TCGA-IZ-8195      TCGA-IZ-8196      TCGA-IZ-A6M9      TCGA-J7-6720 
"RPL7A WILD-TYPE" "RPL7A WILD-TYPE" "RPL7A WILD-TYPE" "RPL7A WILD-TYPE" 
     TCGA-J7-8537      TCGA-KV-A6GD      TCGA-KV-A6GE      TCGA-P4-A5E6 
"RPL7A WILD-TYPE" "RPL7A WILD-TYPE" "RPL7A WILD-TYPE" "RPL7A WILD-TYPE" 
     TCGA-P4-A5E7      TCGA-P4-A5E8      TCGA-P4-A5EA      TCGA-PJ-A5Z8 
"RPL7A WILD-TYPE" "RPL7A WILD-TYPE" "RPL7A WILD-TYPE" "RPL7A WILD-TYPE" 
     TCGA-PJ-A5Z9      TCGA-Q2-A5QZ 
"RPL7A WILD-TYPE" "RPL7A WILD-TYPE" 
