[1] "ofn"      "-oTOV-TP"
[1] "opt"       "-OPMUTSIG"
[1] "tl" ""  
[1] "dx" ""  
[1] "opt"    "MUTSIG"
[1] "dx" ""  
[1] "cfn:"
[1] "/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_mergedClustering/OV-TP/20141012/OV-TP.transferedmergedcluster.txt"
[1] "dfn:"
[1] "/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_Correlate_Genomic_Events_Preprocess/OV-TP/20020407/transformed.cor.cli.txt"

nPatients in clinical file=596, in cluster file=466, common to both=466
[1]  21 466
[1] "TP53 MUTATION ANALYSIS"
[1] 3
  TP53 MUTATED TP53 WILD-TYPE 
           385             81 
  TP53 MUTATED TP53 WILD-TYPE 
           385             81 
[1] "RB1 MUTATION ANALYSIS"
[1] 3
  RB1 MUTATED RB1 WILD-TYPE 
           15           451 
  RB1 MUTATED RB1 WILD-TYPE 
           15           451 
[1] "BRCA1 MUTATION ANALYSIS"
[1] 3
  BRCA1 MUTATED BRCA1 WILD-TYPE 
             18             448 
  BRCA1 MUTATED BRCA1 WILD-TYPE 
             18             448 
[1] "NF1 MUTATION ANALYSIS"
[1] 3
  NF1 MUTATED NF1 WILD-TYPE 
           24           442 
  NF1 MUTATED NF1 WILD-TYPE 
           24           442 
[1] "CDK12 MUTATION ANALYSIS"
[1] 3
  CDK12 MUTATED CDK12 WILD-TYPE 
             15             451 
  CDK12 MUTATED CDK12 WILD-TYPE 
             15             451 
[1] "KRAS MUTATION ANALYSIS"
[1] 3
  KRAS MUTATED KRAS WILD-TYPE 
             5            461 
  KRAS MUTATED KRAS WILD-TYPE 
             5            461 
[1] "HNF1B MUTATION ANALYSIS"
[1] 3
  HNF1B MUTATED HNF1B WILD-TYPE 
              5             461 
  HNF1B MUTATED HNF1B WILD-TYPE 
              5             461 
[1] "PTEN MUTATION ANALYSIS"
[1] 3
  PTEN MUTATED PTEN WILD-TYPE 
             5            461 
  PTEN MUTATED PTEN WILD-TYPE 
             5            461 
[1] "LARP1 MUTATION ANALYSIS"
[1] 3
  LARP1 MUTATED LARP1 WILD-TYPE 
              4             462 
  LARP1 MUTATED LARP1 WILD-TYPE 
              4             462 
[1] "BRCA2 MUTATION ANALYSIS"
[1] 3
  BRCA2 MUTATED BRCA2 WILD-TYPE 
             13             453 
  BRCA2 MUTATED BRCA2 WILD-TYPE 
             13             453 
[1] "EFEMP1 MUTATION ANALYSIS"
[1] 3
  EFEMP1 MUTATED EFEMP1 WILD-TYPE 
               7              459 
  EFEMP1 MUTATED EFEMP1 WILD-TYPE 
               7              459 
[1] "NRAS MUTATION ANALYSIS"
[1] 3
  NRAS MUTATED NRAS WILD-TYPE 
             4            462 
  NRAS MUTATED NRAS WILD-TYPE 
             4            462 
[1] "MTA2 MUTATION ANALYSIS"
[1] 3
  MTA2 MUTATED MTA2 WILD-TYPE 
             4            462 
  MTA2 MUTATED MTA2 WILD-TYPE 
             4            462 
[1] "ERCC6 MUTATION ANALYSIS"
[1] 3
  ERCC6 MUTATED ERCC6 WILD-TYPE 
              4             462 
  ERCC6 MUTATED ERCC6 WILD-TYPE 
              4             462 
[1] "IL21R MUTATION ANALYSIS"
[1] 3
  IL21R MUTATED IL21R WILD-TYPE 
              8             458 
  IL21R MUTATED IL21R WILD-TYPE 
              8             458 
[1] "PKD1L1 MUTATION ANALYSIS"
[1] 3
  PKD1L1 MUTATED PKD1L1 WILD-TYPE 
               6              460 
  PKD1L1 MUTATED PKD1L1 WILD-TYPE 
               6              460 
[1] "SAMD9L MUTATION ANALYSIS"
[1] 3
  SAMD9L MUTATED SAMD9L WILD-TYPE 
               9              457 
  SAMD9L MUTATED SAMD9L WILD-TYPE 
               9              457 
[1] "AQP2 MUTATION ANALYSIS"
[1] 3
  AQP2 MUTATED AQP2 WILD-TYPE 
             3            463 
  AQP2 MUTATED AQP2 WILD-TYPE 
             3            463 
[1] "CREBBP MUTATION ANALYSIS"
[1] 3
  CREBBP MUTATED CREBBP WILD-TYPE 
              11              455 
  CREBBP MUTATED CREBBP WILD-TYPE 
              11              455 
[1] "C9ORF171 MUTATION ANALYSIS"
[1] 3
  C9ORF171 MUTATED C9ORF171 WILD-TYPE 
                 5                461 
  C9ORF171 MUTATED C9ORF171 WILD-TYPE 
                 5                461 
[1] "NCOA3 MUTATION ANALYSIS"
[1] 3
  NCOA3 MUTATED NCOA3 WILD-TYPE 
              5             461 
  NCOA3 MUTATED NCOA3 WILD-TYPE 
              5             461 
[1] "data2feature, selection=ALL"
 [1] "MRNA_CNMF"                   "MRNA_CHIERARCHICAL"         
 [3] "MIR_CNMF"                    "MIR_CHIERARCHICAL"          
 [5] "CN_CNMF"                     "METHLYATION_CNMF"           
 [7] "RPPA_CNMF"                   "RPPA_CHIERARCHICAL"         
 [9] "MRNASEQ_CNMF"                "MRNASEQ_CHIERARCHICAL"      
[11] "MIRSEQ_CNMF"                 "MIRSEQ_CHIERARCHICAL"       
[13] "MIRSEQ_MATURE_CNMF"          "MIRSEQ_MATURE_CHIERARCHICAL"

Input Data has 14 rows and 466 columns.

Variable 1:'MRNA_CNMF':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 2:'MRNA_CHIERARCHICAL':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 3:'MIR_CNMF':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 4:'MIR_CHIERARCHICAL':	nDistinctValues=10,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 5:'CN_CNMF':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 6:'METHLYATION_CNMF':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 7:'RPPA_CNMF':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 8:'RPPA_CHIERARCHICAL':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 9:'MRNASEQ_CNMF':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 10:'MRNASEQ_CHIERARCHICAL':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 11:'MIRSEQ_CNMF':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 12:'MIRSEQ_CHIERARCHICAL':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 13:'MIRSEQ_MATURE_CNMF':	nDistinctValues=2,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 14:'MIRSEQ_MATURE_CHIERARCHICAL':	nDistinctValues=6,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
[1] "## **** detect survival parameters (defined in index such as ind_OS, ind_MFS, ind_RFS, ind_RFS, ind_BCR and ind_d2ssd) *** ##"
[1] "detected survival parameters using [ind_OS, overall_survival]"
[1] "survival parameters accumulated so far"
NULL
[1] "detected survival parameters using [ind_OS, curated_overall_survival]"
[1] "survival parameters accumulated so far"
NULL
[1] "detected survival parameters using [ind_TCGAOS]"
[1] "survival parameters accumulated so far"
NULL
[1] "detected survivial parameters using [ind_MFS]"
[1] "survival parameters accumulated so far"
NULL
[1] "detected survival parameters using [ind_RFS]"
[1] "survival parameters accumulated so far"
NULL
[1] "detected survival parameters using [ind_BCR]"
[1] "survival parameters accumulated so far"
NULL
[1] "detected survival parameters using [ind_Progression]"
[1] "survival parameters accumulated so far"
NULL
[1] "detected survival parameters using [index_additional_survival_time]"
[1] "survival parameters accumulated so far"
NULL
[1] "detected survival parameters using condition: [is.null(surv.mat)&&(selection=='SURV')]"
[1] "survival parameters accumulated so far"
NULL
[1] "************ conversion from categorical data to rank data ********** "
[1] "****** SUMMARY ***** "
Output Data has 466 columns, 0 survival variables, and 14 non-survival variables.
[1] "* survival variables: "
NULL
[1] "* non-survival variables: "
 [1] "MRNA_CNMF"                   "MRNA_CHIERARCHICAL"         
 [3] "MIR_CNMF"                    "MIR_CHIERARCHICAL"          
 [5] "CN_CNMF"                     "METHLYATION_CNMF"           
 [7] "RPPA_CNMF"                   "RPPA_CHIERARCHICAL"         
 [9] "MRNASEQ_CNMF"                "MRNASEQ_CHIERARCHICAL"      
[11] "MIRSEQ_CNMF"                 "MIRSEQ_CHIERARCHICAL"       
[13] "MIRSEQ_MATURE_CNMF"          "MIRSEQ_MATURE_CHIERARCHICAL"
MRNA_CNMF, nv=3, binary=FALSE, numeric=FALSE
MRNA_CHIERARCHICAL, nv=3, binary=FALSE, numeric=FALSE
MIR_CNMF, nv=3, binary=FALSE, numeric=FALSE
MIR_CHIERARCHICAL, nv=10, binary=FALSE, numeric=FALSE
CN_CNMF, nv=3, binary=FALSE, numeric=FALSE
METHLYATION_CNMF, nv=3, binary=FALSE, numeric=FALSE
RPPA_CNMF, nv=3, binary=FALSE, numeric=FALSE
RPPA_CHIERARCHICAL, nv=4, binary=FALSE, numeric=FALSE
MRNASEQ_CNMF, nv=3, binary=FALSE, numeric=FALSE
MRNASEQ_CHIERARCHICAL, nv=3, binary=FALSE, numeric=FALSE
MIRSEQ_CNMF, nv=3, binary=FALSE, numeric=FALSE
MIRSEQ_CHIERARCHICAL, nv=4, binary=FALSE, numeric=FALSE
MIRSEQ_MATURE_CNMF, nv=2, binary=FALSE, numeric=FALSE
MIRSEQ_MATURE_CHIERARCHICAL, nv=6, binary=FALSE, numeric=FALSE

Clustering(1) Variable = TP53 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TP53 MUTATED      145    145     94
  TP53 WILD-TYPE     31     30     20
D1V1, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1          145             31
  CLUS_2          145             30
  CLUS_3           94             20
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TP53 MUTATED      220    106     58
  TP53 WILD-TYPE     39     30     12
D1V2, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1          220             39
  CLUS_2          106             30
  CLUS_3           58             12
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TP53 MUTATED      109    115    160
  TP53 WILD-TYPE     25     24     32
D1V3, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1          109             25
  CLUS_2          115             24
  CLUS_3          160             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_10 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  TP53 MUTATED       58      42     41     61     26     51     23     20
  TP53 WILD-TYPE     15       3      8      9      4     13      4      9
                vv
clus             CLUS_8 CLUS_9
  TP53 MUTATED       31     31
  TP53 WILD-TYPE      8      8
D1V4, multiclass
         clus
vv        TP53 MUTATED TP53 WILD-TYPE
  CLUS_1            58             15
  CLUS_10           42              3
  CLUS_2            41              8
  CLUS_3            61              9
  CLUS_4            26              4
  CLUS_5            51             13
  CLUS_6            23              4
  CLUS_7            20              9
  CLUS_8            31              8
  CLUS_9            31              8
[1] 10  2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TP53 MUTATED      109    139    129
  TP53 WILD-TYPE     28     26     24
D1V5, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1          109             28
  CLUS_2          139             26
  CLUS_3          129             24
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TP53 MUTATED      120    113    152
  TP53 WILD-TYPE     18     30     32
D1V6, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1          120             18
  CLUS_2          113             30
  CLUS_3          152             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
  TP53 MUTATED       99    128     48
  TP53 WILD-TYPE     28     23     13
D1V7, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1           99             28
  CLUS_2          128             23
  CLUS_3           48             13
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TP53 MUTATED       92     37     44    102
  TP53 WILD-TYPE     30      6     10     18
D1V8, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1           92             30
  CLUS_2           37              6
  CLUS_3           44             10
  CLUS_4          102             18
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TP53 MUTATED       52     74     86
  TP53 WILD-TYPE     12     10     14
D1V9, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1           52             12
  CLUS_2           74             10
  CLUS_3           86             14
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TP53 MUTATED      104     39     69
  TP53 WILD-TYPE     18      4     14
D1V10, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1          104             18
  CLUS_2           39              4
  CLUS_3           69             14
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TP53 MUTATED       83    135    106
  TP53 WILD-TYPE     14     24     20
D1V11, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1           83             14
  CLUS_2          135             24
  CLUS_3          106             20
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TP53 MUTATED       75     50    118     81
  TP53 WILD-TYPE     15     10     19     14
D1V12, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1           75             15
  CLUS_2           50             10
  CLUS_3          118             19
  CLUS_4           81             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"
D1V13, binary
                cls
clus             0 1
  TP53 MUTATED   8 5
  TP53 WILD-TYPE 1 0
[1] "tbl2"
                cls
clus             [,1] [,2]
  TP53 MUTATED      8    5
  TP53 WILD-TYPE    1    0
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1            8              1
  CLUS_2            5              0
[1] 2 2
[1] FALSE
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TP53 MUTATED        4      1      1      2      3      2
  TP53 WILD-TYPE      1      0      0      0      0      0
D1V14, multiclass
[1] "Remove cluster labels:" "TP53 WILD-TYPE"        
clus
  TP53 MUTATED TP53 WILD-TYPE 
            13              1 
  TCGA-04-1652   TCGA-09-2050   TCGA-23-2077   TCGA-24-2288   TCGA-24-2289 
"TP53 MUTATED" "TP53 MUTATED" "TP53 MUTATED" "TP53 MUTATED" "TP53 MUTATED" 
  TCGA-24-2290   TCGA-25-2392   TCGA-25-2399   TCGA-25-2400   TCGA-25-2404 
"TP53 MUTATED" "TP53 MUTATED" "TP53 MUTATED" "TP53 MUTATED" "TP53 MUTATED" 
  TCGA-59-2363   TCGA-61-2088   TCGA-61-2111 
"TP53 MUTATED" "TP53 MUTATED" "TP53 MUTATED" 

Clustering(2) Variable = RB1 MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  RB1 MUTATED        9      2      4
  RB1 WILD-TYPE    167    173    110
D2V1, multiclass
        clus
vv       RB1 MUTATED RB1 WILD-TYPE
  CLUS_1           9           167
  CLUS_2           2           173
  CLUS_3           4           110
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  RB1 MUTATED        6      5      4
  RB1 WILD-TYPE    253    131     66
D2V2, multiclass
        clus
vv       RB1 MUTATED RB1 WILD-TYPE
  CLUS_1           6           253
  CLUS_2           5           131
  CLUS_3           4            66
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  RB1 MUTATED        3      4      8
  RB1 WILD-TYPE    131    135    184
D2V3, multiclass
        clus
vv       RB1 MUTATED RB1 WILD-TYPE
  CLUS_1           3           131
  CLUS_2           4           135
  CLUS_3           8           184
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_10 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  RB1 MUTATED        1       3      1      2      1      2      1      1      2
  RB1 WILD-TYPE     72      42     48     68     29     62     26     28     37
               vv
clus            CLUS_9
  RB1 MUTATED        1
  RB1 WILD-TYPE     38
D2V4, multiclass
         clus
vv        RB1 MUTATED RB1 WILD-TYPE
  CLUS_1            1            72
  CLUS_10           3            42
  CLUS_2            1            48
  CLUS_3            2            68
  CLUS_4            1            29
  CLUS_5            2            62
  CLUS_6            1            26
  CLUS_7            1            28
  CLUS_8            2            37
  CLUS_9            1            38
[1] 10  2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  RB1 MUTATED        5      2      8
  RB1 WILD-TYPE    132    163    145
D2V5, multiclass
        clus
vv       RB1 MUTATED RB1 WILD-TYPE
  CLUS_1           5           132
  CLUS_2           2           163
  CLUS_3           8           145
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  RB1 MUTATED        8      6      1
  RB1 WILD-TYPE    130    137    183
D2V6, multiclass
        clus
vv       RB1 MUTATED RB1 WILD-TYPE
  CLUS_1           8           130
  CLUS_2           6           137
  CLUS_3           1           183
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  RB1 MUTATED        4      7      3
  RB1 WILD-TYPE    123    144     58
D2V7, multiclass
        clus
vv       RB1 MUTATED RB1 WILD-TYPE
  CLUS_1           4           123
  CLUS_2           7           144
  CLUS_3           3            58
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RB1 MUTATED        4      3      4      3
  RB1 WILD-TYPE    118     40     50    117
D2V8, multiclass
        clus
vv       RB1 MUTATED RB1 WILD-TYPE
  CLUS_1           4           118
  CLUS_2           3            40
  CLUS_3           4            50
  CLUS_4           3           117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  RB1 MUTATED        0      4      3
  RB1 WILD-TYPE     64     80     97
D2V9, multiclass
        clus
vv       RB1 MUTATED RB1 WILD-TYPE
  CLUS_1           0            64
  CLUS_2           4            80
  CLUS_3           3            97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  RB1 MUTATED        3      2      2
  RB1 WILD-TYPE    119     41     81
D2V10, multiclass
        clus
vv       RB1 MUTATED RB1 WILD-TYPE
  CLUS_1           3           119
  CLUS_2           2            41
  CLUS_3           2            81
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  RB1 MUTATED        3      8      3
  RB1 WILD-TYPE     94    151    123
D2V11, multiclass
        clus
vv       RB1 MUTATED RB1 WILD-TYPE
  CLUS_1           3            94
  CLUS_2           8           151
  CLUS_3           3           123
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RB1 MUTATED        3      0      8      3
  RB1 WILD-TYPE     87     60    129     92
D2V12, multiclass
        clus
vv       RB1 MUTATED RB1 WILD-TYPE
  CLUS_1           3            87
  CLUS_2           0            60
  CLUS_3           8           129
  CLUS_4           3            92
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D2V13, binary
               cls
clus            0 1
  RB1 MUTATED   0 0
  RB1 WILD-TYPE 9 5
[1] "tbl2"
               cls
clus            [,1] [,2]
  RB1 MUTATED      0    0
  RB1 WILD-TYPE    9    5
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  RB1 MUTATED        0      0      0      0      0      0
  RB1 WILD-TYPE      5      1      1      2      3      2
D2V14, multiclass

Clustering(3) Variable = BRCA1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  BRCA1 MUTATED        3     12      3
  BRCA1 WILD-TYPE    173    163    111
D3V1, multiclass
        clus
vv       BRCA1 MUTATED BRCA1 WILD-TYPE
  CLUS_1             3             173
  CLUS_2            12             163
  CLUS_3             3             111
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  BRCA1 MUTATED        8      7      3
  BRCA1 WILD-TYPE    251    129     67
D3V2, multiclass
        clus
vv       BRCA1 MUTATED BRCA1 WILD-TYPE
  CLUS_1             8             251
  CLUS_2             7             129
  CLUS_3             3              67
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  BRCA1 MUTATED        6      6      6
  BRCA1 WILD-TYPE    128    133    186
D3V3, multiclass
        clus
vv       BRCA1 MUTATED BRCA1 WILD-TYPE
  CLUS_1             6             128
  CLUS_2             6             133
  CLUS_3             6             186
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_10 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  BRCA1 MUTATED        4       2      1      3      1      3      0      1
  BRCA1 WILD-TYPE     69      43     48     67     29     61     27     28
                 vv
clus              CLUS_8 CLUS_9
  BRCA1 MUTATED        1      2
  BRCA1 WILD-TYPE     38     37
D3V4, multiclass
         clus
vv        BRCA1 MUTATED BRCA1 WILD-TYPE
  CLUS_1              4              69
  CLUS_10             2              43
  CLUS_2              1              48
  CLUS_3              3              67
  CLUS_4              1              29
  CLUS_5              3              61
  CLUS_6              0              27
  CLUS_7              1              28
  CLUS_8              1              38
  CLUS_9              2              37
[1] 10  2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  BRCA1 MUTATED        5     11      2
  BRCA1 WILD-TYPE    132    154    151
D3V5, multiclass
        clus
vv       BRCA1 MUTATED BRCA1 WILD-TYPE
  CLUS_1             5             132
  CLUS_2            11             154
  CLUS_3             2             151
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  BRCA1 MUTATED        1      7     10
  BRCA1 WILD-TYPE    137    136    174
D3V6, multiclass
        clus
vv       BRCA1 MUTATED BRCA1 WILD-TYPE
  CLUS_1             1             137
  CLUS_2             7             136
  CLUS_3            10             174
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  BRCA1 MUTATED        5      3      4
  BRCA1 WILD-TYPE    122    148     57
D3V7, multiclass
        clus
vv       BRCA1 MUTATED BRCA1 WILD-TYPE
  CLUS_1             5             122
  CLUS_2             3             148
  CLUS_3             4              57
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  BRCA1 MUTATED        6      0      3      3
  BRCA1 WILD-TYPE    116     43     51    117
D3V8, multiclass
        clus
vv       BRCA1 MUTATED BRCA1 WILD-TYPE
  CLUS_1             6             116
  CLUS_2             0              43
  CLUS_3             3              51
  CLUS_4             3             117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  BRCA1 MUTATED        7      2      4
  BRCA1 WILD-TYPE     57     82     96
D3V9, multiclass
        clus
vv       BRCA1 MUTATED BRCA1 WILD-TYPE
  CLUS_1             7              57
  CLUS_2             2              82
  CLUS_3             4              96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  BRCA1 MUTATED        6      2      5
  BRCA1 WILD-TYPE    116     41     78
D3V10, multiclass
        clus
vv       BRCA1 MUTATED BRCA1 WILD-TYPE
  CLUS_1             6             116
  CLUS_2             2              41
  CLUS_3             5              78
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  BRCA1 MUTATED        6      2      6
  BRCA1 WILD-TYPE     91    157    120
D3V11, multiclass
        clus
vv       BRCA1 MUTATED BRCA1 WILD-TYPE
  CLUS_1             6              91
  CLUS_2             2             157
  CLUS_3             6             120
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  BRCA1 MUTATED        5      1      2      6
  BRCA1 WILD-TYPE     85     59    135     89
D3V12, multiclass
        clus
vv       BRCA1 MUTATED BRCA1 WILD-TYPE
  CLUS_1             5              85
  CLUS_2             1              59
  CLUS_3             2             135
  CLUS_4             6              89
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D3V13, binary
                 cls
clus              0 1
  BRCA1 MUTATED   0 0
  BRCA1 WILD-TYPE 9 5
[1] "tbl2"
                 cls
clus              [,1] [,2]
  BRCA1 MUTATED      0    0
  BRCA1 WILD-TYPE    9    5
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  BRCA1 MUTATED        0      0      0      0      0      0
  BRCA1 WILD-TYPE      5      1      1      2      3      2
D3V14, multiclass

Clustering(4) Variable = NF1 MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  NF1 MUTATED        7     11      6
  NF1 WILD-TYPE    169    164    108
D4V1, multiclass
        clus
vv       NF1 MUTATED NF1 WILD-TYPE
  CLUS_1           7           169
  CLUS_2          11           164
  CLUS_3           6           108
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  NF1 MUTATED       13      9      2
  NF1 WILD-TYPE    246    127     68
D4V2, multiclass
        clus
vv       NF1 MUTATED NF1 WILD-TYPE
  CLUS_1          13           246
  CLUS_2           9           127
  CLUS_3           2            68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  NF1 MUTATED        8      8      8
  NF1 WILD-TYPE    126    131    184
D4V3, multiclass
        clus
vv       NF1 MUTATED NF1 WILD-TYPE
  CLUS_1           8           126
  CLUS_2           8           131
  CLUS_3           8           184
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_10 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7 CLUS_8
  NF1 MUTATED        4       2      1      3      2      5      0      2      1
  NF1 WILD-TYPE     69      43     48     67     28     59     27     27     38
               vv
clus            CLUS_9
  NF1 MUTATED        4
  NF1 WILD-TYPE     35
D4V4, multiclass
         clus
vv        NF1 MUTATED NF1 WILD-TYPE
  CLUS_1            4            69
  CLUS_10           2            43
  CLUS_2            1            48
  CLUS_3            3            67
  CLUS_4            2            28
  CLUS_5            5            59
  CLUS_6            0            27
  CLUS_7            2            27
  CLUS_8            1            38
  CLUS_9            4            35
[1] 10  2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  NF1 MUTATED        9     10      5
  NF1 WILD-TYPE    128    155    148
D4V5, multiclass
        clus
vv       NF1 MUTATED NF1 WILD-TYPE
  CLUS_1           9           128
  CLUS_2          10           155
  CLUS_3           5           148
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  NF1 MUTATED        2      8     14
  NF1 WILD-TYPE    136    135    170
D4V6, multiclass
        clus
vv       NF1 MUTATED NF1 WILD-TYPE
  CLUS_1           2           136
  CLUS_2           8           135
  CLUS_3          14           170
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  NF1 MUTATED        9      3      4
  NF1 WILD-TYPE    118    148     57
D4V7, multiclass
        clus
vv       NF1 MUTATED NF1 WILD-TYPE
  CLUS_1           9           118
  CLUS_2           3           148
  CLUS_3           4            57
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NF1 MUTATED       10      4      0      2
  NF1 WILD-TYPE    112     39     54    118
D4V8, multiclass
        clus
vv       NF1 MUTATED NF1 WILD-TYPE
  CLUS_1          10           112
  CLUS_2           4            39
  CLUS_3           0            54
  CLUS_4           2           118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  NF1 MUTATED        3      1      6
  NF1 WILD-TYPE     61     83     94
D4V9, multiclass
        clus
vv       NF1 MUTATED NF1 WILD-TYPE
  CLUS_1           3            61
  CLUS_2           1            83
  CLUS_3           6            94
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  NF1 MUTATED        3      1      6
  NF1 WILD-TYPE    119     42     77
D4V10, multiclass
        clus
vv       NF1 MUTATED NF1 WILD-TYPE
  CLUS_1           3           119
  CLUS_2           1            42
  CLUS_3           6            77
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  NF1 MUTATED        3     10      7
  NF1 WILD-TYPE     94    149    119
D4V11, multiclass
        clus
vv       NF1 MUTATED NF1 WILD-TYPE
  CLUS_1           3            94
  CLUS_2          10           149
  CLUS_3           7           119
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NF1 MUTATED        7      1      5      7
  NF1 WILD-TYPE     83     59    132     88
D4V12, multiclass
        clus
vv       NF1 MUTATED NF1 WILD-TYPE
  CLUS_1           7            83
  CLUS_2           1            59
  CLUS_3           5           132
  CLUS_4           7            88
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D4V13, binary
               cls
clus            0 1
  NF1 MUTATED   0 1
  NF1 WILD-TYPE 9 4
[1] "tbl2"
               cls
clus            [,1] [,2]
  NF1 MUTATED      0    1
  NF1 WILD-TYPE    9    4
        clus
vv       NF1 MUTATED NF1 WILD-TYPE
  CLUS_1           0             9
  CLUS_2           1             4
[1] 2 2
[1] FALSE
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  NF1 MUTATED        0      0      0      1      0      0
  NF1 WILD-TYPE      5      1      1      1      3      2
D4V14, multiclass
[1] "Remove cluster labels:" "NF1 MUTATED"           
clus
  NF1 MUTATED NF1 WILD-TYPE 
            1            13 
   TCGA-04-1652    TCGA-09-2050    TCGA-23-2077    TCGA-24-2288    TCGA-24-2289 
"NF1 WILD-TYPE" "NF1 WILD-TYPE" "NF1 WILD-TYPE" "NF1 WILD-TYPE" "NF1 WILD-TYPE" 
   TCGA-24-2290    TCGA-25-2392    TCGA-25-2399    TCGA-25-2400    TCGA-25-2404 
"NF1 WILD-TYPE" "NF1 WILD-TYPE" "NF1 WILD-TYPE" "NF1 WILD-TYPE" "NF1 WILD-TYPE" 
   TCGA-61-2088    TCGA-61-2109    TCGA-61-2111 
"NF1 WILD-TYPE" "NF1 WILD-TYPE" "NF1 WILD-TYPE" 

Clustering(5) Variable = CDK12 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CDK12 MUTATED        5     10      0
  CDK12 WILD-TYPE    171    165    114
D5V1, multiclass
        clus
vv       CDK12 MUTATED CDK12 WILD-TYPE
  CLUS_1             5             171
  CLUS_2            10             165
  CLUS_3             0             114
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CDK12 MUTATED       12      3      0
  CDK12 WILD-TYPE    247    133     70
D5V2, multiclass
        clus
vv       CDK12 MUTATED CDK12 WILD-TYPE
  CLUS_1            12             247
  CLUS_2             3             133
  CLUS_3             0              70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CDK12 MUTATED        7      2      6
  CDK12 WILD-TYPE    127    137    186
D5V3, multiclass
        clus
vv       CDK12 MUTATED CDK12 WILD-TYPE
  CLUS_1             7             127
  CLUS_2             2             137
  CLUS_3             6             186
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_10 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  CDK12 MUTATED        5       0      2      3      0      2      1      1
  CDK12 WILD-TYPE     68      45     47     67     30     62     26     28
                 vv
clus              CLUS_8 CLUS_9
  CDK12 MUTATED        0      1
  CDK12 WILD-TYPE     39     38
D5V4, multiclass
         clus
vv        CDK12 MUTATED CDK12 WILD-TYPE
  CLUS_1              5              68
  CLUS_10             0              45
  CLUS_2              2              47
  CLUS_3              3              67
  CLUS_4              0              30
  CLUS_5              2              62
  CLUS_6              1              26
  CLUS_7              1              28
  CLUS_8              0              39
  CLUS_9              1              38
[1] 10  2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CDK12 MUTATED        2      5      7
  CDK12 WILD-TYPE    135    160    146
D5V5, multiclass
        clus
vv       CDK12 MUTATED CDK12 WILD-TYPE
  CLUS_1             2             135
  CLUS_2             5             160
  CLUS_3             7             146
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CDK12 MUTATED        4      1     10
  CDK12 WILD-TYPE    134    142    174
D5V6, multiclass
        clus
vv       CDK12 MUTATED CDK12 WILD-TYPE
  CLUS_1             4             134
  CLUS_2             1             142
  CLUS_3            10             174
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CDK12 MUTATED        3      6      2
  CDK12 WILD-TYPE    124    145     59
D5V7, multiclass
        clus
vv       CDK12 MUTATED CDK12 WILD-TYPE
  CLUS_1             3             124
  CLUS_2             6             145
  CLUS_3             2              59
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CDK12 MUTATED        2      3      2      4
  CDK12 WILD-TYPE    120     40     52    116
D5V8, multiclass
        clus
vv       CDK12 MUTATED CDK12 WILD-TYPE
  CLUS_1             2             120
  CLUS_2             3              40
  CLUS_3             2              52
  CLUS_4             4             116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CDK12 MUTATED        4      2      3
  CDK12 WILD-TYPE     60     82     97
D5V9, multiclass
        clus
vv       CDK12 MUTATED CDK12 WILD-TYPE
  CLUS_1             4              60
  CLUS_2             2              82
  CLUS_3             3              97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CDK12 MUTATED        4      2      3
  CDK12 WILD-TYPE    118     41     80
D5V10, multiclass
        clus
vv       CDK12 MUTATED CDK12 WILD-TYPE
  CLUS_1             4             118
  CLUS_2             2              41
  CLUS_3             3              80
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CDK12 MUTATED        2      7      5
  CDK12 WILD-TYPE     95    152    121
D5V11, multiclass
        clus
vv       CDK12 MUTATED CDK12 WILD-TYPE
  CLUS_1             2              95
  CLUS_2             7             152
  CLUS_3             5             121
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CDK12 MUTATED        4      3      4      3
  CDK12 WILD-TYPE     86     57    133     92
D5V12, multiclass
        clus
vv       CDK12 MUTATED CDK12 WILD-TYPE
  CLUS_1             4              86
  CLUS_2             3              57
  CLUS_3             4             133
  CLUS_4             3              92
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D5V13, binary
                 cls
clus              0 1
  CDK12 MUTATED   1 0
  CDK12 WILD-TYPE 8 5
[1] "tbl2"
                 cls
clus              [,1] [,2]
  CDK12 MUTATED      1    0
  CDK12 WILD-TYPE    8    5
        clus
vv       CDK12 MUTATED CDK12 WILD-TYPE
  CLUS_1             1               8
  CLUS_2             0               5
[1] 2 2
[1] FALSE
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CDK12 MUTATED        0      0      0      0      0      1
  CDK12 WILD-TYPE      5      1      1      2      3      1
D5V14, multiclass
[1] "Remove cluster labels:" "CDK12 MUTATED"         
clus
  CDK12 MUTATED CDK12 WILD-TYPE 
              1              13 
     TCGA-04-1652      TCGA-09-2050      TCGA-23-2077      TCGA-24-2288 
"CDK12 WILD-TYPE" "CDK12 WILD-TYPE" "CDK12 WILD-TYPE" "CDK12 WILD-TYPE" 
     TCGA-24-2289      TCGA-24-2290      TCGA-25-2399      TCGA-25-2400 
"CDK12 WILD-TYPE" "CDK12 WILD-TYPE" "CDK12 WILD-TYPE" "CDK12 WILD-TYPE" 
     TCGA-25-2404      TCGA-59-2363      TCGA-61-2088      TCGA-61-2109 
"CDK12 WILD-TYPE" "CDK12 WILD-TYPE" "CDK12 WILD-TYPE" "CDK12 WILD-TYPE" 
     TCGA-61-2111 
"CDK12 WILD-TYPE" 

Clustering(6) Variable = KRAS MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  KRAS MUTATED        4      1      0
  KRAS WILD-TYPE    172    174    114
D6V1, multiclass
        clus
vv       KRAS MUTATED KRAS WILD-TYPE
  CLUS_1            4            172
  CLUS_2            1            174
  CLUS_3            0            114
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  KRAS MUTATED        4      0      1
  KRAS WILD-TYPE    255    136     69
D6V2, multiclass
        clus
vv       KRAS MUTATED KRAS WILD-TYPE
  CLUS_1            4            255
  CLUS_2            0            136
  CLUS_3            1             69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  KRAS MUTATED        3      2      0
  KRAS WILD-TYPE    131    137    192
D6V3, multiclass
        clus
vv       KRAS MUTATED KRAS WILD-TYPE
  CLUS_1            3            131
  CLUS_2            2            137
  CLUS_3            0            192
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_10 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  KRAS MUTATED        2       1      0      0      0      0      1      0
  KRAS WILD-TYPE     71      44     49     70     30     64     26     29
                vv
clus             CLUS_8 CLUS_9
  KRAS MUTATED        1      0
  KRAS WILD-TYPE     38     39
D6V4, multiclass
         clus
vv        KRAS MUTATED KRAS WILD-TYPE
  CLUS_1             2             71
  CLUS_10            1             44
  CLUS_2             0             49
  CLUS_3             0             70
  CLUS_4             0             30
  CLUS_5             0             64
  CLUS_6             1             26
  CLUS_7             0             29
  CLUS_8             1             38
  CLUS_9             0             39
[1] 10  2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  KRAS MUTATED        4      1      0
  KRAS WILD-TYPE    133    164    153
D6V5, multiclass
        clus
vv       KRAS MUTATED KRAS WILD-TYPE
  CLUS_1            4            133
  CLUS_2            1            164
  CLUS_3            0            153
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  KRAS MUTATED        1      1      3
  KRAS WILD-TYPE    137    142    181
D6V6, multiclass
        clus
vv       KRAS MUTATED KRAS WILD-TYPE
  CLUS_1            1            137
  CLUS_2            1            142
  CLUS_3            3            181
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  KRAS MUTATED        2      0      2
  KRAS WILD-TYPE    125    151     59
D6V7, multiclass
        clus
vv       KRAS MUTATED KRAS WILD-TYPE
  CLUS_1            2            125
  CLUS_2            0            151
  CLUS_3            2             59
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KRAS MUTATED        2      0      0      2
  KRAS WILD-TYPE    120     43     54    118
D6V8, multiclass
        clus
vv       KRAS MUTATED KRAS WILD-TYPE
  CLUS_1            2            120
  CLUS_2            0             43
  CLUS_3            0             54
  CLUS_4            2            118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  KRAS MUTATED        2      1      0
  KRAS WILD-TYPE     62     83    100
D6V9, multiclass
        clus
vv       KRAS MUTATED KRAS WILD-TYPE
  CLUS_1            2             62
  CLUS_2            1             83
  CLUS_3            0            100
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  KRAS MUTATED        2      1      0
  KRAS WILD-TYPE    120     42     83
D6V10, multiclass
        clus
vv       KRAS MUTATED KRAS WILD-TYPE
  CLUS_1            2            120
  CLUS_2            1             42
  CLUS_3            0             83
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  KRAS MUTATED        1      0      2
  KRAS WILD-TYPE     96    159    124
D6V11, multiclass
        clus
vv       KRAS MUTATED KRAS WILD-TYPE
  CLUS_1            1             96
  CLUS_2            0            159
  CLUS_3            2            124
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KRAS MUTATED        0      0      1      2
  KRAS WILD-TYPE     90     60    136     93
D6V12, multiclass
        clus
vv       KRAS MUTATED KRAS WILD-TYPE
  CLUS_1            0             90
  CLUS_2            0             60
  CLUS_3            1            136
  CLUS_4            2             93
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D6V13, binary
                cls
clus             0 1
  KRAS MUTATED   0 0
  KRAS WILD-TYPE 9 5
[1] "tbl2"
                cls
clus             [,1] [,2]
  KRAS MUTATED      0    0
  KRAS WILD-TYPE    9    5
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  KRAS MUTATED        0      0      0      0      0      0
  KRAS WILD-TYPE      5      1      1      2      3      2
D6V14, multiclass

Clustering(7) Variable = HNF1B MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HNF1B MUTATED        1      2      2
  HNF1B WILD-TYPE    175    173    112
D7V1, multiclass
        clus
vv       HNF1B MUTATED HNF1B WILD-TYPE
  CLUS_1             1             175
  CLUS_2             2             173
  CLUS_3             2             112
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HNF1B MUTATED        2      2      1
  HNF1B WILD-TYPE    257    134     69
D7V2, multiclass
        clus
vv       HNF1B MUTATED HNF1B WILD-TYPE
  CLUS_1             2             257
  CLUS_2             2             134
  CLUS_3             1              69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HNF1B MUTATED        2      1      2
  HNF1B WILD-TYPE    132    138    190
D7V3, multiclass
        clus
vv       HNF1B MUTATED HNF1B WILD-TYPE
  CLUS_1             2             132
  CLUS_2             1             138
  CLUS_3             2             190
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_10 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  HNF1B MUTATED        1       1      0      1      1      0      1      0
  HNF1B WILD-TYPE     72      44     49     69     29     64     26     29
                 vv
clus              CLUS_8 CLUS_9
  HNF1B MUTATED        0      0
  HNF1B WILD-TYPE     39     39
D7V4, multiclass
         clus
vv        HNF1B MUTATED HNF1B WILD-TYPE
  CLUS_1              1              72
  CLUS_10             1              44
  CLUS_2              0              49
  CLUS_3              1              69
  CLUS_4              1              29
  CLUS_5              0              64
  CLUS_6              1              26
  CLUS_7              0              29
  CLUS_8              0              39
  CLUS_9              0              39
[1] 10  2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HNF1B MUTATED        0      4      1
  HNF1B WILD-TYPE    137    161    152
D7V5, multiclass
        clus
vv       HNF1B MUTATED HNF1B WILD-TYPE
  CLUS_1             0             137
  CLUS_2             4             161
  CLUS_3             1             152
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HNF1B MUTATED        2      2      1
  HNF1B WILD-TYPE    136    141    183
D7V6, multiclass
        clus
vv       HNF1B MUTATED HNF1B WILD-TYPE
  CLUS_1             2             136
  CLUS_2             2             141
  CLUS_3             1             183
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HNF1B MUTATED        1      0      3
  HNF1B WILD-TYPE    126    151     58
D7V7, multiclass
        clus
vv       HNF1B MUTATED HNF1B WILD-TYPE
  CLUS_1             1             126
  CLUS_2             0             151
  CLUS_3             3              58
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  HNF1B MUTATED        3      0      0      1
  HNF1B WILD-TYPE    119     43     54    119
D7V8, multiclass
        clus
vv       HNF1B MUTATED HNF1B WILD-TYPE
  CLUS_1             3             119
  CLUS_2             0              43
  CLUS_3             0              54
  CLUS_4             1             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HNF1B MUTATED        1      2      0
  HNF1B WILD-TYPE     63     82    100
D7V9, multiclass
        clus
vv       HNF1B MUTATED HNF1B WILD-TYPE
  CLUS_1             1              63
  CLUS_2             2              82
  CLUS_3             0             100
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HNF1B MUTATED        2      1      0
  HNF1B WILD-TYPE    120     42     83
D7V10, multiclass
        clus
vv       HNF1B MUTATED HNF1B WILD-TYPE
  CLUS_1             2             120
  CLUS_2             1              42
  CLUS_3             0              83
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  HNF1B MUTATED        0      2      2
  HNF1B WILD-TYPE     97    157    124
D7V11, multiclass
        clus
vv       HNF1B MUTATED HNF1B WILD-TYPE
  CLUS_1             0              97
  CLUS_2             2             157
  CLUS_3             2             124
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  HNF1B MUTATED        0      0      2      2
  HNF1B WILD-TYPE     90     60    135     93
D7V12, multiclass
        clus
vv       HNF1B MUTATED HNF1B WILD-TYPE
  CLUS_1             0              90
  CLUS_2             0              60
  CLUS_3             2             135
  CLUS_4             2              93
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D7V13, binary
                 cls
clus              0 1
  HNF1B MUTATED   0 0
  HNF1B WILD-TYPE 9 5
[1] "tbl2"
                 cls
clus              [,1] [,2]
  HNF1B MUTATED      0    0
  HNF1B WILD-TYPE    9    5
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  HNF1B MUTATED        0      0      0      0      0      0
  HNF1B WILD-TYPE      5      1      1      2      3      2
D7V14, multiclass

Clustering(8) Variable = PTEN MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PTEN MUTATED        2      1      2
  PTEN WILD-TYPE    174    174    112
D8V1, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1            2            174
  CLUS_2            1            174
  CLUS_3            2            112
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PTEN MUTATED        2      2      1
  PTEN WILD-TYPE    257    134     69
D8V2, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1            2            257
  CLUS_2            2            134
  CLUS_3            1             69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PTEN MUTATED        1      0      4
  PTEN WILD-TYPE    133    139    188
D8V3, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1            1            133
  CLUS_2            0            139
  CLUS_3            4            188
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_10 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  PTEN MUTATED        0       0      0      3      0      0      1      0
  PTEN WILD-TYPE     73      45     49     67     30     64     26     29
                vv
clus             CLUS_8 CLUS_9
  PTEN MUTATED        1      0
  PTEN WILD-TYPE     38     39
D8V4, multiclass
         clus
vv        PTEN MUTATED PTEN WILD-TYPE
  CLUS_1             0             73
  CLUS_10            0             45
  CLUS_2             0             49
  CLUS_3             3             67
  CLUS_4             0             30
  CLUS_5             0             64
  CLUS_6             1             26
  CLUS_7             0             29
  CLUS_8             1             38
  CLUS_9             0             39
[1] 10  2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PTEN MUTATED        2      3      0
  PTEN WILD-TYPE    135    162    153
D8V5, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1            2            135
  CLUS_2            3            162
  CLUS_3            0            153
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PTEN MUTATED        1      1      3
  PTEN WILD-TYPE    137    142    181
D8V6, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1            1            137
  CLUS_2            1            142
  CLUS_3            3            181
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PTEN MUTATED        1      2      0
  PTEN WILD-TYPE    126    149     61
D8V7, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1            1            126
  CLUS_2            2            149
  CLUS_3            0             61
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PTEN MUTATED        2      0      1      0
  PTEN WILD-TYPE    120     43     53    120
D8V8, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1            2            120
  CLUS_2            0             43
  CLUS_3            1             53
  CLUS_4            0            120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PTEN MUTATED        0      1      2
  PTEN WILD-TYPE     64     83     98
D8V9, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1            0             64
  CLUS_2            1             83
  CLUS_3            2             98
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PTEN MUTATED        1      1      1
  PTEN WILD-TYPE    121     42     82
D8V10, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1            1            121
  CLUS_2            1             42
  CLUS_3            1             82
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PTEN MUTATED        0      2      2
  PTEN WILD-TYPE     97    157    124
D8V11, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1            0             97
  CLUS_2            2            157
  CLUS_3            2            124
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PTEN MUTATED        1      0      1      2
  PTEN WILD-TYPE     89     60    136     93
D8V12, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1            1             89
  CLUS_2            0             60
  CLUS_3            1            136
  CLUS_4            2             93
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D8V13, binary
                cls
clus             0 1
  PTEN MUTATED   0 0
  PTEN WILD-TYPE 9 5
[1] "tbl2"
                cls
clus             [,1] [,2]
  PTEN MUTATED      0    0
  PTEN WILD-TYPE    9    5
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PTEN MUTATED        0      0      0      0      0      0
  PTEN WILD-TYPE      5      1      1      2      3      2
D8V14, multiclass

Clustering(9) Variable = LARP1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  LARP1 MUTATED        2      0      2
  LARP1 WILD-TYPE    174    175    112
D9V1, multiclass
        clus
vv       LARP1 MUTATED LARP1 WILD-TYPE
  CLUS_1             2             174
  CLUS_2             0             175
  CLUS_3             2             112
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  LARP1 MUTATED        0      2      2
  LARP1 WILD-TYPE    259    134     68
D9V2, multiclass
        clus
vv       LARP1 MUTATED LARP1 WILD-TYPE
  CLUS_1             0             259
  CLUS_2             2             134
  CLUS_3             2              68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  LARP1 MUTATED        1      0      3
  LARP1 WILD-TYPE    133    139    189
D9V3, multiclass
        clus
vv       LARP1 MUTATED LARP1 WILD-TYPE
  CLUS_1             1             133
  CLUS_2             0             139
  CLUS_3             3             189
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_10 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  LARP1 MUTATED        0       0      0      0      1      1      1      0
  LARP1 WILD-TYPE     73      45     49     70     29     63     26     29
                 vv
clus              CLUS_8 CLUS_9
  LARP1 MUTATED        1      0
  LARP1 WILD-TYPE     38     39
D9V4, multiclass
         clus
vv        LARP1 MUTATED LARP1 WILD-TYPE
  CLUS_1              0              73
  CLUS_10             0              45
  CLUS_2              0              49
  CLUS_3              0              70
  CLUS_4              1              29
  CLUS_5              1              63
  CLUS_6              1              26
  CLUS_7              0              29
  CLUS_8              1              38
  CLUS_9              0              39
[1] 10  2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  LARP1 MUTATED        1      2      1
  LARP1 WILD-TYPE    136    163    152
D9V5, multiclass
        clus
vv       LARP1 MUTATED LARP1 WILD-TYPE
  CLUS_1             1             136
  CLUS_2             2             163
  CLUS_3             1             152
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  LARP1 MUTATED        1      2      1
  LARP1 WILD-TYPE    137    141    183
D9V6, multiclass
        clus
vv       LARP1 MUTATED LARP1 WILD-TYPE
  CLUS_1             1             137
  CLUS_2             2             141
  CLUS_3             1             183
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  LARP1 MUTATED        2      0      1
  LARP1 WILD-TYPE    125    151     60
D9V7, multiclass
        clus
vv       LARP1 MUTATED LARP1 WILD-TYPE
  CLUS_1             2             125
  CLUS_2             0             151
  CLUS_3             1              60
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  LARP1 MUTATED        1      1      1      0
  LARP1 WILD-TYPE    121     42     53    120
D9V8, multiclass
        clus
vv       LARP1 MUTATED LARP1 WILD-TYPE
  CLUS_1             1             121
  CLUS_2             1              42
  CLUS_3             1              53
  CLUS_4             0             120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  LARP1 MUTATED        0      1      1
  LARP1 WILD-TYPE     64     83     99
D9V9, multiclass
[1] "Remove cluster labels:" "LARP1 MUTATED"         
clus
  LARP1 MUTATED LARP1 WILD-TYPE 
              2             246 
     TCGA-04-1348      TCGA-04-1357      TCGA-04-1362      TCGA-04-1364 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-04-1365      TCGA-04-1514      TCGA-04-1519      TCGA-09-0364 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-09-0366      TCGA-09-0369      TCGA-09-1659      TCGA-09-1662 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-09-1666      TCGA-09-1669      TCGA-09-1670      TCGA-09-1673 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-09-1674      TCGA-09-2044      TCGA-09-2045      TCGA-09-2051 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-09-2056      TCGA-10-0928      TCGA-13-0730      TCGA-13-0800 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-13-0801      TCGA-13-0890      TCGA-13-0893      TCGA-13-0897 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-13-0899      TCGA-13-0913      TCGA-13-0916      TCGA-13-0920 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-13-0924      TCGA-13-1403      TCGA-13-1405      TCGA-13-1410 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-13-1411      TCGA-13-1481      TCGA-13-1497      TCGA-13-1498 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-13-1505      TCGA-13-1506      TCGA-13-1507      TCGA-13-1512 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-13-2060      TCGA-20-1682      TCGA-20-1683      TCGA-20-1684 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-20-1685      TCGA-20-1687      TCGA-23-1023      TCGA-23-1026 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-23-1027      TCGA-23-1029      TCGA-23-1109      TCGA-23-1111 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-23-1114      TCGA-23-1120      TCGA-23-1122      TCGA-23-1123 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-23-1809      TCGA-23-2077      TCGA-23-2078      TCGA-23-2081 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-24-0975      TCGA-24-1103      TCGA-24-1413      TCGA-24-1416 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-24-1417      TCGA-24-1418      TCGA-24-1419      TCGA-24-1423 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-24-1424      TCGA-24-1425      TCGA-24-1427      TCGA-24-1428 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-24-1434      TCGA-24-1435      TCGA-24-1436      TCGA-24-1463 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-24-1469      TCGA-24-1474      TCGA-24-1544      TCGA-24-1545 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-24-1546      TCGA-24-1548      TCGA-24-1549      TCGA-24-1551 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-24-1552      TCGA-24-1553      TCGA-24-1555      TCGA-24-1556 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-24-1557      TCGA-24-1558      TCGA-24-1560      TCGA-24-1562 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-24-1563      TCGA-24-1564      TCGA-24-1567      TCGA-24-1603 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-24-1604      TCGA-24-1616      TCGA-24-1842      TCGA-24-1843 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-24-1844      TCGA-24-1846      TCGA-24-1847      TCGA-24-1849 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-24-1850      TCGA-24-2019      TCGA-24-2024      TCGA-24-2035 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-24-2038      TCGA-24-2254      TCGA-24-2261      TCGA-24-2262 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-24-2267      TCGA-24-2271      TCGA-24-2281      TCGA-24-2288 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-24-2289      TCGA-24-2290      TCGA-24-2293      TCGA-24-2298 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-25-1313      TCGA-25-1315      TCGA-25-1316      TCGA-25-1317 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-25-1318      TCGA-25-1319      TCGA-25-1320      TCGA-25-1321 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-25-1322      TCGA-25-1324      TCGA-25-1326      TCGA-25-1328 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-25-1329      TCGA-25-1623      TCGA-25-1625      TCGA-25-1626 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-25-1627      TCGA-25-1628      TCGA-25-1630      TCGA-25-1631 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-25-1632      TCGA-25-1633      TCGA-25-1634      TCGA-25-1635 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-25-2042      TCGA-25-2391      TCGA-25-2392      TCGA-25-2393 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-25-2396      TCGA-25-2398      TCGA-25-2399      TCGA-25-2400 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-25-2401      TCGA-25-2404      TCGA-25-2409      TCGA-29-1688 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-29-1690      TCGA-29-1691      TCGA-29-1693      TCGA-29-1694 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-29-1695      TCGA-29-1696      TCGA-29-1697      TCGA-29-1698 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-29-1699      TCGA-29-1701      TCGA-29-1702      TCGA-29-1703 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-29-1705      TCGA-29-1710      TCGA-29-1711      TCGA-29-1761 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-29-1762      TCGA-29-1763      TCGA-29-1770      TCGA-29-1776 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-29-1778      TCGA-29-1781      TCGA-29-1783      TCGA-29-1784 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-29-1785      TCGA-29-2427      TCGA-30-1855      TCGA-30-1857 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-30-1862      TCGA-30-1891      TCGA-31-1953      TCGA-31-1959 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-36-1568      TCGA-36-1569      TCGA-36-1570      TCGA-36-1571 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-36-1574      TCGA-36-1575      TCGA-36-1576      TCGA-36-1578 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-36-1580      TCGA-57-1582      TCGA-57-1583      TCGA-57-1584 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-57-1993      TCGA-59-2348      TCGA-59-2350      TCGA-59-2351 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-59-2352      TCGA-59-2354      TCGA-59-2355      TCGA-59-2363 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-61-1725      TCGA-61-1728      TCGA-61-1733      TCGA-61-1736 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-61-1737      TCGA-61-1738      TCGA-61-1740      TCGA-61-1741 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-61-1900      TCGA-61-1907      TCGA-61-1910      TCGA-61-1914 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-61-1919      TCGA-61-1995      TCGA-61-1998      TCGA-61-2000 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-61-2002      TCGA-61-2003      TCGA-61-2008      TCGA-61-2009 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-61-2012      TCGA-61-2016      TCGA-61-2088      TCGA-61-2092 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-61-2094      TCGA-61-2095      TCGA-61-2097      TCGA-61-2101 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-61-2102      TCGA-61-2104      TCGA-61-2109      TCGA-61-2110 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-61-2111      TCGA-61-2113 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  LARP1 MUTATED        0      1      1
  LARP1 WILD-TYPE    122     42     82
D9V10, multiclass
[1] "Remove cluster labels:" "LARP1 MUTATED"         
clus
  LARP1 MUTATED LARP1 WILD-TYPE 
              2             246 
     TCGA-04-1348      TCGA-04-1357      TCGA-04-1362      TCGA-04-1364 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-04-1365      TCGA-04-1514      TCGA-04-1519      TCGA-09-0364 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-09-0366      TCGA-09-0369      TCGA-09-1659      TCGA-09-1662 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-09-1666      TCGA-09-1669      TCGA-09-1670      TCGA-09-1673 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-09-1674      TCGA-09-2044      TCGA-09-2045      TCGA-09-2051 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-09-2056      TCGA-10-0928      TCGA-13-0730      TCGA-13-0800 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-13-0801      TCGA-13-0890      TCGA-13-0893      TCGA-13-0897 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-13-0899      TCGA-13-0913      TCGA-13-0916      TCGA-13-0920 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-13-0924      TCGA-13-1403      TCGA-13-1405      TCGA-13-1410 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-13-1411      TCGA-13-1481      TCGA-13-1497      TCGA-13-1498 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-13-1505      TCGA-13-1506      TCGA-13-1507      TCGA-13-1512 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-13-2060      TCGA-20-1682      TCGA-20-1683      TCGA-20-1684 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-20-1685      TCGA-20-1687      TCGA-23-1023      TCGA-23-1026 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-23-1027      TCGA-23-1029      TCGA-23-1109      TCGA-23-1111 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-23-1114      TCGA-23-1120      TCGA-23-1122      TCGA-23-1123 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-23-1809      TCGA-23-2077      TCGA-23-2078      TCGA-23-2081 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-24-0975      TCGA-24-1103      TCGA-24-1413      TCGA-24-1416 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-24-1417      TCGA-24-1418      TCGA-24-1419      TCGA-24-1423 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-24-1424      TCGA-24-1425      TCGA-24-1427      TCGA-24-1428 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-24-1434      TCGA-24-1435      TCGA-24-1436      TCGA-24-1463 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-24-1469      TCGA-24-1474      TCGA-24-1544      TCGA-24-1545 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-24-1546      TCGA-24-1548      TCGA-24-1549      TCGA-24-1551 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-24-1552      TCGA-24-1553      TCGA-24-1555      TCGA-24-1556 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-24-1557      TCGA-24-1558      TCGA-24-1560      TCGA-24-1562 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-24-1563      TCGA-24-1564      TCGA-24-1567      TCGA-24-1603 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-24-1604      TCGA-24-1616      TCGA-24-1842      TCGA-24-1843 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-24-1844      TCGA-24-1846      TCGA-24-1847      TCGA-24-1849 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-24-1850      TCGA-24-2019      TCGA-24-2024      TCGA-24-2035 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-24-2038      TCGA-24-2254      TCGA-24-2261      TCGA-24-2262 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-24-2267      TCGA-24-2271      TCGA-24-2281      TCGA-24-2288 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-24-2289      TCGA-24-2290      TCGA-24-2293      TCGA-24-2298 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-25-1313      TCGA-25-1315      TCGA-25-1316      TCGA-25-1317 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-25-1318      TCGA-25-1319      TCGA-25-1320      TCGA-25-1321 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-25-1322      TCGA-25-1324      TCGA-25-1326      TCGA-25-1328 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-25-1329      TCGA-25-1623      TCGA-25-1625      TCGA-25-1626 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-25-1627      TCGA-25-1628      TCGA-25-1630      TCGA-25-1631 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-25-1632      TCGA-25-1633      TCGA-25-1634      TCGA-25-1635 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-25-2042      TCGA-25-2391      TCGA-25-2392      TCGA-25-2393 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-25-2396      TCGA-25-2398      TCGA-25-2399      TCGA-25-2400 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-25-2401      TCGA-25-2404      TCGA-25-2409      TCGA-29-1688 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-29-1690      TCGA-29-1691      TCGA-29-1693      TCGA-29-1694 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-29-1695      TCGA-29-1696      TCGA-29-1697      TCGA-29-1698 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-29-1699      TCGA-29-1701      TCGA-29-1702      TCGA-29-1703 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-29-1705      TCGA-29-1710      TCGA-29-1711      TCGA-29-1761 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-29-1762      TCGA-29-1763      TCGA-29-1770      TCGA-29-1776 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-29-1778      TCGA-29-1781      TCGA-29-1783      TCGA-29-1784 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-29-1785      TCGA-29-2427      TCGA-30-1855      TCGA-30-1857 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-30-1862      TCGA-30-1891      TCGA-31-1953      TCGA-31-1959 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-36-1568      TCGA-36-1569      TCGA-36-1570      TCGA-36-1571 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-36-1574      TCGA-36-1575      TCGA-36-1576      TCGA-36-1578 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-36-1580      TCGA-57-1582      TCGA-57-1583      TCGA-57-1584 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-57-1993      TCGA-59-2348      TCGA-59-2350      TCGA-59-2351 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-59-2352      TCGA-59-2354      TCGA-59-2355      TCGA-59-2363 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-61-1725      TCGA-61-1728      TCGA-61-1733      TCGA-61-1736 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-61-1737      TCGA-61-1738      TCGA-61-1740      TCGA-61-1741 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-61-1900      TCGA-61-1907      TCGA-61-1910      TCGA-61-1914 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-61-1919      TCGA-61-1995      TCGA-61-1998      TCGA-61-2000 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-61-2002      TCGA-61-2003      TCGA-61-2008      TCGA-61-2009 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-61-2012      TCGA-61-2016      TCGA-61-2088      TCGA-61-2092 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-61-2094      TCGA-61-2095      TCGA-61-2097      TCGA-61-2101 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-61-2102      TCGA-61-2104      TCGA-61-2109      TCGA-61-2110 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-61-2111      TCGA-61-2113 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  LARP1 MUTATED        0      1      2
  LARP1 WILD-TYPE     97    158    124
D9V11, multiclass
        clus
vv       LARP1 MUTATED LARP1 WILD-TYPE
  CLUS_1             0              97
  CLUS_2             1             158
  CLUS_3             2             124
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  LARP1 MUTATED        0      2      1      0
  LARP1 WILD-TYPE     90     58    136     95
D9V12, multiclass
        clus
vv       LARP1 MUTATED LARP1 WILD-TYPE
  CLUS_1             0              90
  CLUS_2             2              58
  CLUS_3             1             136
  CLUS_4             0              95
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D9V13, binary
                 cls
clus              0 1
  LARP1 MUTATED   0 1
  LARP1 WILD-TYPE 9 4
[1] "tbl2"
                 cls
clus              [,1] [,2]
  LARP1 MUTATED      0    1
  LARP1 WILD-TYPE    9    4
        clus
vv       LARP1 MUTATED LARP1 WILD-TYPE
  CLUS_1             0               9
  CLUS_2             1               4
[1] 2 2
[1] FALSE
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  LARP1 MUTATED        0      1      0      0      0      0
  LARP1 WILD-TYPE      5      0      1      2      3      2
D9V14, multiclass
[1] "Remove cluster labels:" "LARP1 MUTATED"         
clus
  LARP1 MUTATED LARP1 WILD-TYPE 
              1              13 
     TCGA-04-1652      TCGA-23-2077      TCGA-24-2288      TCGA-24-2289 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-24-2290      TCGA-25-2392      TCGA-25-2399      TCGA-25-2400 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-25-2404      TCGA-59-2363      TCGA-61-2088      TCGA-61-2109 
"LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" "LARP1 WILD-TYPE" 
     TCGA-61-2111 
"LARP1 WILD-TYPE" 

Clustering(10) Variable = BRCA2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  BRCA2 MUTATED        6      4      3
  BRCA2 WILD-TYPE    170    171    111
D10V1, multiclass
        clus
vv       BRCA2 MUTATED BRCA2 WILD-TYPE
  CLUS_1             6             170
  CLUS_2             4             171
  CLUS_3             3             111
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  BRCA2 MUTATED        9      2      2
  BRCA2 WILD-TYPE    250    134     68
D10V2, multiclass
        clus
vv       BRCA2 MUTATED BRCA2 WILD-TYPE
  CLUS_1             9             250
  CLUS_2             2             134
  CLUS_3             2              68
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  BRCA2 MUTATED        4      4      5
  BRCA2 WILD-TYPE    130    135    187
D10V3, multiclass
        clus
vv       BRCA2 MUTATED BRCA2 WILD-TYPE
  CLUS_1             4             130
  CLUS_2             4             135
  CLUS_3             5             187
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_10 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  BRCA2 MUTATED        2       1      0      1      1      2      2      2
  BRCA2 WILD-TYPE     71      44     49     69     29     62     25     27
                 vv
clus              CLUS_8 CLUS_9
  BRCA2 MUTATED        1      1
  BRCA2 WILD-TYPE     38     38
D10V4, multiclass
         clus
vv        BRCA2 MUTATED BRCA2 WILD-TYPE
  CLUS_1              2              71
  CLUS_10             1              44
  CLUS_2              0              49
  CLUS_3              1              69
  CLUS_4              1              29
  CLUS_5              2              62
  CLUS_6              2              25
  CLUS_7              2              27
  CLUS_8              1              38
  CLUS_9              1              38
[1] 10  2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  BRCA2 MUTATED        5      6      2
  BRCA2 WILD-TYPE    132    159    151
D10V5, multiclass
        clus
vv       BRCA2 MUTATED BRCA2 WILD-TYPE
  CLUS_1             5             132
  CLUS_2             6             159
  CLUS_3             2             151
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  BRCA2 MUTATED        6      2      5
  BRCA2 WILD-TYPE    132    141    179
D10V6, multiclass
        clus
vv       BRCA2 MUTATED BRCA2 WILD-TYPE
  CLUS_1             6             132
  CLUS_2             2             141
  CLUS_3             5             179
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  BRCA2 MUTATED        2      4      0
  BRCA2 WILD-TYPE    125    147     61
D10V7, multiclass
        clus
vv       BRCA2 MUTATED BRCA2 WILD-TYPE
  CLUS_1             2             125
  CLUS_2             4             147
  CLUS_3             0              61
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  BRCA2 MUTATED        1      0      1      4
  BRCA2 WILD-TYPE    121     43     53    116
D10V8, multiclass
        clus
vv       BRCA2 MUTATED BRCA2 WILD-TYPE
  CLUS_1             1             121
  CLUS_2             0              43
  CLUS_3             1              53
  CLUS_4             4             116
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  BRCA2 MUTATED        2      1      4
  BRCA2 WILD-TYPE     62     83     96
D10V9, multiclass
        clus
vv       BRCA2 MUTATED BRCA2 WILD-TYPE
  CLUS_1             2              62
  CLUS_2             1              83
  CLUS_3             4              96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  BRCA2 MUTATED        3      1      3
  BRCA2 WILD-TYPE    119     42     80
D10V10, multiclass
        clus
vv       BRCA2 MUTATED BRCA2 WILD-TYPE
  CLUS_1             3             119
  CLUS_2             1              42
  CLUS_3             3              80
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  BRCA2 MUTATED        3      4      5
  BRCA2 WILD-TYPE     94    155    121
D10V11, multiclass
        clus
vv       BRCA2 MUTATED BRCA2 WILD-TYPE
  CLUS_1             3              94
  CLUS_2             4             155
  CLUS_3             5             121
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  BRCA2 MUTATED        4      3      3      2
  BRCA2 WILD-TYPE     86     57    134     93
D10V12, multiclass
        clus
vv       BRCA2 MUTATED BRCA2 WILD-TYPE
  CLUS_1             4              86
  CLUS_2             3              57
  CLUS_3             3             134
  CLUS_4             2              93
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D10V13, binary
                 cls
clus              0 1
  BRCA2 MUTATED   0 1
  BRCA2 WILD-TYPE 9 4
[1] "tbl2"
                 cls
clus              [,1] [,2]
  BRCA2 MUTATED      0    1
  BRCA2 WILD-TYPE    9    4
        clus
vv       BRCA2 MUTATED BRCA2 WILD-TYPE
  CLUS_1             0               9
  CLUS_2             1               4
[1] 2 2
[1] FALSE
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  BRCA2 MUTATED        0      1      0      0      0      0
  BRCA2 WILD-TYPE      5      0      1      2      3      2
D10V14, multiclass
[1] "Remove cluster labels:" "BRCA2 MUTATED"         
clus
  BRCA2 MUTATED BRCA2 WILD-TYPE 
              1              13 
     TCGA-04-1652      TCGA-23-2077      TCGA-24-2288      TCGA-24-2289 
"BRCA2 WILD-TYPE" "BRCA2 WILD-TYPE" "BRCA2 WILD-TYPE" "BRCA2 WILD-TYPE" 
     TCGA-24-2290      TCGA-25-2392      TCGA-25-2399      TCGA-25-2400 
"BRCA2 WILD-TYPE" "BRCA2 WILD-TYPE" "BRCA2 WILD-TYPE" "BRCA2 WILD-TYPE" 
     TCGA-25-2404      TCGA-59-2363      TCGA-61-2088      TCGA-61-2109 
"BRCA2 WILD-TYPE" "BRCA2 WILD-TYPE" "BRCA2 WILD-TYPE" "BRCA2 WILD-TYPE" 
     TCGA-61-2111 
"BRCA2 WILD-TYPE" 

Clustering(11) Variable = EFEMP1 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  EFEMP1 MUTATED        3      3      1
  EFEMP1 WILD-TYPE    173    172    113
D11V1, multiclass
        clus
vv       EFEMP1 MUTATED EFEMP1 WILD-TYPE
  CLUS_1              3              173
  CLUS_2              3              172
  CLUS_3              1              113
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  EFEMP1 MUTATED        4      2      1
  EFEMP1 WILD-TYPE    255    134     69
D11V2, multiclass
        clus
vv       EFEMP1 MUTATED EFEMP1 WILD-TYPE
  CLUS_1              4              255
  CLUS_2              2              134
  CLUS_3              1               69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  EFEMP1 MUTATED        0      4      3
  EFEMP1 WILD-TYPE    134    135    189
D11V3, multiclass
        clus
vv       EFEMP1 MUTATED EFEMP1 WILD-TYPE
  CLUS_1              0              134
  CLUS_2              4              135
  CLUS_3              3              189
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_10 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  EFEMP1 MUTATED        0       1      2      2      0      1      0      0
  EFEMP1 WILD-TYPE     73      44     47     68     30     63     27     29
                  vv
clus               CLUS_8 CLUS_9
  EFEMP1 MUTATED        1      0
  EFEMP1 WILD-TYPE     38     39
D11V4, multiclass
         clus
vv        EFEMP1 MUTATED EFEMP1 WILD-TYPE
  CLUS_1               0               73
  CLUS_10              1               44
  CLUS_2               2               47
  CLUS_3               2               68
  CLUS_4               0               30
  CLUS_5               1               63
  CLUS_6               0               27
  CLUS_7               0               29
  CLUS_8               1               38
  CLUS_9               0               39
[1] 10  2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  EFEMP1 MUTATED        0      4      3
  EFEMP1 WILD-TYPE    137    161    150
D11V5, multiclass
        clus
vv       EFEMP1 MUTATED EFEMP1 WILD-TYPE
  CLUS_1              0              137
  CLUS_2              4              161
  CLUS_3              3              150
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  EFEMP1 MUTATED        1      0      6
  EFEMP1 WILD-TYPE    137    143    178
D11V6, multiclass
        clus
vv       EFEMP1 MUTATED EFEMP1 WILD-TYPE
  CLUS_1              1              137
  CLUS_2              0              143
  CLUS_3              6              178
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  EFEMP1 MUTATED        3      2      0
  EFEMP1 WILD-TYPE    124    149     61
D11V7, multiclass
        clus
vv       EFEMP1 MUTATED EFEMP1 WILD-TYPE
  CLUS_1              3              124
  CLUS_2              2              149
  CLUS_3              0               61
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  EFEMP1 MUTATED        3      0      0      2
  EFEMP1 WILD-TYPE    119     43     54    118
D11V8, multiclass
        clus
vv       EFEMP1 MUTATED EFEMP1 WILD-TYPE
  CLUS_1              3              119
  CLUS_2              0               43
  CLUS_3              0               54
  CLUS_4              2              118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  EFEMP1 MUTATED        1      1      0
  EFEMP1 WILD-TYPE     63     83    100
D11V9, multiclass
[1] "Remove cluster labels:" "EFEMP1 MUTATED"        
clus
  EFEMP1 MUTATED EFEMP1 WILD-TYPE 
               2              246 
      TCGA-04-1348       TCGA-04-1357       TCGA-04-1362       TCGA-04-1364 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-04-1365       TCGA-04-1514       TCGA-04-1519       TCGA-09-0364 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-09-0366       TCGA-09-0369       TCGA-09-1659       TCGA-09-1662 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-09-1666       TCGA-09-1670       TCGA-09-1673       TCGA-09-1674 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-09-2044       TCGA-09-2045       TCGA-09-2051       TCGA-09-2056 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-10-0928       TCGA-13-0730       TCGA-13-0800       TCGA-13-0801 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-13-0890       TCGA-13-0893       TCGA-13-0897       TCGA-13-0899 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-13-0913       TCGA-13-0916       TCGA-13-0920       TCGA-13-0924 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-13-1403       TCGA-13-1405       TCGA-13-1410       TCGA-13-1411 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-13-1481       TCGA-13-1497       TCGA-13-1498       TCGA-13-1505 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-13-1506       TCGA-13-1507       TCGA-13-1512       TCGA-13-2060 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-20-1682       TCGA-20-1683       TCGA-20-1684       TCGA-20-1685 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-20-1687       TCGA-23-1023       TCGA-23-1026       TCGA-23-1027 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-23-1029       TCGA-23-1109       TCGA-23-1111       TCGA-23-1114 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-23-1120       TCGA-23-1122       TCGA-23-1123       TCGA-23-1809 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-23-2077       TCGA-23-2078       TCGA-23-2081       TCGA-24-0975 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-24-1103       TCGA-24-1413       TCGA-24-1416       TCGA-24-1417 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-24-1418       TCGA-24-1419       TCGA-24-1423       TCGA-24-1424 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-24-1425       TCGA-24-1427       TCGA-24-1428       TCGA-24-1434 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-24-1435       TCGA-24-1436       TCGA-24-1463       TCGA-24-1469 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-24-1474       TCGA-24-1544       TCGA-24-1545       TCGA-24-1546 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-24-1548       TCGA-24-1549       TCGA-24-1551       TCGA-24-1552 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-24-1553       TCGA-24-1555       TCGA-24-1556       TCGA-24-1557 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-24-1558       TCGA-24-1560       TCGA-24-1562       TCGA-24-1563 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-24-1564       TCGA-24-1567       TCGA-24-1603       TCGA-24-1604 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-24-1616       TCGA-24-1842       TCGA-24-1843       TCGA-24-1844 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-24-1846       TCGA-24-1847       TCGA-24-1849       TCGA-24-1850 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-24-2019       TCGA-24-2024       TCGA-24-2035       TCGA-24-2038 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-24-2254       TCGA-24-2261       TCGA-24-2262       TCGA-24-2267 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-24-2271       TCGA-24-2281       TCGA-24-2288       TCGA-24-2289 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-24-2290       TCGA-24-2293       TCGA-24-2298       TCGA-25-1313 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-25-1315       TCGA-25-1316       TCGA-25-1317       TCGA-25-1318 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-25-1319       TCGA-25-1320       TCGA-25-1321       TCGA-25-1322 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-25-1324       TCGA-25-1326       TCGA-25-1328       TCGA-25-1329 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-25-1623       TCGA-25-1625       TCGA-25-1626       TCGA-25-1627 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-25-1628       TCGA-25-1630       TCGA-25-1631       TCGA-25-1632 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-25-1633       TCGA-25-1634       TCGA-25-1635       TCGA-25-2042 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-25-2391       TCGA-25-2392       TCGA-25-2393       TCGA-25-2396 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-25-2398       TCGA-25-2399       TCGA-25-2400       TCGA-25-2401 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-25-2404       TCGA-25-2409       TCGA-29-1688       TCGA-29-1690 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-29-1691       TCGA-29-1693       TCGA-29-1694       TCGA-29-1695 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-29-1696       TCGA-29-1697       TCGA-29-1698       TCGA-29-1699 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-29-1701       TCGA-29-1702       TCGA-29-1703       TCGA-29-1705 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-29-1710       TCGA-29-1711       TCGA-29-1761       TCGA-29-1762 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-29-1763       TCGA-29-1770       TCGA-29-1776       TCGA-29-1778 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-29-1781       TCGA-29-1783       TCGA-29-1784       TCGA-29-1785 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-29-2427       TCGA-30-1718       TCGA-30-1855       TCGA-30-1857 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-30-1862       TCGA-30-1891       TCGA-31-1953       TCGA-31-1959 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-36-1568       TCGA-36-1569       TCGA-36-1570       TCGA-36-1571 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-36-1575       TCGA-36-1576       TCGA-36-1577       TCGA-36-1578 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-36-1580       TCGA-57-1582       TCGA-57-1583       TCGA-57-1584 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-57-1993       TCGA-59-2348       TCGA-59-2350       TCGA-59-2351 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-59-2352       TCGA-59-2354       TCGA-59-2355       TCGA-59-2363 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-61-1725       TCGA-61-1728       TCGA-61-1733       TCGA-61-1736 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-61-1737       TCGA-61-1738       TCGA-61-1740       TCGA-61-1741 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-61-1900       TCGA-61-1907       TCGA-61-1910       TCGA-61-1914 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-61-1919       TCGA-61-1995       TCGA-61-1998       TCGA-61-2000 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-61-2002       TCGA-61-2003       TCGA-61-2008       TCGA-61-2009 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-61-2012       TCGA-61-2016       TCGA-61-2088       TCGA-61-2092 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-61-2094       TCGA-61-2095       TCGA-61-2097       TCGA-61-2101 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-61-2102       TCGA-61-2104       TCGA-61-2109       TCGA-61-2110 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-61-2111       TCGA-61-2113 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  EFEMP1 MUTATED        0      1      1
  EFEMP1 WILD-TYPE    122     42     82
D11V10, multiclass
[1] "Remove cluster labels:" "EFEMP1 MUTATED"        
clus
  EFEMP1 MUTATED EFEMP1 WILD-TYPE 
               2              246 
      TCGA-04-1348       TCGA-04-1357       TCGA-04-1362       TCGA-04-1364 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-04-1365       TCGA-04-1514       TCGA-04-1519       TCGA-09-0364 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-09-0366       TCGA-09-0369       TCGA-09-1659       TCGA-09-1662 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-09-1666       TCGA-09-1670       TCGA-09-1673       TCGA-09-1674 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-09-2044       TCGA-09-2045       TCGA-09-2051       TCGA-09-2056 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-10-0928       TCGA-13-0730       TCGA-13-0800       TCGA-13-0801 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-13-0890       TCGA-13-0893       TCGA-13-0897       TCGA-13-0899 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-13-0913       TCGA-13-0916       TCGA-13-0920       TCGA-13-0924 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-13-1403       TCGA-13-1405       TCGA-13-1410       TCGA-13-1411 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-13-1481       TCGA-13-1497       TCGA-13-1498       TCGA-13-1505 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-13-1506       TCGA-13-1507       TCGA-13-1512       TCGA-13-2060 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-20-1682       TCGA-20-1683       TCGA-20-1684       TCGA-20-1685 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-20-1687       TCGA-23-1023       TCGA-23-1026       TCGA-23-1027 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-23-1029       TCGA-23-1109       TCGA-23-1111       TCGA-23-1114 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-23-1120       TCGA-23-1122       TCGA-23-1123       TCGA-23-1809 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-23-2077       TCGA-23-2078       TCGA-23-2081       TCGA-24-0975 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-24-1103       TCGA-24-1413       TCGA-24-1416       TCGA-24-1417 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-24-1418       TCGA-24-1419       TCGA-24-1423       TCGA-24-1424 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-24-1425       TCGA-24-1427       TCGA-24-1428       TCGA-24-1434 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-24-1435       TCGA-24-1436       TCGA-24-1463       TCGA-24-1469 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-24-1474       TCGA-24-1544       TCGA-24-1545       TCGA-24-1546 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-24-1548       TCGA-24-1549       TCGA-24-1551       TCGA-24-1552 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-24-1553       TCGA-24-1555       TCGA-24-1556       TCGA-24-1557 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-24-1558       TCGA-24-1560       TCGA-24-1562       TCGA-24-1563 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-24-1564       TCGA-24-1567       TCGA-24-1603       TCGA-24-1604 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-24-1616       TCGA-24-1842       TCGA-24-1843       TCGA-24-1844 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-24-1846       TCGA-24-1847       TCGA-24-1849       TCGA-24-1850 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-24-2019       TCGA-24-2024       TCGA-24-2035       TCGA-24-2038 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-24-2254       TCGA-24-2261       TCGA-24-2262       TCGA-24-2267 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-24-2271       TCGA-24-2281       TCGA-24-2288       TCGA-24-2289 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-24-2290       TCGA-24-2293       TCGA-24-2298       TCGA-25-1313 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-25-1315       TCGA-25-1316       TCGA-25-1317       TCGA-25-1318 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-25-1319       TCGA-25-1320       TCGA-25-1321       TCGA-25-1322 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-25-1324       TCGA-25-1326       TCGA-25-1328       TCGA-25-1329 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-25-1623       TCGA-25-1625       TCGA-25-1626       TCGA-25-1627 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-25-1628       TCGA-25-1630       TCGA-25-1631       TCGA-25-1632 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-25-1633       TCGA-25-1634       TCGA-25-1635       TCGA-25-2042 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-25-2391       TCGA-25-2392       TCGA-25-2393       TCGA-25-2396 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-25-2398       TCGA-25-2399       TCGA-25-2400       TCGA-25-2401 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-25-2404       TCGA-25-2409       TCGA-29-1688       TCGA-29-1690 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-29-1691       TCGA-29-1693       TCGA-29-1694       TCGA-29-1695 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-29-1696       TCGA-29-1697       TCGA-29-1698       TCGA-29-1699 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-29-1701       TCGA-29-1702       TCGA-29-1703       TCGA-29-1705 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-29-1710       TCGA-29-1711       TCGA-29-1761       TCGA-29-1762 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-29-1763       TCGA-29-1770       TCGA-29-1776       TCGA-29-1778 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-29-1781       TCGA-29-1783       TCGA-29-1784       TCGA-29-1785 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-29-2427       TCGA-30-1718       TCGA-30-1855       TCGA-30-1857 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-30-1862       TCGA-30-1891       TCGA-31-1953       TCGA-31-1959 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-36-1568       TCGA-36-1569       TCGA-36-1570       TCGA-36-1571 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-36-1575       TCGA-36-1576       TCGA-36-1577       TCGA-36-1578 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-36-1580       TCGA-57-1582       TCGA-57-1583       TCGA-57-1584 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-57-1993       TCGA-59-2348       TCGA-59-2350       TCGA-59-2351 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-59-2352       TCGA-59-2354       TCGA-59-2355       TCGA-59-2363 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-61-1725       TCGA-61-1728       TCGA-61-1733       TCGA-61-1736 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-61-1737       TCGA-61-1738       TCGA-61-1740       TCGA-61-1741 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-61-1900       TCGA-61-1907       TCGA-61-1910       TCGA-61-1914 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-61-1919       TCGA-61-1995       TCGA-61-1998       TCGA-61-2000 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-61-2002       TCGA-61-2003       TCGA-61-2008       TCGA-61-2009 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-61-2012       TCGA-61-2016       TCGA-61-2088       TCGA-61-2092 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-61-2094       TCGA-61-2095       TCGA-61-2097       TCGA-61-2101 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-61-2102       TCGA-61-2104       TCGA-61-2109       TCGA-61-2110 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
      TCGA-61-2111       TCGA-61-2113 
"EFEMP1 WILD-TYPE" "EFEMP1 WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  EFEMP1 MUTATED        2      2      3
  EFEMP1 WILD-TYPE     95    157    123
D11V11, multiclass
        clus
vv       EFEMP1 MUTATED EFEMP1 WILD-TYPE
  CLUS_1              2               95
  CLUS_2              2              157
  CLUS_3              3              123
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  EFEMP1 MUTATED        3      1      1      2
  EFEMP1 WILD-TYPE     87     59    136     93
D11V12, multiclass
        clus
vv       EFEMP1 MUTATED EFEMP1 WILD-TYPE
  CLUS_1              3               87
  CLUS_2              1               59
  CLUS_3              1              136
  CLUS_4              2               93
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D11V13, binary
                  cls
clus               0 1
  EFEMP1 MUTATED   0 0
  EFEMP1 WILD-TYPE 9 5
[1] "tbl2"
                  cls
clus               [,1] [,2]
  EFEMP1 MUTATED      0    0
  EFEMP1 WILD-TYPE    9    5
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  EFEMP1 MUTATED        0      0      0      0      0      0
  EFEMP1 WILD-TYPE      5      1      1      2      3      2
D11V14, multiclass

Clustering(12) Variable = NRAS MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NRAS MUTATED        1      2      1
  NRAS WILD-TYPE    175    173    113
D12V1, multiclass
        clus
vv       NRAS MUTATED NRAS WILD-TYPE
  CLUS_1            1            175
  CLUS_2            2            173
  CLUS_3            1            113
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NRAS MUTATED        4      0      0
  NRAS WILD-TYPE    255    136     70
D12V2, multiclass
        clus
vv       NRAS MUTATED NRAS WILD-TYPE
  CLUS_1            4            255
  CLUS_2            0            136
  CLUS_3            0             70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NRAS MUTATED        0      2      2
  NRAS WILD-TYPE    134    137    190
D12V3, multiclass
        clus
vv       NRAS MUTATED NRAS WILD-TYPE
  CLUS_1            0            134
  CLUS_2            2            137
  CLUS_3            2            190
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_10 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  NRAS MUTATED        0       0      1      0      0      0      0      1
  NRAS WILD-TYPE     73      45     48     70     30     64     27     28
                vv
clus             CLUS_8 CLUS_9
  NRAS MUTATED        1      1
  NRAS WILD-TYPE     38     38
D12V4, multiclass
         clus
vv        NRAS MUTATED NRAS WILD-TYPE
  CLUS_1             0             73
  CLUS_10            0             45
  CLUS_2             1             48
  CLUS_3             0             70
  CLUS_4             0             30
  CLUS_5             0             64
  CLUS_6             0             27
  CLUS_7             1             28
  CLUS_8             1             38
  CLUS_9             1             38
[1] 10  2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NRAS MUTATED        2      2      0
  NRAS WILD-TYPE    135    163    153
D12V5, multiclass
        clus
vv       NRAS MUTATED NRAS WILD-TYPE
  CLUS_1            2            135
  CLUS_2            2            163
  CLUS_3            0            153
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NRAS MUTATED        0      2      2
  NRAS WILD-TYPE    138    141    182
D12V6, multiclass
        clus
vv       NRAS MUTATED NRAS WILD-TYPE
  CLUS_1            0            138
  CLUS_2            2            141
  CLUS_3            2            182
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NRAS MUTATED        1      2      0
  NRAS WILD-TYPE    126    149     61
D12V7, multiclass
        clus
vv       NRAS MUTATED NRAS WILD-TYPE
  CLUS_1            1            126
  CLUS_2            2            149
  CLUS_3            0             61
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NRAS MUTATED        1      0      0      2
  NRAS WILD-TYPE    121     43     54    118
D12V8, multiclass
        clus
vv       NRAS MUTATED NRAS WILD-TYPE
  CLUS_1            1            121
  CLUS_2            0             43
  CLUS_3            0             54
  CLUS_4            2            118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NRAS MUTATED        1      1      0
  NRAS WILD-TYPE     63     83    100
D12V9, multiclass
[1] "Remove cluster labels:" "NRAS MUTATED"          
clus
  NRAS MUTATED NRAS WILD-TYPE 
             2            246 
    TCGA-04-1348     TCGA-04-1357     TCGA-04-1362     TCGA-04-1364 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-04-1365     TCGA-04-1514     TCGA-04-1519     TCGA-09-0364 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-09-0366     TCGA-09-0369     TCGA-09-1659     TCGA-09-1662 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-09-1666     TCGA-09-1669     TCGA-09-1670     TCGA-09-1673 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-09-1674     TCGA-09-2044     TCGA-09-2045     TCGA-09-2051 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-09-2056     TCGA-10-0928     TCGA-13-0730     TCGA-13-0800 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-13-0801     TCGA-13-0890     TCGA-13-0893     TCGA-13-0897 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-13-0899     TCGA-13-0913     TCGA-13-0916     TCGA-13-0920 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-13-0924     TCGA-13-1403     TCGA-13-1405     TCGA-13-1410 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-13-1411     TCGA-13-1481     TCGA-13-1497     TCGA-13-1498 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-13-1505     TCGA-13-1506     TCGA-13-1507     TCGA-13-1512 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-13-2060     TCGA-20-1682     TCGA-20-1683     TCGA-20-1684 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-20-1685     TCGA-20-1687     TCGA-23-1023     TCGA-23-1026 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-23-1027     TCGA-23-1029     TCGA-23-1109     TCGA-23-1111 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-23-1114     TCGA-23-1120     TCGA-23-1122     TCGA-23-1123 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-23-1809     TCGA-23-2077     TCGA-23-2078     TCGA-23-2081 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-24-0975     TCGA-24-1103     TCGA-24-1413     TCGA-24-1416 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-24-1417     TCGA-24-1418     TCGA-24-1419     TCGA-24-1423 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-24-1424     TCGA-24-1425     TCGA-24-1427     TCGA-24-1428 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-24-1434     TCGA-24-1435     TCGA-24-1436     TCGA-24-1463 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-24-1469     TCGA-24-1474     TCGA-24-1544     TCGA-24-1545 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-24-1546     TCGA-24-1548     TCGA-24-1549     TCGA-24-1551 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-24-1552     TCGA-24-1553     TCGA-24-1555     TCGA-24-1556 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-24-1557     TCGA-24-1558     TCGA-24-1560     TCGA-24-1562 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-24-1563     TCGA-24-1564     TCGA-24-1567     TCGA-24-1603 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-24-1604     TCGA-24-1616     TCGA-24-1842     TCGA-24-1843 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-24-1844     TCGA-24-1846     TCGA-24-1847     TCGA-24-1849 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-24-1850     TCGA-24-2019     TCGA-24-2024     TCGA-24-2035 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-24-2038     TCGA-24-2254     TCGA-24-2261     TCGA-24-2262 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-24-2267     TCGA-24-2271     TCGA-24-2281     TCGA-24-2288 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-24-2289     TCGA-24-2290     TCGA-24-2293     TCGA-24-2298 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-25-1313     TCGA-25-1315     TCGA-25-1316     TCGA-25-1317 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-25-1318     TCGA-25-1319     TCGA-25-1320     TCGA-25-1321 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-25-1322     TCGA-25-1324     TCGA-25-1326     TCGA-25-1328 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-25-1329     TCGA-25-1623     TCGA-25-1625     TCGA-25-1626 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-25-1627     TCGA-25-1628     TCGA-25-1630     TCGA-25-1631 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-25-1632     TCGA-25-1633     TCGA-25-1634     TCGA-25-1635 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-25-2042     TCGA-25-2391     TCGA-25-2392     TCGA-25-2393 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-25-2396     TCGA-25-2398     TCGA-25-2399     TCGA-25-2400 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-25-2401     TCGA-25-2404     TCGA-25-2409     TCGA-29-1688 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-29-1690     TCGA-29-1691     TCGA-29-1693     TCGA-29-1694 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-29-1695     TCGA-29-1696     TCGA-29-1697     TCGA-29-1698 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-29-1699     TCGA-29-1701     TCGA-29-1702     TCGA-29-1703 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-29-1705     TCGA-29-1710     TCGA-29-1711     TCGA-29-1761 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-29-1762     TCGA-29-1763     TCGA-29-1770     TCGA-29-1776 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-29-1778     TCGA-29-1781     TCGA-29-1783     TCGA-29-1784 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-29-1785     TCGA-29-2427     TCGA-30-1718     TCGA-30-1855 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-30-1857     TCGA-30-1862     TCGA-30-1891     TCGA-31-1953 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-31-1959     TCGA-36-1568     TCGA-36-1569     TCGA-36-1570 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-36-1571     TCGA-36-1574     TCGA-36-1575     TCGA-36-1576 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-36-1577     TCGA-36-1578     TCGA-36-1580     TCGA-57-1582 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-57-1583     TCGA-57-1584     TCGA-57-1993     TCGA-59-2348 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-59-2350     TCGA-59-2351     TCGA-59-2352     TCGA-59-2354 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-59-2355     TCGA-59-2363     TCGA-61-1725     TCGA-61-1728 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-61-1733     TCGA-61-1736     TCGA-61-1737     TCGA-61-1738 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-61-1740     TCGA-61-1741     TCGA-61-1900     TCGA-61-1907 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-61-1910     TCGA-61-1914     TCGA-61-1919     TCGA-61-1995 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-61-1998     TCGA-61-2000     TCGA-61-2002     TCGA-61-2003 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-61-2008     TCGA-61-2009     TCGA-61-2012     TCGA-61-2088 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-61-2092     TCGA-61-2094     TCGA-61-2097     TCGA-61-2101 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-61-2102     TCGA-61-2104     TCGA-61-2109     TCGA-61-2110 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-61-2111     TCGA-61-2113 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NRAS MUTATED        2      0      0
  NRAS WILD-TYPE    120     43     83
D12V10, multiclass
[1] "Remove cluster labels:" "NRAS MUTATED"          
clus
  NRAS MUTATED NRAS WILD-TYPE 
             2            246 
    TCGA-04-1348     TCGA-04-1357     TCGA-04-1362     TCGA-04-1364 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-04-1365     TCGA-04-1514     TCGA-04-1519     TCGA-09-0364 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-09-0366     TCGA-09-0369     TCGA-09-1659     TCGA-09-1662 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-09-1666     TCGA-09-1669     TCGA-09-1670     TCGA-09-1673 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-09-1674     TCGA-09-2044     TCGA-09-2045     TCGA-09-2051 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-09-2056     TCGA-10-0928     TCGA-13-0730     TCGA-13-0800 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-13-0801     TCGA-13-0890     TCGA-13-0893     TCGA-13-0897 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-13-0899     TCGA-13-0913     TCGA-13-0916     TCGA-13-0920 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-13-0924     TCGA-13-1403     TCGA-13-1405     TCGA-13-1410 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-13-1411     TCGA-13-1481     TCGA-13-1497     TCGA-13-1498 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-13-1505     TCGA-13-1506     TCGA-13-1507     TCGA-13-1512 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-13-2060     TCGA-20-1682     TCGA-20-1683     TCGA-20-1684 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-20-1685     TCGA-20-1687     TCGA-23-1023     TCGA-23-1026 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-23-1027     TCGA-23-1029     TCGA-23-1109     TCGA-23-1111 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-23-1114     TCGA-23-1120     TCGA-23-1122     TCGA-23-1123 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-23-1809     TCGA-23-2077     TCGA-23-2078     TCGA-23-2081 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-24-0975     TCGA-24-1103     TCGA-24-1413     TCGA-24-1416 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-24-1417     TCGA-24-1418     TCGA-24-1419     TCGA-24-1423 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-24-1424     TCGA-24-1425     TCGA-24-1427     TCGA-24-1428 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-24-1434     TCGA-24-1435     TCGA-24-1436     TCGA-24-1463 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-24-1469     TCGA-24-1474     TCGA-24-1544     TCGA-24-1545 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-24-1546     TCGA-24-1548     TCGA-24-1549     TCGA-24-1551 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-24-1552     TCGA-24-1553     TCGA-24-1555     TCGA-24-1556 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-24-1557     TCGA-24-1558     TCGA-24-1560     TCGA-24-1562 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-24-1563     TCGA-24-1564     TCGA-24-1567     TCGA-24-1603 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-24-1604     TCGA-24-1616     TCGA-24-1842     TCGA-24-1843 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-24-1844     TCGA-24-1846     TCGA-24-1847     TCGA-24-1849 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-24-1850     TCGA-24-2019     TCGA-24-2024     TCGA-24-2035 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-24-2038     TCGA-24-2254     TCGA-24-2261     TCGA-24-2262 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-24-2267     TCGA-24-2271     TCGA-24-2281     TCGA-24-2288 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-24-2289     TCGA-24-2290     TCGA-24-2293     TCGA-24-2298 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-25-1313     TCGA-25-1315     TCGA-25-1316     TCGA-25-1317 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-25-1318     TCGA-25-1319     TCGA-25-1320     TCGA-25-1321 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-25-1322     TCGA-25-1324     TCGA-25-1326     TCGA-25-1328 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-25-1329     TCGA-25-1623     TCGA-25-1625     TCGA-25-1626 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-25-1627     TCGA-25-1628     TCGA-25-1630     TCGA-25-1631 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-25-1632     TCGA-25-1633     TCGA-25-1634     TCGA-25-1635 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-25-2042     TCGA-25-2391     TCGA-25-2392     TCGA-25-2393 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-25-2396     TCGA-25-2398     TCGA-25-2399     TCGA-25-2400 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-25-2401     TCGA-25-2404     TCGA-25-2409     TCGA-29-1688 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-29-1690     TCGA-29-1691     TCGA-29-1693     TCGA-29-1694 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-29-1695     TCGA-29-1696     TCGA-29-1697     TCGA-29-1698 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-29-1699     TCGA-29-1701     TCGA-29-1702     TCGA-29-1703 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-29-1705     TCGA-29-1710     TCGA-29-1711     TCGA-29-1761 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-29-1762     TCGA-29-1763     TCGA-29-1770     TCGA-29-1776 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-29-1778     TCGA-29-1781     TCGA-29-1783     TCGA-29-1784 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-29-1785     TCGA-29-2427     TCGA-30-1718     TCGA-30-1855 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-30-1857     TCGA-30-1862     TCGA-30-1891     TCGA-31-1953 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-31-1959     TCGA-36-1568     TCGA-36-1569     TCGA-36-1570 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-36-1571     TCGA-36-1574     TCGA-36-1575     TCGA-36-1576 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-36-1577     TCGA-36-1578     TCGA-36-1580     TCGA-57-1582 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-57-1583     TCGA-57-1584     TCGA-57-1993     TCGA-59-2348 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-59-2350     TCGA-59-2351     TCGA-59-2352     TCGA-59-2354 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-59-2355     TCGA-59-2363     TCGA-61-1725     TCGA-61-1728 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-61-1733     TCGA-61-1736     TCGA-61-1737     TCGA-61-1738 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-61-1740     TCGA-61-1741     TCGA-61-1900     TCGA-61-1907 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-61-1910     TCGA-61-1914     TCGA-61-1919     TCGA-61-1995 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-61-1998     TCGA-61-2000     TCGA-61-2002     TCGA-61-2003 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-61-2008     TCGA-61-2009     TCGA-61-2012     TCGA-61-2088 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-61-2092     TCGA-61-2094     TCGA-61-2097     TCGA-61-2101 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-61-2102     TCGA-61-2104     TCGA-61-2109     TCGA-61-2110 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-61-2111     TCGA-61-2113 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NRAS MUTATED        0      1      2
  NRAS WILD-TYPE     97    158    124
D12V11, multiclass
        clus
vv       NRAS MUTATED NRAS WILD-TYPE
  CLUS_1            0             97
  CLUS_2            1            158
  CLUS_3            2            124
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NRAS MUTATED        1      0      0      2
  NRAS WILD-TYPE     89     60    137     93
D12V12, multiclass
        clus
vv       NRAS MUTATED NRAS WILD-TYPE
  CLUS_1            1             89
  CLUS_2            0             60
  CLUS_3            0            137
  CLUS_4            2             93
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D12V13, binary
                cls
clus             0 1
  NRAS MUTATED   0 0
  NRAS WILD-TYPE 9 5
[1] "tbl2"
                cls
clus             [,1] [,2]
  NRAS MUTATED      0    0
  NRAS WILD-TYPE    9    5
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  NRAS MUTATED        0      0      0      0      0      0
  NRAS WILD-TYPE      5      1      1      2      3      2
D12V14, multiclass

Clustering(13) Variable = MTA2 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MTA2 MUTATED        3      1      0
  MTA2 WILD-TYPE    173    174    114
D13V1, multiclass
        clus
vv       MTA2 MUTATED MTA2 WILD-TYPE
  CLUS_1            3            173
  CLUS_2            1            174
  CLUS_3            0            114
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MTA2 MUTATED        4      0      0
  MTA2 WILD-TYPE    255    136     70
D13V2, multiclass
        clus
vv       MTA2 MUTATED MTA2 WILD-TYPE
  CLUS_1            4            255
  CLUS_2            0            136
  CLUS_3            0             70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MTA2 MUTATED        1      0      3
  MTA2 WILD-TYPE    133    139    189
D13V3, multiclass
        clus
vv       MTA2 MUTATED MTA2 WILD-TYPE
  CLUS_1            1            133
  CLUS_2            0            139
  CLUS_3            3            189
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_10 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  MTA2 MUTATED        0       0      1      2      0      1      0      0
  MTA2 WILD-TYPE     73      45     48     68     30     63     27     29
                vv
clus             CLUS_8 CLUS_9
  MTA2 MUTATED        0      0
  MTA2 WILD-TYPE     39     39
D13V4, multiclass
         clus
vv        MTA2 MUTATED MTA2 WILD-TYPE
  CLUS_1             0             73
  CLUS_10            0             45
  CLUS_2             1             48
  CLUS_3             2             68
  CLUS_4             0             30
  CLUS_5             1             63
  CLUS_6             0             27
  CLUS_7             0             29
  CLUS_8             0             39
  CLUS_9             0             39
[1] 10  2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MTA2 MUTATED        1      0      2
  MTA2 WILD-TYPE    136    165    151
D13V5, multiclass
        clus
vv       MTA2 MUTATED MTA2 WILD-TYPE
  CLUS_1            1            136
  CLUS_2            0            165
  CLUS_3            2            151
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MTA2 MUTATED        2      0      2
  MTA2 WILD-TYPE    136    143    182
D13V6, multiclass
        clus
vv       MTA2 MUTATED MTA2 WILD-TYPE
  CLUS_1            2            136
  CLUS_2            0            143
  CLUS_3            2            182
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MTA2 MUTATED        1      3      0
  MTA2 WILD-TYPE    126    148     61
D13V7, multiclass
        clus
vv       MTA2 MUTATED MTA2 WILD-TYPE
  CLUS_1            1            126
  CLUS_2            3            148
  CLUS_3            0             61
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MTA2 MUTATED        1      1      0      2
  MTA2 WILD-TYPE    121     42     54    118
D13V8, multiclass
        clus
vv       MTA2 MUTATED MTA2 WILD-TYPE
  CLUS_1            1            121
  CLUS_2            1             42
  CLUS_3            0             54
  CLUS_4            2            118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MTA2 MUTATED        0      2      0
  MTA2 WILD-TYPE     64     82    100
D13V9, multiclass
[1] "Remove cluster labels:" "MTA2 MUTATED"          
clus
  MTA2 MUTATED MTA2 WILD-TYPE 
             2            246 
    TCGA-04-1348     TCGA-04-1357     TCGA-04-1362     TCGA-04-1364 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-04-1365     TCGA-04-1514     TCGA-04-1519     TCGA-09-0364 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-09-0366     TCGA-09-0369     TCGA-09-1659     TCGA-09-1662 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-09-1666     TCGA-09-1669     TCGA-09-1670     TCGA-09-1673 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-09-1674     TCGA-09-2044     TCGA-09-2045     TCGA-09-2051 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-09-2056     TCGA-10-0928     TCGA-13-0730     TCGA-13-0800 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-13-0801     TCGA-13-0890     TCGA-13-0893     TCGA-13-0897 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-13-0899     TCGA-13-0913     TCGA-13-0916     TCGA-13-0920 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-13-0924     TCGA-13-1403     TCGA-13-1405     TCGA-13-1410 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-13-1411     TCGA-13-1481     TCGA-13-1497     TCGA-13-1498 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-13-1505     TCGA-13-1506     TCGA-13-1507     TCGA-13-1512 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-13-2060     TCGA-20-1682     TCGA-20-1684     TCGA-20-1685 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-20-1687     TCGA-23-1023     TCGA-23-1026     TCGA-23-1027 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-23-1029     TCGA-23-1109     TCGA-23-1111     TCGA-23-1114 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-23-1120     TCGA-23-1122     TCGA-23-1123     TCGA-23-1809 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-23-2077     TCGA-23-2078     TCGA-23-2081     TCGA-24-0975 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-24-1103     TCGA-24-1413     TCGA-24-1416     TCGA-24-1417 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-24-1418     TCGA-24-1419     TCGA-24-1423     TCGA-24-1424 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-24-1425     TCGA-24-1427     TCGA-24-1428     TCGA-24-1434 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-24-1435     TCGA-24-1436     TCGA-24-1463     TCGA-24-1469 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-24-1474     TCGA-24-1544     TCGA-24-1545     TCGA-24-1546 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-24-1548     TCGA-24-1549     TCGA-24-1551     TCGA-24-1552 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-24-1553     TCGA-24-1555     TCGA-24-1556     TCGA-24-1557 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-24-1558     TCGA-24-1560     TCGA-24-1562     TCGA-24-1563 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-24-1564     TCGA-24-1567     TCGA-24-1603     TCGA-24-1604 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-24-1616     TCGA-24-1842     TCGA-24-1843     TCGA-24-1844 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-24-1846     TCGA-24-1847     TCGA-24-1849     TCGA-24-1850 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-24-2019     TCGA-24-2024     TCGA-24-2035     TCGA-24-2038 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-24-2254     TCGA-24-2261     TCGA-24-2262     TCGA-24-2267 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-24-2271     TCGA-24-2281     TCGA-24-2288     TCGA-24-2289 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-24-2290     TCGA-24-2293     TCGA-24-2298     TCGA-25-1313 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-25-1315     TCGA-25-1316     TCGA-25-1317     TCGA-25-1318 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-25-1319     TCGA-25-1320     TCGA-25-1321     TCGA-25-1322 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-25-1324     TCGA-25-1326     TCGA-25-1328     TCGA-25-1329 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-25-1623     TCGA-25-1625     TCGA-25-1626     TCGA-25-1627 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-25-1628     TCGA-25-1630     TCGA-25-1631     TCGA-25-1632 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-25-1633     TCGA-25-1634     TCGA-25-1635     TCGA-25-2042 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-25-2391     TCGA-25-2392     TCGA-25-2393     TCGA-25-2396 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-25-2398     TCGA-25-2399     TCGA-25-2401     TCGA-25-2404 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-25-2409     TCGA-29-1688     TCGA-29-1690     TCGA-29-1691 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-29-1693     TCGA-29-1694     TCGA-29-1695     TCGA-29-1696 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-29-1697     TCGA-29-1698     TCGA-29-1699     TCGA-29-1701 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-29-1702     TCGA-29-1703     TCGA-29-1705     TCGA-29-1710 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-29-1711     TCGA-29-1761     TCGA-29-1762     TCGA-29-1763 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-29-1770     TCGA-29-1776     TCGA-29-1778     TCGA-29-1781 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-29-1783     TCGA-29-1784     TCGA-29-1785     TCGA-29-2427 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-30-1718     TCGA-30-1855     TCGA-30-1857     TCGA-30-1862 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-30-1891     TCGA-31-1953     TCGA-31-1959     TCGA-36-1568 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-36-1569     TCGA-36-1570     TCGA-36-1571     TCGA-36-1574 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-36-1575     TCGA-36-1576     TCGA-36-1577     TCGA-36-1578 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-36-1580     TCGA-57-1582     TCGA-57-1583     TCGA-57-1584 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-57-1993     TCGA-59-2348     TCGA-59-2350     TCGA-59-2351 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-59-2352     TCGA-59-2354     TCGA-59-2355     TCGA-59-2363 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-61-1725     TCGA-61-1728     TCGA-61-1733     TCGA-61-1736 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-61-1737     TCGA-61-1738     TCGA-61-1740     TCGA-61-1741 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-61-1900     TCGA-61-1907     TCGA-61-1910     TCGA-61-1914 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-61-1919     TCGA-61-1995     TCGA-61-1998     TCGA-61-2000 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-61-2002     TCGA-61-2003     TCGA-61-2008     TCGA-61-2009 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-61-2012     TCGA-61-2016     TCGA-61-2088     TCGA-61-2092 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-61-2094     TCGA-61-2095     TCGA-61-2097     TCGA-61-2101 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-61-2102     TCGA-61-2104     TCGA-61-2109     TCGA-61-2110 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-61-2111     TCGA-61-2113 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MTA2 MUTATED        2      0      0
  MTA2 WILD-TYPE    120     43     83
D13V10, multiclass
[1] "Remove cluster labels:" "MTA2 MUTATED"          
clus
  MTA2 MUTATED MTA2 WILD-TYPE 
             2            246 
    TCGA-04-1348     TCGA-04-1357     TCGA-04-1362     TCGA-04-1364 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-04-1365     TCGA-04-1514     TCGA-04-1519     TCGA-09-0364 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-09-0366     TCGA-09-0369     TCGA-09-1659     TCGA-09-1662 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-09-1666     TCGA-09-1669     TCGA-09-1670     TCGA-09-1673 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-09-1674     TCGA-09-2044     TCGA-09-2045     TCGA-09-2051 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-09-2056     TCGA-10-0928     TCGA-13-0730     TCGA-13-0800 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-13-0801     TCGA-13-0890     TCGA-13-0893     TCGA-13-0897 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-13-0899     TCGA-13-0913     TCGA-13-0916     TCGA-13-0920 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-13-0924     TCGA-13-1403     TCGA-13-1405     TCGA-13-1410 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-13-1411     TCGA-13-1481     TCGA-13-1497     TCGA-13-1498 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-13-1505     TCGA-13-1506     TCGA-13-1507     TCGA-13-1512 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-13-2060     TCGA-20-1682     TCGA-20-1684     TCGA-20-1685 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-20-1687     TCGA-23-1023     TCGA-23-1026     TCGA-23-1027 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-23-1029     TCGA-23-1109     TCGA-23-1111     TCGA-23-1114 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-23-1120     TCGA-23-1122     TCGA-23-1123     TCGA-23-1809 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-23-2077     TCGA-23-2078     TCGA-23-2081     TCGA-24-0975 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-24-1103     TCGA-24-1413     TCGA-24-1416     TCGA-24-1417 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-24-1418     TCGA-24-1419     TCGA-24-1423     TCGA-24-1424 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-24-1425     TCGA-24-1427     TCGA-24-1428     TCGA-24-1434 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-24-1435     TCGA-24-1436     TCGA-24-1463     TCGA-24-1469 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-24-1474     TCGA-24-1544     TCGA-24-1545     TCGA-24-1546 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-24-1548     TCGA-24-1549     TCGA-24-1551     TCGA-24-1552 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-24-1553     TCGA-24-1555     TCGA-24-1556     TCGA-24-1557 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-24-1558     TCGA-24-1560     TCGA-24-1562     TCGA-24-1563 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-24-1564     TCGA-24-1567     TCGA-24-1603     TCGA-24-1604 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-24-1616     TCGA-24-1842     TCGA-24-1843     TCGA-24-1844 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-24-1846     TCGA-24-1847     TCGA-24-1849     TCGA-24-1850 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-24-2019     TCGA-24-2024     TCGA-24-2035     TCGA-24-2038 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-24-2254     TCGA-24-2261     TCGA-24-2262     TCGA-24-2267 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-24-2271     TCGA-24-2281     TCGA-24-2288     TCGA-24-2289 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-24-2290     TCGA-24-2293     TCGA-24-2298     TCGA-25-1313 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-25-1315     TCGA-25-1316     TCGA-25-1317     TCGA-25-1318 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-25-1319     TCGA-25-1320     TCGA-25-1321     TCGA-25-1322 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-25-1324     TCGA-25-1326     TCGA-25-1328     TCGA-25-1329 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-25-1623     TCGA-25-1625     TCGA-25-1626     TCGA-25-1627 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-25-1628     TCGA-25-1630     TCGA-25-1631     TCGA-25-1632 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-25-1633     TCGA-25-1634     TCGA-25-1635     TCGA-25-2042 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-25-2391     TCGA-25-2392     TCGA-25-2393     TCGA-25-2396 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-25-2398     TCGA-25-2399     TCGA-25-2401     TCGA-25-2404 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-25-2409     TCGA-29-1688     TCGA-29-1690     TCGA-29-1691 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-29-1693     TCGA-29-1694     TCGA-29-1695     TCGA-29-1696 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-29-1697     TCGA-29-1698     TCGA-29-1699     TCGA-29-1701 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-29-1702     TCGA-29-1703     TCGA-29-1705     TCGA-29-1710 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-29-1711     TCGA-29-1761     TCGA-29-1762     TCGA-29-1763 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-29-1770     TCGA-29-1776     TCGA-29-1778     TCGA-29-1781 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-29-1783     TCGA-29-1784     TCGA-29-1785     TCGA-29-2427 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-30-1718     TCGA-30-1855     TCGA-30-1857     TCGA-30-1862 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-30-1891     TCGA-31-1953     TCGA-31-1959     TCGA-36-1568 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-36-1569     TCGA-36-1570     TCGA-36-1571     TCGA-36-1574 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-36-1575     TCGA-36-1576     TCGA-36-1577     TCGA-36-1578 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-36-1580     TCGA-57-1582     TCGA-57-1583     TCGA-57-1584 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-57-1993     TCGA-59-2348     TCGA-59-2350     TCGA-59-2351 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-59-2352     TCGA-59-2354     TCGA-59-2355     TCGA-59-2363 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-61-1725     TCGA-61-1728     TCGA-61-1733     TCGA-61-1736 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-61-1737     TCGA-61-1738     TCGA-61-1740     TCGA-61-1741 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-61-1900     TCGA-61-1907     TCGA-61-1910     TCGA-61-1914 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-61-1919     TCGA-61-1995     TCGA-61-1998     TCGA-61-2000 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-61-2002     TCGA-61-2003     TCGA-61-2008     TCGA-61-2009 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-61-2012     TCGA-61-2016     TCGA-61-2088     TCGA-61-2092 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-61-2094     TCGA-61-2095     TCGA-61-2097     TCGA-61-2101 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-61-2102     TCGA-61-2104     TCGA-61-2109     TCGA-61-2110 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-61-2111     TCGA-61-2113 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  MTA2 MUTATED        0      1      1
  MTA2 WILD-TYPE     97    158    125
D13V11, multiclass
[1] "Remove cluster labels:" "MTA2 MUTATED"          
clus
  MTA2 MUTATED MTA2 WILD-TYPE 
             2            380 
    TCGA-04-1331     TCGA-04-1332     TCGA-04-1336     TCGA-04-1337 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-04-1342     TCGA-04-1346     TCGA-04-1347     TCGA-04-1348 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-04-1349     TCGA-04-1350     TCGA-04-1356     TCGA-04-1357 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-04-1361     TCGA-04-1362     TCGA-04-1364     TCGA-04-1365 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-04-1367     TCGA-04-1514     TCGA-04-1517     TCGA-04-1519 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-04-1525     TCGA-04-1530     TCGA-04-1542     TCGA-04-1638 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-04-1646     TCGA-04-1648     TCGA-04-1649     TCGA-04-1651 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-04-1652     TCGA-04-1655     TCGA-09-0364     TCGA-09-0366 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-09-1661     TCGA-09-1662     TCGA-09-1665     TCGA-09-1666 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-09-1669     TCGA-09-1670     TCGA-09-1673     TCGA-09-1674 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-09-2044     TCGA-09-2045     TCGA-09-2050     TCGA-09-2051 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-09-2053     TCGA-09-2056     TCGA-10-0926     TCGA-10-0927 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-10-0928     TCGA-10-0933     TCGA-10-0934     TCGA-13-0714 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-13-0720     TCGA-13-0723     TCGA-13-0724     TCGA-13-0751 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-13-0755     TCGA-13-0760     TCGA-13-0791     TCGA-13-0792 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-13-0800     TCGA-13-0801     TCGA-13-0802     TCGA-13-0883 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-13-0884     TCGA-13-0885     TCGA-13-0886     TCGA-13-0887 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-13-0889     TCGA-13-0890     TCGA-13-0891     TCGA-13-0893 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-13-0894     TCGA-13-0900     TCGA-13-0901     TCGA-13-0903 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-13-0904     TCGA-13-0905     TCGA-13-0906     TCGA-13-0910 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-13-0911     TCGA-13-0912     TCGA-13-0913     TCGA-13-0916 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-13-0919     TCGA-13-0920     TCGA-13-0923     TCGA-13-0924 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-13-1403     TCGA-13-1404     TCGA-13-1405     TCGA-13-1407 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-13-1408     TCGA-13-1409     TCGA-13-1410     TCGA-13-1411 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-13-1412     TCGA-13-1477     TCGA-13-1481     TCGA-13-1482 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-13-1483     TCGA-13-1484     TCGA-13-1487     TCGA-13-1488 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-13-1489     TCGA-13-1491     TCGA-13-1492     TCGA-13-1494 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-13-1495     TCGA-13-1496     TCGA-13-1497     TCGA-13-1498 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-13-1499     TCGA-13-1501     TCGA-13-1504     TCGA-13-1505 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-13-1506     TCGA-13-1507     TCGA-13-1509     TCGA-13-1510 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-13-1512     TCGA-13-2060     TCGA-20-0987     TCGA-20-0990 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-20-0991     TCGA-20-1682     TCGA-20-1684     TCGA-20-1685 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-20-1686     TCGA-20-1687     TCGA-23-1021     TCGA-23-1022 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-23-1023     TCGA-23-1026     TCGA-23-1027     TCGA-23-1028 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-23-1029     TCGA-23-1030     TCGA-23-1032     TCGA-23-1107 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-23-1109     TCGA-23-1110     TCGA-23-1111     TCGA-23-1114 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-23-1118     TCGA-23-1119     TCGA-23-1120     TCGA-23-1122 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-23-1123     TCGA-23-1124     TCGA-23-1809     TCGA-23-2072 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-23-2077     TCGA-23-2078     TCGA-23-2079     TCGA-23-2081 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-24-0966     TCGA-24-0968     TCGA-24-0970     TCGA-24-0975 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-24-0979     TCGA-24-0982     TCGA-24-1103     TCGA-24-1104 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-24-1105     TCGA-24-1413     TCGA-24-1416     TCGA-24-1417 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-24-1418     TCGA-24-1419     TCGA-24-1422     TCGA-24-1423 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-24-1424     TCGA-24-1425     TCGA-24-1426     TCGA-24-1427 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-24-1428     TCGA-24-1431     TCGA-24-1434     TCGA-24-1435 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-24-1436     TCGA-24-1463     TCGA-24-1464     TCGA-24-1466 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-24-1469     TCGA-24-1470     TCGA-24-1471     TCGA-24-1474 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-24-1544     TCGA-24-1545     TCGA-24-1546     TCGA-24-1548 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-24-1549     TCGA-24-1551     TCGA-24-1552     TCGA-24-1553 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-24-1555     TCGA-24-1556     TCGA-24-1557     TCGA-24-1558 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-24-1560     TCGA-24-1562     TCGA-24-1563     TCGA-24-1564 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-24-1565     TCGA-24-1567     TCGA-24-1603     TCGA-24-1604 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-24-1614     TCGA-24-1616     TCGA-24-1842     TCGA-24-1843 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-24-1844     TCGA-24-1845     TCGA-24-1846     TCGA-24-1847 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-24-1849     TCGA-24-1850     TCGA-24-2019     TCGA-24-2024 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-24-2030     TCGA-24-2035     TCGA-24-2038     TCGA-24-2254 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-24-2260     TCGA-24-2261     TCGA-24-2262     TCGA-24-2267 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-24-2271     TCGA-24-2280     TCGA-24-2281     TCGA-24-2288 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-24-2289     TCGA-24-2290     TCGA-24-2293     TCGA-24-2298 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-25-1313     TCGA-25-1315     TCGA-25-1316     TCGA-25-1317 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-25-1318     TCGA-25-1319     TCGA-25-1320     TCGA-25-1321 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-25-1322     TCGA-25-1324     TCGA-25-1325     TCGA-25-1326 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-25-1328     TCGA-25-1329     TCGA-25-1623     TCGA-25-1625 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-25-1626     TCGA-25-1627     TCGA-25-1628     TCGA-25-1630 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-25-1631     TCGA-25-1632     TCGA-25-1633     TCGA-25-1634 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-25-1635     TCGA-25-2042     TCGA-25-2391     TCGA-25-2392 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-25-2393     TCGA-25-2396     TCGA-25-2398     TCGA-25-2399 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-25-2401     TCGA-25-2404     TCGA-25-2408     TCGA-25-2409 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-29-1688     TCGA-29-1690     TCGA-29-1691     TCGA-29-1693 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-29-1694     TCGA-29-1695     TCGA-29-1696     TCGA-29-1697 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-29-1698     TCGA-29-1699     TCGA-29-1701     TCGA-29-1702 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-29-1703     TCGA-29-1705     TCGA-29-1707     TCGA-29-1710 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-29-1711     TCGA-29-1761     TCGA-29-1762     TCGA-29-1763 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-29-1764     TCGA-29-1766     TCGA-29-1768     TCGA-29-1769 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-29-1770     TCGA-29-1771     TCGA-29-1774     TCGA-29-1776 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-29-1777     TCGA-29-1778     TCGA-29-1781     TCGA-29-1783 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-29-1784     TCGA-29-1785     TCGA-29-2427     TCGA-30-1714 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-30-1718     TCGA-30-1853     TCGA-30-1855     TCGA-30-1856 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-30-1857     TCGA-30-1862     TCGA-30-1891     TCGA-31-1953 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-31-1959     TCGA-36-1568     TCGA-36-1569     TCGA-36-1570 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-36-1571     TCGA-36-1574     TCGA-36-1575     TCGA-36-1576 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-36-1577     TCGA-36-1578     TCGA-36-1580     TCGA-57-1582 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-57-1583     TCGA-57-1584     TCGA-57-1586     TCGA-57-1993 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-59-2348     TCGA-59-2350     TCGA-59-2351     TCGA-59-2352 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-59-2354     TCGA-59-2355     TCGA-59-2363     TCGA-61-1725 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-61-1728     TCGA-61-1733     TCGA-61-1736     TCGA-61-1737 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-61-1738     TCGA-61-1740     TCGA-61-1741     TCGA-61-1895 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-61-1899     TCGA-61-1900     TCGA-61-1901     TCGA-61-1906 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-61-1907     TCGA-61-1910     TCGA-61-1911     TCGA-61-1913 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-61-1914     TCGA-61-1915     TCGA-61-1919     TCGA-61-1995 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-61-1998     TCGA-61-2000     TCGA-61-2002     TCGA-61-2003 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-61-2008     TCGA-61-2009     TCGA-61-2012     TCGA-61-2016 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-61-2088     TCGA-61-2092     TCGA-61-2094     TCGA-61-2095 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-61-2097     TCGA-61-2101     TCGA-61-2102     TCGA-61-2104 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-61-2109     TCGA-61-2110     TCGA-61-2111     TCGA-61-2113 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MTA2 MUTATED        0      0      1      1
  MTA2 WILD-TYPE     90     60    136     94
D13V12, multiclass
[1] "Remove cluster labels:" "MTA2 MUTATED"          
clus
  MTA2 MUTATED MTA2 WILD-TYPE 
             2            380 
    TCGA-04-1331     TCGA-04-1332     TCGA-04-1336     TCGA-04-1337 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-04-1342     TCGA-04-1346     TCGA-04-1347     TCGA-04-1348 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-04-1349     TCGA-04-1350     TCGA-04-1356     TCGA-04-1357 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-04-1361     TCGA-04-1362     TCGA-04-1364     TCGA-04-1365 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-04-1367     TCGA-04-1514     TCGA-04-1517     TCGA-04-1519 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-04-1525     TCGA-04-1530     TCGA-04-1542     TCGA-04-1638 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-04-1646     TCGA-04-1648     TCGA-04-1649     TCGA-04-1651 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-04-1652     TCGA-04-1655     TCGA-09-0364     TCGA-09-0366 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-09-1661     TCGA-09-1662     TCGA-09-1665     TCGA-09-1666 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-09-1669     TCGA-09-1670     TCGA-09-1673     TCGA-09-1674 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-09-2044     TCGA-09-2045     TCGA-09-2050     TCGA-09-2051 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-09-2053     TCGA-09-2056     TCGA-10-0926     TCGA-10-0927 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-10-0928     TCGA-10-0933     TCGA-10-0934     TCGA-13-0714 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-13-0720     TCGA-13-0723     TCGA-13-0724     TCGA-13-0751 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-13-0755     TCGA-13-0760     TCGA-13-0791     TCGA-13-0792 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-13-0800     TCGA-13-0801     TCGA-13-0802     TCGA-13-0883 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-13-0884     TCGA-13-0885     TCGA-13-0886     TCGA-13-0887 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-13-0889     TCGA-13-0890     TCGA-13-0891     TCGA-13-0893 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-13-0894     TCGA-13-0900     TCGA-13-0901     TCGA-13-0903 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-13-0904     TCGA-13-0905     TCGA-13-0906     TCGA-13-0910 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-13-0911     TCGA-13-0912     TCGA-13-0913     TCGA-13-0916 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-13-0919     TCGA-13-0920     TCGA-13-0923     TCGA-13-0924 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-13-1403     TCGA-13-1404     TCGA-13-1405     TCGA-13-1407 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-13-1408     TCGA-13-1409     TCGA-13-1410     TCGA-13-1411 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-13-1412     TCGA-13-1477     TCGA-13-1481     TCGA-13-1482 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-13-1483     TCGA-13-1484     TCGA-13-1487     TCGA-13-1488 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-13-1489     TCGA-13-1491     TCGA-13-1492     TCGA-13-1494 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-13-1495     TCGA-13-1496     TCGA-13-1497     TCGA-13-1498 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-13-1499     TCGA-13-1501     TCGA-13-1504     TCGA-13-1505 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-13-1506     TCGA-13-1507     TCGA-13-1509     TCGA-13-1510 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-13-1512     TCGA-13-2060     TCGA-20-0987     TCGA-20-0990 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-20-0991     TCGA-20-1682     TCGA-20-1684     TCGA-20-1685 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-20-1686     TCGA-20-1687     TCGA-23-1021     TCGA-23-1022 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-23-1023     TCGA-23-1026     TCGA-23-1027     TCGA-23-1028 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-23-1029     TCGA-23-1030     TCGA-23-1032     TCGA-23-1107 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-23-1109     TCGA-23-1110     TCGA-23-1111     TCGA-23-1114 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-23-1118     TCGA-23-1119     TCGA-23-1120     TCGA-23-1122 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-23-1123     TCGA-23-1124     TCGA-23-1809     TCGA-23-2072 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-23-2077     TCGA-23-2078     TCGA-23-2079     TCGA-23-2081 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-24-0966     TCGA-24-0968     TCGA-24-0970     TCGA-24-0975 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-24-0979     TCGA-24-0982     TCGA-24-1103     TCGA-24-1104 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-24-1105     TCGA-24-1413     TCGA-24-1416     TCGA-24-1417 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-24-1418     TCGA-24-1419     TCGA-24-1422     TCGA-24-1423 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-24-1424     TCGA-24-1425     TCGA-24-1426     TCGA-24-1427 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-24-1428     TCGA-24-1431     TCGA-24-1434     TCGA-24-1435 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-24-1436     TCGA-24-1463     TCGA-24-1464     TCGA-24-1466 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-24-1469     TCGA-24-1470     TCGA-24-1471     TCGA-24-1474 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-24-1544     TCGA-24-1545     TCGA-24-1546     TCGA-24-1548 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-24-1549     TCGA-24-1551     TCGA-24-1552     TCGA-24-1553 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-24-1555     TCGA-24-1556     TCGA-24-1557     TCGA-24-1558 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-24-1560     TCGA-24-1562     TCGA-24-1563     TCGA-24-1564 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-24-1565     TCGA-24-1567     TCGA-24-1603     TCGA-24-1604 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-24-1614     TCGA-24-1616     TCGA-24-1842     TCGA-24-1843 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-24-1844     TCGA-24-1845     TCGA-24-1846     TCGA-24-1847 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-24-1849     TCGA-24-1850     TCGA-24-2019     TCGA-24-2024 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-24-2030     TCGA-24-2035     TCGA-24-2038     TCGA-24-2254 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-24-2260     TCGA-24-2261     TCGA-24-2262     TCGA-24-2267 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-24-2271     TCGA-24-2280     TCGA-24-2281     TCGA-24-2288 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-24-2289     TCGA-24-2290     TCGA-24-2293     TCGA-24-2298 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-25-1313     TCGA-25-1315     TCGA-25-1316     TCGA-25-1317 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-25-1318     TCGA-25-1319     TCGA-25-1320     TCGA-25-1321 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-25-1322     TCGA-25-1324     TCGA-25-1325     TCGA-25-1326 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-25-1328     TCGA-25-1329     TCGA-25-1623     TCGA-25-1625 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-25-1626     TCGA-25-1627     TCGA-25-1628     TCGA-25-1630 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-25-1631     TCGA-25-1632     TCGA-25-1633     TCGA-25-1634 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-25-1635     TCGA-25-2042     TCGA-25-2391     TCGA-25-2392 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-25-2393     TCGA-25-2396     TCGA-25-2398     TCGA-25-2399 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-25-2401     TCGA-25-2404     TCGA-25-2408     TCGA-25-2409 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-29-1688     TCGA-29-1690     TCGA-29-1691     TCGA-29-1693 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-29-1694     TCGA-29-1695     TCGA-29-1696     TCGA-29-1697 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-29-1698     TCGA-29-1699     TCGA-29-1701     TCGA-29-1702 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-29-1703     TCGA-29-1705     TCGA-29-1707     TCGA-29-1710 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-29-1711     TCGA-29-1761     TCGA-29-1762     TCGA-29-1763 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-29-1764     TCGA-29-1766     TCGA-29-1768     TCGA-29-1769 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-29-1770     TCGA-29-1771     TCGA-29-1774     TCGA-29-1776 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-29-1777     TCGA-29-1778     TCGA-29-1781     TCGA-29-1783 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-29-1784     TCGA-29-1785     TCGA-29-2427     TCGA-30-1714 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-30-1718     TCGA-30-1853     TCGA-30-1855     TCGA-30-1856 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-30-1857     TCGA-30-1862     TCGA-30-1891     TCGA-31-1953 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-31-1959     TCGA-36-1568     TCGA-36-1569     TCGA-36-1570 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-36-1571     TCGA-36-1574     TCGA-36-1575     TCGA-36-1576 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-36-1577     TCGA-36-1578     TCGA-36-1580     TCGA-57-1582 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-57-1583     TCGA-57-1584     TCGA-57-1586     TCGA-57-1993 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-59-2348     TCGA-59-2350     TCGA-59-2351     TCGA-59-2352 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-59-2354     TCGA-59-2355     TCGA-59-2363     TCGA-61-1725 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-61-1728     TCGA-61-1733     TCGA-61-1736     TCGA-61-1737 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-61-1738     TCGA-61-1740     TCGA-61-1741     TCGA-61-1895 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-61-1899     TCGA-61-1900     TCGA-61-1901     TCGA-61-1906 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-61-1907     TCGA-61-1910     TCGA-61-1911     TCGA-61-1913 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-61-1914     TCGA-61-1915     TCGA-61-1919     TCGA-61-1995 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-61-1998     TCGA-61-2000     TCGA-61-2002     TCGA-61-2003 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-61-2008     TCGA-61-2009     TCGA-61-2012     TCGA-61-2016 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-61-2088     TCGA-61-2092     TCGA-61-2094     TCGA-61-2095 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-61-2097     TCGA-61-2101     TCGA-61-2102     TCGA-61-2104 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-61-2109     TCGA-61-2110     TCGA-61-2111     TCGA-61-2113 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
D13V13, binary
                cls
clus             0 1
  MTA2 MUTATED   1 0
  MTA2 WILD-TYPE 8 5
[1] "tbl2"
                cls
clus             [,1] [,2]
  MTA2 MUTATED      1    0
  MTA2 WILD-TYPE    8    5
        clus
vv       MTA2 MUTATED MTA2 WILD-TYPE
  CLUS_1            1              8
  CLUS_2            0              5
[1] 2 2
[1] FALSE
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MTA2 MUTATED        1      0      0      0      0      0
  MTA2 WILD-TYPE      4      1      1      2      3      2
D13V14, multiclass
[1] "Remove cluster labels:" "MTA2 MUTATED"          
clus
  MTA2 MUTATED MTA2 WILD-TYPE 
             1             13 
    TCGA-04-1652     TCGA-09-2050     TCGA-23-2077     TCGA-24-2288 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-24-2289     TCGA-24-2290     TCGA-25-2392     TCGA-25-2399 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-25-2404     TCGA-59-2363     TCGA-61-2088     TCGA-61-2109 
"MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" "MTA2 WILD-TYPE" 
    TCGA-61-2111 
"MTA2 WILD-TYPE" 

Clustering(14) Variable = ERCC6 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ERCC6 MUTATED        1      2      1
  ERCC6 WILD-TYPE    175    173    113
D14V1, multiclass
        clus
vv       ERCC6 MUTATED ERCC6 WILD-TYPE
  CLUS_1             1             175
  CLUS_2             2             173
  CLUS_3             1             113
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ERCC6 MUTATED        1      3      0
  ERCC6 WILD-TYPE    258    133     70
D14V2, multiclass
        clus
vv       ERCC6 MUTATED ERCC6 WILD-TYPE
  CLUS_1             1             258
  CLUS_2             3             133
  CLUS_3             0              70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ERCC6 MUTATED        1      3      0
  ERCC6 WILD-TYPE    133    136    192
D14V3, multiclass
        clus
vv       ERCC6 MUTATED ERCC6 WILD-TYPE
  CLUS_1             1             133
  CLUS_2             3             136
  CLUS_3             0             192
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_10 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  ERCC6 MUTATED        0       1      1      0      1      0      0      0
  ERCC6 WILD-TYPE     73      44     48     70     29     64     27     29
                 vv
clus              CLUS_8 CLUS_9
  ERCC6 MUTATED        0      1
  ERCC6 WILD-TYPE     39     38
D14V4, multiclass
         clus
vv        ERCC6 MUTATED ERCC6 WILD-TYPE
  CLUS_1              0              73
  CLUS_10             1              44
  CLUS_2              1              48
  CLUS_3              0              70
  CLUS_4              1              29
  CLUS_5              0              64
  CLUS_6              0              27
  CLUS_7              0              29
  CLUS_8              0              39
  CLUS_9              1              38
[1] 10  2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ERCC6 MUTATED        1      2      1
  ERCC6 WILD-TYPE    136    163    152
D14V5, multiclass
        clus
vv       ERCC6 MUTATED ERCC6 WILD-TYPE
  CLUS_1             1             136
  CLUS_2             2             163
  CLUS_3             1             152
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ERCC6 MUTATED        1      3      0
  ERCC6 WILD-TYPE    137    140    184
D14V6, multiclass
        clus
vv       ERCC6 MUTATED ERCC6 WILD-TYPE
  CLUS_1             1             137
  CLUS_2             3             140
  CLUS_3             0             184
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ERCC6 MUTATED        2      1      0
  ERCC6 WILD-TYPE    125    150     61
D14V7, multiclass
        clus
vv       ERCC6 MUTATED ERCC6 WILD-TYPE
  CLUS_1             2             125
  CLUS_2             1             150
  CLUS_3             0              61
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ERCC6 MUTATED        2      0      0      1
  ERCC6 WILD-TYPE    120     43     54    119
D14V8, multiclass
        clus
vv       ERCC6 MUTATED ERCC6 WILD-TYPE
  CLUS_1             2             120
  CLUS_2             0              43
  CLUS_3             0              54
  CLUS_4             1             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ERCC6 MUTATED        0      1      1
  ERCC6 WILD-TYPE     64     83     99
D14V9, multiclass
[1] "Remove cluster labels:" "ERCC6 MUTATED"         
clus
  ERCC6 MUTATED ERCC6 WILD-TYPE 
              2             246 
     TCGA-04-1348      TCGA-04-1357      TCGA-04-1362      TCGA-04-1364 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-04-1365      TCGA-04-1514      TCGA-04-1519      TCGA-09-0364 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-09-0366      TCGA-09-0369      TCGA-09-1659      TCGA-09-1662 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-09-1666      TCGA-09-1669      TCGA-09-1670      TCGA-09-1673 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-09-1674      TCGA-09-2044      TCGA-09-2045      TCGA-09-2051 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-09-2056      TCGA-10-0928      TCGA-13-0730      TCGA-13-0800 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-13-0801      TCGA-13-0890      TCGA-13-0893      TCGA-13-0897 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-13-0899      TCGA-13-0913      TCGA-13-0916      TCGA-13-0920 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-13-0924      TCGA-13-1403      TCGA-13-1405      TCGA-13-1410 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-13-1411      TCGA-13-1481      TCGA-13-1497      TCGA-13-1498 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-13-1505      TCGA-13-1506      TCGA-13-1507      TCGA-13-1512 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-13-2060      TCGA-20-1682      TCGA-20-1683      TCGA-20-1684 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-20-1685      TCGA-20-1687      TCGA-23-1023      TCGA-23-1026 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-23-1027      TCGA-23-1029      TCGA-23-1109      TCGA-23-1111 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-23-1114      TCGA-23-1120      TCGA-23-1122      TCGA-23-1123 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-23-1809      TCGA-23-2077      TCGA-23-2078      TCGA-23-2081 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-24-0975      TCGA-24-1103      TCGA-24-1413      TCGA-24-1416 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-24-1417      TCGA-24-1418      TCGA-24-1419      TCGA-24-1423 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-24-1424      TCGA-24-1425      TCGA-24-1427      TCGA-24-1428 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-24-1434      TCGA-24-1435      TCGA-24-1436      TCGA-24-1463 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-24-1469      TCGA-24-1474      TCGA-24-1544      TCGA-24-1545 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-24-1546      TCGA-24-1548      TCGA-24-1549      TCGA-24-1551 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-24-1552      TCGA-24-1553      TCGA-24-1555      TCGA-24-1556 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-24-1557      TCGA-24-1558      TCGA-24-1560      TCGA-24-1562 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-24-1563      TCGA-24-1564      TCGA-24-1567      TCGA-24-1603 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-24-1604      TCGA-24-1616      TCGA-24-1842      TCGA-24-1843 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-24-1844      TCGA-24-1846      TCGA-24-1847      TCGA-24-1849 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-24-1850      TCGA-24-2019      TCGA-24-2024      TCGA-24-2035 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-24-2038      TCGA-24-2254      TCGA-24-2261      TCGA-24-2262 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-24-2267      TCGA-24-2271      TCGA-24-2281      TCGA-24-2288 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-24-2289      TCGA-24-2290      TCGA-24-2293      TCGA-24-2298 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-25-1313      TCGA-25-1315      TCGA-25-1316      TCGA-25-1317 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-25-1318      TCGA-25-1319      TCGA-25-1320      TCGA-25-1321 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-25-1322      TCGA-25-1324      TCGA-25-1326      TCGA-25-1328 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-25-1329      TCGA-25-1623      TCGA-25-1625      TCGA-25-1626 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-25-1627      TCGA-25-1628      TCGA-25-1630      TCGA-25-1631 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-25-1632      TCGA-25-1633      TCGA-25-1634      TCGA-25-1635 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-25-2042      TCGA-25-2391      TCGA-25-2392      TCGA-25-2393 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-25-2396      TCGA-25-2398      TCGA-25-2399      TCGA-25-2400 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-25-2401      TCGA-25-2404      TCGA-25-2409      TCGA-29-1688 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-29-1690      TCGA-29-1691      TCGA-29-1693      TCGA-29-1694 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-29-1695      TCGA-29-1696      TCGA-29-1697      TCGA-29-1699 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-29-1701      TCGA-29-1702      TCGA-29-1703      TCGA-29-1705 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-29-1710      TCGA-29-1711      TCGA-29-1761      TCGA-29-1762 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-29-1763      TCGA-29-1770      TCGA-29-1776      TCGA-29-1778 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-29-1781      TCGA-29-1783      TCGA-29-1784      TCGA-29-1785 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-29-2427      TCGA-30-1718      TCGA-30-1855      TCGA-30-1857 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-30-1862      TCGA-30-1891      TCGA-31-1953      TCGA-31-1959 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-36-1568      TCGA-36-1569      TCGA-36-1570      TCGA-36-1571 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-36-1574      TCGA-36-1575      TCGA-36-1576      TCGA-36-1577 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-36-1578      TCGA-36-1580      TCGA-57-1582      TCGA-57-1583 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-57-1584      TCGA-57-1993      TCGA-59-2348      TCGA-59-2350 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-59-2351      TCGA-59-2352      TCGA-59-2354      TCGA-59-2355 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-59-2363      TCGA-61-1725      TCGA-61-1728      TCGA-61-1733 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-61-1736      TCGA-61-1737      TCGA-61-1738      TCGA-61-1740 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-61-1741      TCGA-61-1900      TCGA-61-1907      TCGA-61-1910 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-61-1914      TCGA-61-1919      TCGA-61-1995      TCGA-61-1998 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-61-2000      TCGA-61-2002      TCGA-61-2003      TCGA-61-2009 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-61-2012      TCGA-61-2016      TCGA-61-2088      TCGA-61-2092 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-61-2094      TCGA-61-2095      TCGA-61-2097      TCGA-61-2101 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-61-2102      TCGA-61-2104      TCGA-61-2109      TCGA-61-2110 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-61-2111      TCGA-61-2113 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ERCC6 MUTATED        1      0      1
  ERCC6 WILD-TYPE    121     43     82
D14V10, multiclass
[1] "Remove cluster labels:" "ERCC6 MUTATED"         
clus
  ERCC6 MUTATED ERCC6 WILD-TYPE 
              2             246 
     TCGA-04-1348      TCGA-04-1357      TCGA-04-1362      TCGA-04-1364 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-04-1365      TCGA-04-1514      TCGA-04-1519      TCGA-09-0364 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-09-0366      TCGA-09-0369      TCGA-09-1659      TCGA-09-1662 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-09-1666      TCGA-09-1669      TCGA-09-1670      TCGA-09-1673 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-09-1674      TCGA-09-2044      TCGA-09-2045      TCGA-09-2051 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-09-2056      TCGA-10-0928      TCGA-13-0730      TCGA-13-0800 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-13-0801      TCGA-13-0890      TCGA-13-0893      TCGA-13-0897 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-13-0899      TCGA-13-0913      TCGA-13-0916      TCGA-13-0920 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-13-0924      TCGA-13-1403      TCGA-13-1405      TCGA-13-1410 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-13-1411      TCGA-13-1481      TCGA-13-1497      TCGA-13-1498 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-13-1505      TCGA-13-1506      TCGA-13-1507      TCGA-13-1512 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-13-2060      TCGA-20-1682      TCGA-20-1683      TCGA-20-1684 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-20-1685      TCGA-20-1687      TCGA-23-1023      TCGA-23-1026 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-23-1027      TCGA-23-1029      TCGA-23-1109      TCGA-23-1111 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-23-1114      TCGA-23-1120      TCGA-23-1122      TCGA-23-1123 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-23-1809      TCGA-23-2077      TCGA-23-2078      TCGA-23-2081 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-24-0975      TCGA-24-1103      TCGA-24-1413      TCGA-24-1416 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-24-1417      TCGA-24-1418      TCGA-24-1419      TCGA-24-1423 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-24-1424      TCGA-24-1425      TCGA-24-1427      TCGA-24-1428 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-24-1434      TCGA-24-1435      TCGA-24-1436      TCGA-24-1463 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-24-1469      TCGA-24-1474      TCGA-24-1544      TCGA-24-1545 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-24-1546      TCGA-24-1548      TCGA-24-1549      TCGA-24-1551 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-24-1552      TCGA-24-1553      TCGA-24-1555      TCGA-24-1556 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-24-1557      TCGA-24-1558      TCGA-24-1560      TCGA-24-1562 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-24-1563      TCGA-24-1564      TCGA-24-1567      TCGA-24-1603 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-24-1604      TCGA-24-1616      TCGA-24-1842      TCGA-24-1843 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-24-1844      TCGA-24-1846      TCGA-24-1847      TCGA-24-1849 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-24-1850      TCGA-24-2019      TCGA-24-2024      TCGA-24-2035 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-24-2038      TCGA-24-2254      TCGA-24-2261      TCGA-24-2262 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-24-2267      TCGA-24-2271      TCGA-24-2281      TCGA-24-2288 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-24-2289      TCGA-24-2290      TCGA-24-2293      TCGA-24-2298 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-25-1313      TCGA-25-1315      TCGA-25-1316      TCGA-25-1317 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-25-1318      TCGA-25-1319      TCGA-25-1320      TCGA-25-1321 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-25-1322      TCGA-25-1324      TCGA-25-1326      TCGA-25-1328 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-25-1329      TCGA-25-1623      TCGA-25-1625      TCGA-25-1626 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-25-1627      TCGA-25-1628      TCGA-25-1630      TCGA-25-1631 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-25-1632      TCGA-25-1633      TCGA-25-1634      TCGA-25-1635 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-25-2042      TCGA-25-2391      TCGA-25-2392      TCGA-25-2393 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-25-2396      TCGA-25-2398      TCGA-25-2399      TCGA-25-2400 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-25-2401      TCGA-25-2404      TCGA-25-2409      TCGA-29-1688 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-29-1690      TCGA-29-1691      TCGA-29-1693      TCGA-29-1694 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-29-1695      TCGA-29-1696      TCGA-29-1697      TCGA-29-1699 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-29-1701      TCGA-29-1702      TCGA-29-1703      TCGA-29-1705 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-29-1710      TCGA-29-1711      TCGA-29-1761      TCGA-29-1762 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-29-1763      TCGA-29-1770      TCGA-29-1776      TCGA-29-1778 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-29-1781      TCGA-29-1783      TCGA-29-1784      TCGA-29-1785 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-29-2427      TCGA-30-1718      TCGA-30-1855      TCGA-30-1857 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-30-1862      TCGA-30-1891      TCGA-31-1953      TCGA-31-1959 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-36-1568      TCGA-36-1569      TCGA-36-1570      TCGA-36-1571 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-36-1574      TCGA-36-1575      TCGA-36-1576      TCGA-36-1577 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-36-1578      TCGA-36-1580      TCGA-57-1582      TCGA-57-1583 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-57-1584      TCGA-57-1993      TCGA-59-2348      TCGA-59-2350 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-59-2351      TCGA-59-2352      TCGA-59-2354      TCGA-59-2355 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-59-2363      TCGA-61-1725      TCGA-61-1728      TCGA-61-1733 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-61-1736      TCGA-61-1737      TCGA-61-1738      TCGA-61-1740 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-61-1741      TCGA-61-1900      TCGA-61-1907      TCGA-61-1910 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-61-1914      TCGA-61-1919      TCGA-61-1995      TCGA-61-1998 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-61-2000      TCGA-61-2002      TCGA-61-2003      TCGA-61-2009 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-61-2012      TCGA-61-2016      TCGA-61-2088      TCGA-61-2092 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-61-2094      TCGA-61-2095      TCGA-61-2097      TCGA-61-2101 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-61-2102      TCGA-61-2104      TCGA-61-2109      TCGA-61-2110 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
     TCGA-61-2111      TCGA-61-2113 
"ERCC6 WILD-TYPE" "ERCC6 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ERCC6 MUTATED        2      1      1
  ERCC6 WILD-TYPE     95    158    125
D14V11, multiclass
        clus
vv       ERCC6 MUTATED ERCC6 WILD-TYPE
  CLUS_1             2              95
  CLUS_2             1             158
  CLUS_3             1             125
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ERCC6 MUTATED        0      2      1      1
  ERCC6 WILD-TYPE     90     58    136     94
D14V12, multiclass
        clus
vv       ERCC6 MUTATED ERCC6 WILD-TYPE
  CLUS_1             0              90
  CLUS_2             2              58
  CLUS_3             1             136
  CLUS_4             1              94
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D14V13, binary
                 cls
clus              0 1
  ERCC6 MUTATED   0 0
  ERCC6 WILD-TYPE 9 5
[1] "tbl2"
                 cls
clus              [,1] [,2]
  ERCC6 MUTATED      0    0
  ERCC6 WILD-TYPE    9    5
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ERCC6 MUTATED        0      0      0      0      0      0
  ERCC6 WILD-TYPE      5      1      1      2      3      2
D14V14, multiclass

Clustering(15) Variable = IL21R MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  IL21R MUTATED        0      5      3
  IL21R WILD-TYPE    176    170    111
D15V1, multiclass
        clus
vv       IL21R MUTATED IL21R WILD-TYPE
  CLUS_1             0             176
  CLUS_2             5             170
  CLUS_3             3             111
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  IL21R MUTATED        3      5      0
  IL21R WILD-TYPE    256    131     70
D15V2, multiclass
        clus
vv       IL21R MUTATED IL21R WILD-TYPE
  CLUS_1             3             256
  CLUS_2             5             131
  CLUS_3             0              70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  IL21R MUTATED        3      4      1
  IL21R WILD-TYPE    131    135    191
D15V3, multiclass
        clus
vv       IL21R MUTATED IL21R WILD-TYPE
  CLUS_1             3             131
  CLUS_2             4             135
  CLUS_3             1             191
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_10 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  IL21R MUTATED        0       1      1      0      0      3      0      3
  IL21R WILD-TYPE     73      44     48     70     30     61     27     26
                 vv
clus              CLUS_8 CLUS_9
  IL21R MUTATED        0      0
  IL21R WILD-TYPE     39     39
D15V4, multiclass
         clus
vv        IL21R MUTATED IL21R WILD-TYPE
  CLUS_1              0              73
  CLUS_10             1              44
  CLUS_2              1              48
  CLUS_3              0              70
  CLUS_4              0              30
  CLUS_5              3              61
  CLUS_6              0              27
  CLUS_7              3              26
  CLUS_8              0              39
  CLUS_9              0              39
[1] 10  2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  IL21R MUTATED        0      5      3
  IL21R WILD-TYPE    137    160    150
D15V5, multiclass
        clus
vv       IL21R MUTATED IL21R WILD-TYPE
  CLUS_1             0             137
  CLUS_2             5             160
  CLUS_3             3             150
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  IL21R MUTATED        0      3      5
  IL21R WILD-TYPE    138    140    179
D15V6, multiclass
        clus
vv       IL21R MUTATED IL21R WILD-TYPE
  CLUS_1             0             138
  CLUS_2             3             140
  CLUS_3             5             179
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  IL21R MUTATED        3      3      2
  IL21R WILD-TYPE    124    148     59
D15V7, multiclass
        clus
vv       IL21R MUTATED IL21R WILD-TYPE
  CLUS_1             3             124
  CLUS_2             3             148
  CLUS_3             2              59
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  IL21R MUTATED        2      2      3      1
  IL21R WILD-TYPE    120     41     51    119
D15V8, multiclass
        clus
vv       IL21R MUTATED IL21R WILD-TYPE
  CLUS_1             2             120
  CLUS_2             2              41
  CLUS_3             3              51
  CLUS_4             1             119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  IL21R MUTATED        0      1      4
  IL21R WILD-TYPE     64     83     96
D15V9, multiclass
        clus
vv       IL21R MUTATED IL21R WILD-TYPE
  CLUS_1             0              64
  CLUS_2             1              83
  CLUS_3             4              96
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  IL21R MUTATED        1      0      4
  IL21R WILD-TYPE    121     43     79
D15V10, multiclass
        clus
vv       IL21R MUTATED IL21R WILD-TYPE
  CLUS_1             1             121
  CLUS_2             0              43
  CLUS_3             4              79
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  IL21R MUTATED        2      2      1
  IL21R WILD-TYPE     95    157    125
D15V11, multiclass
        clus
vv       IL21R MUTATED IL21R WILD-TYPE
  CLUS_1             2              95
  CLUS_2             2             157
  CLUS_3             1             125
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  IL21R MUTATED        1      1      3      0
  IL21R WILD-TYPE     89     59    134     95
D15V12, multiclass
        clus
vv       IL21R MUTATED IL21R WILD-TYPE
  CLUS_1             1              89
  CLUS_2             1              59
  CLUS_3             3             134
  CLUS_4             0              95
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D15V13, binary
                 cls
clus              0 1
  IL21R MUTATED   0 0
  IL21R WILD-TYPE 9 5
[1] "tbl2"
                 cls
clus              [,1] [,2]
  IL21R MUTATED      0    0
  IL21R WILD-TYPE    9    5
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  IL21R MUTATED        0      0      0      0      0      0
  IL21R WILD-TYPE      5      1      1      2      3      2
D15V14, multiclass

Clustering(16) Variable = PKD1L1 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PKD1L1 MUTATED        3      2      1
  PKD1L1 WILD-TYPE    173    173    113
D16V1, multiclass
        clus
vv       PKD1L1 MUTATED PKD1L1 WILD-TYPE
  CLUS_1              3              173
  CLUS_2              2              173
  CLUS_3              1              113
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PKD1L1 MUTATED        4      1      1
  PKD1L1 WILD-TYPE    255    135     69
D16V2, multiclass
        clus
vv       PKD1L1 MUTATED PKD1L1 WILD-TYPE
  CLUS_1              4              255
  CLUS_2              1              135
  CLUS_3              1               69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PKD1L1 MUTATED        3      1      2
  PKD1L1 WILD-TYPE    131    138    190
D16V3, multiclass
        clus
vv       PKD1L1 MUTATED PKD1L1 WILD-TYPE
  CLUS_1              3              131
  CLUS_2              1              138
  CLUS_3              2              190
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_10 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  PKD1L1 MUTATED        3       0      2      1      0      0      0      0
  PKD1L1 WILD-TYPE     70      45     47     69     30     64     27     29
                  vv
clus               CLUS_8 CLUS_9
  PKD1L1 MUTATED        0      0
  PKD1L1 WILD-TYPE     39     39
D16V4, multiclass
         clus
vv        PKD1L1 MUTATED PKD1L1 WILD-TYPE
  CLUS_1               3               70
  CLUS_10              0               45
  CLUS_2               2               47
  CLUS_3               1               69
  CLUS_4               0               30
  CLUS_5               0               64
  CLUS_6               0               27
  CLUS_7               0               29
  CLUS_8               0               39
  CLUS_9               0               39
[1] 10  2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PKD1L1 MUTATED        0      2      4
  PKD1L1 WILD-TYPE    137    163    149
D16V5, multiclass
        clus
vv       PKD1L1 MUTATED PKD1L1 WILD-TYPE
  CLUS_1              0              137
  CLUS_2              2              163
  CLUS_3              4              149
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PKD1L1 MUTATED        4      2      0
  PKD1L1 WILD-TYPE    134    141    184
D16V6, multiclass
        clus
vv       PKD1L1 MUTATED PKD1L1 WILD-TYPE
  CLUS_1              4              134
  CLUS_2              2              141
  CLUS_3              0              184
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PKD1L1 MUTATED        0      3      1
  PKD1L1 WILD-TYPE    127    148     60
D16V7, multiclass
        clus
vv       PKD1L1 MUTATED PKD1L1 WILD-TYPE
  CLUS_1              0              127
  CLUS_2              3              148
  CLUS_3              1               60
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PKD1L1 MUTATED        0      1      0      3
  PKD1L1 WILD-TYPE    122     42     54    117
D16V8, multiclass
        clus
vv       PKD1L1 MUTATED PKD1L1 WILD-TYPE
  CLUS_1              0              122
  CLUS_2              1               42
  CLUS_3              0               54
  CLUS_4              3              117
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PKD1L1 MUTATED        1      2      1
  PKD1L1 WILD-TYPE     63     82     99
D16V9, multiclass
        clus
vv       PKD1L1 MUTATED PKD1L1 WILD-TYPE
  CLUS_1              1               63
  CLUS_2              2               82
  CLUS_3              1               99
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PKD1L1 MUTATED        3      1      0
  PKD1L1 WILD-TYPE    119     42     83
D16V10, multiclass
        clus
vv       PKD1L1 MUTATED PKD1L1 WILD-TYPE
  CLUS_1              3              119
  CLUS_2              1               42
  CLUS_3              0               83
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PKD1L1 MUTATED        0      3      3
  PKD1L1 WILD-TYPE     97    156    123
D16V11, multiclass
        clus
vv       PKD1L1 MUTATED PKD1L1 WILD-TYPE
  CLUS_1              0               97
  CLUS_2              3              156
  CLUS_3              3              123
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PKD1L1 MUTATED        0      2      2      2
  PKD1L1 WILD-TYPE     90     58    135     93
D16V12, multiclass
        clus
vv       PKD1L1 MUTATED PKD1L1 WILD-TYPE
  CLUS_1              0               90
  CLUS_2              2               58
  CLUS_3              2              135
  CLUS_4              2               93
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D16V13, binary
                  cls
clus               0 1
  PKD1L1 MUTATED   1 0
  PKD1L1 WILD-TYPE 8 5
[1] "tbl2"
                  cls
clus               [,1] [,2]
  PKD1L1 MUTATED      1    0
  PKD1L1 WILD-TYPE    8    5
        clus
vv       PKD1L1 MUTATED PKD1L1 WILD-TYPE
  CLUS_1              1                8
  CLUS_2              0                5
[1] 2 2
[1] FALSE
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PKD1L1 MUTATED        1      0      0      0      0      0
  PKD1L1 WILD-TYPE      4      1      1      2      3      2
D16V14, multiclass
[1] "Remove cluster labels:" "PKD1L1 MUTATED"        
clus
  PKD1L1 MUTATED PKD1L1 WILD-TYPE 
               1               13 
      TCGA-04-1652       TCGA-09-2050       TCGA-23-2077       TCGA-24-2288 
"PKD1L1 WILD-TYPE" "PKD1L1 WILD-TYPE" "PKD1L1 WILD-TYPE" "PKD1L1 WILD-TYPE" 
      TCGA-24-2289       TCGA-24-2290       TCGA-25-2392       TCGA-25-2399 
"PKD1L1 WILD-TYPE" "PKD1L1 WILD-TYPE" "PKD1L1 WILD-TYPE" "PKD1L1 WILD-TYPE" 
      TCGA-25-2404       TCGA-59-2363       TCGA-61-2088       TCGA-61-2109 
"PKD1L1 WILD-TYPE" "PKD1L1 WILD-TYPE" "PKD1L1 WILD-TYPE" "PKD1L1 WILD-TYPE" 
      TCGA-61-2111 
"PKD1L1 WILD-TYPE" 

Clustering(17) Variable = SAMD9L MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SAMD9L MUTATED        3      3      3
  SAMD9L WILD-TYPE    173    172    111
D17V1, multiclass
        clus
vv       SAMD9L MUTATED SAMD9L WILD-TYPE
  CLUS_1              3              173
  CLUS_2              3              172
  CLUS_3              3              111
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SAMD9L MUTATED        6      2      1
  SAMD9L WILD-TYPE    253    134     69
D17V2, multiclass
        clus
vv       SAMD9L MUTATED SAMD9L WILD-TYPE
  CLUS_1              6              253
  CLUS_2              2              134
  CLUS_3              1               69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SAMD9L MUTATED        2      4      3
  SAMD9L WILD-TYPE    132    135    189
D17V3, multiclass
        clus
vv       SAMD9L MUTATED SAMD9L WILD-TYPE
  CLUS_1              2              132
  CLUS_2              4              135
  CLUS_3              3              189
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_10 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  SAMD9L MUTATED        1       1      2      1      0      2      0      0
  SAMD9L WILD-TYPE     72      44     47     69     30     62     27     29
                  vv
clus               CLUS_8 CLUS_9
  SAMD9L MUTATED        1      1
  SAMD9L WILD-TYPE     38     38
D17V4, multiclass
         clus
vv        SAMD9L MUTATED SAMD9L WILD-TYPE
  CLUS_1               1               72
  CLUS_10              1               44
  CLUS_2               2               47
  CLUS_3               1               69
  CLUS_4               0               30
  CLUS_5               2               62
  CLUS_6               0               27
  CLUS_7               0               29
  CLUS_8               1               38
  CLUS_9               1               38
[1] 10  2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SAMD9L MUTATED        2      3      4
  SAMD9L WILD-TYPE    135    162    149
D17V5, multiclass
        clus
vv       SAMD9L MUTATED SAMD9L WILD-TYPE
  CLUS_1              2              135
  CLUS_2              3              162
  CLUS_3              4              149
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SAMD9L MUTATED        3      3      3
  SAMD9L WILD-TYPE    135    140    181
D17V6, multiclass
        clus
vv       SAMD9L MUTATED SAMD9L WILD-TYPE
  CLUS_1              3              135
  CLUS_2              3              140
  CLUS_3              3              181
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SAMD9L MUTATED        2      2      4
  SAMD9L WILD-TYPE    125    149     57
D17V7, multiclass
        clus
vv       SAMD9L MUTATED SAMD9L WILD-TYPE
  CLUS_1              2              125
  CLUS_2              2              149
  CLUS_3              4               57
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SAMD9L MUTATED        5      1      1      1
  SAMD9L WILD-TYPE    117     42     53    119
D17V8, multiclass
        clus
vv       SAMD9L MUTATED SAMD9L WILD-TYPE
  CLUS_1              5              117
  CLUS_2              1               42
  CLUS_3              1               53
  CLUS_4              1              119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SAMD9L MUTATED        1      1      3
  SAMD9L WILD-TYPE     63     83     97
D17V9, multiclass
        clus
vv       SAMD9L MUTATED SAMD9L WILD-TYPE
  CLUS_1              1               63
  CLUS_2              1               83
  CLUS_3              3               97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SAMD9L MUTATED        4      0      1
  SAMD9L WILD-TYPE    118     43     82
D17V10, multiclass
        clus
vv       SAMD9L MUTATED SAMD9L WILD-TYPE
  CLUS_1              4              118
  CLUS_2              0               43
  CLUS_3              1               82
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  SAMD9L MUTATED        2      3      2
  SAMD9L WILD-TYPE     95    156    124
D17V11, multiclass
        clus
vv       SAMD9L MUTATED SAMD9L WILD-TYPE
  CLUS_1              2               95
  CLUS_2              3              156
  CLUS_3              2              124
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SAMD9L MUTATED        1      1      3      2
  SAMD9L WILD-TYPE     89     59    134     93
D17V12, multiclass
        clus
vv       SAMD9L MUTATED SAMD9L WILD-TYPE
  CLUS_1              1               89
  CLUS_2              1               59
  CLUS_3              3              134
  CLUS_4              2               93
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D17V13, binary
                  cls
clus               0 1
  SAMD9L MUTATED   1 0
  SAMD9L WILD-TYPE 8 5
[1] "tbl2"
                  cls
clus               [,1] [,2]
  SAMD9L MUTATED      1    0
  SAMD9L WILD-TYPE    8    5
        clus
vv       SAMD9L MUTATED SAMD9L WILD-TYPE
  CLUS_1              1                8
  CLUS_2              0                5
[1] 2 2
[1] FALSE
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SAMD9L MUTATED        1      0      0      0      0      0
  SAMD9L WILD-TYPE      4      1      1      2      3      2
D17V14, multiclass
[1] "Remove cluster labels:" "SAMD9L MUTATED"        
clus
  SAMD9L MUTATED SAMD9L WILD-TYPE 
               1               13 
      TCGA-04-1652       TCGA-09-2050       TCGA-23-2077       TCGA-24-2288 
"SAMD9L WILD-TYPE" "SAMD9L WILD-TYPE" "SAMD9L WILD-TYPE" "SAMD9L WILD-TYPE" 
      TCGA-24-2289       TCGA-24-2290       TCGA-25-2392       TCGA-25-2399 
"SAMD9L WILD-TYPE" "SAMD9L WILD-TYPE" "SAMD9L WILD-TYPE" "SAMD9L WILD-TYPE" 
      TCGA-25-2404       TCGA-59-2363       TCGA-61-2088       TCGA-61-2109 
"SAMD9L WILD-TYPE" "SAMD9L WILD-TYPE" "SAMD9L WILD-TYPE" "SAMD9L WILD-TYPE" 
      TCGA-61-2111 
"SAMD9L WILD-TYPE" 

Clustering(18) Variable = AQP2 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  AQP2 MUTATED        1      0      2
  AQP2 WILD-TYPE    175    175    112
D18V1, multiclass
        clus
vv       AQP2 MUTATED AQP2 WILD-TYPE
  CLUS_1            1            175
  CLUS_2            0            175
  CLUS_3            2            112
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  AQP2 MUTATED        0      2      1
  AQP2 WILD-TYPE    259    134     69
D18V2, multiclass
        clus
vv       AQP2 MUTATED AQP2 WILD-TYPE
  CLUS_1            0            259
  CLUS_2            2            134
  CLUS_3            1             69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  AQP2 MUTATED        2      0      1
  AQP2 WILD-TYPE    132    139    191
D18V3, multiclass
        clus
vv       AQP2 MUTATED AQP2 WILD-TYPE
  CLUS_1            2            132
  CLUS_2            0            139
  CLUS_3            1            191
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_10 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  AQP2 MUTATED        1       1      0      0      0      0      0      0
  AQP2 WILD-TYPE     72      44     49     70     30     64     27     29
                vv
clus             CLUS_8 CLUS_9
  AQP2 MUTATED        1      0
  AQP2 WILD-TYPE     38     39
D18V4, multiclass
         clus
vv        AQP2 MUTATED AQP2 WILD-TYPE
  CLUS_1             1             72
  CLUS_10            1             44
  CLUS_2             0             49
  CLUS_3             0             70
  CLUS_4             0             30
  CLUS_5             0             64
  CLUS_6             0             27
  CLUS_7             0             29
  CLUS_8             1             38
  CLUS_9             0             39
[1] 10  2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  AQP2 MUTATED        1      0      2
  AQP2 WILD-TYPE    136    165    151
D18V5, multiclass
        clus
vv       AQP2 MUTATED AQP2 WILD-TYPE
  CLUS_1            1            136
  CLUS_2            0            165
  CLUS_3            2            151
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  AQP2 MUTATED        2      0      1
  AQP2 WILD-TYPE    136    143    183
D18V6, multiclass
        clus
vv       AQP2 MUTATED AQP2 WILD-TYPE
  CLUS_1            2            136
  CLUS_2            0            143
  CLUS_3            1            183
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  AQP2 MUTATED        2      1      0
  AQP2 WILD-TYPE    125    150     61
D18V7, multiclass
        clus
vv       AQP2 MUTATED AQP2 WILD-TYPE
  CLUS_1            2            125
  CLUS_2            1            150
  CLUS_3            0             61
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  AQP2 MUTATED        2      0      0      1
  AQP2 WILD-TYPE    120     43     54    119
D18V8, multiclass
        clus
vv       AQP2 MUTATED AQP2 WILD-TYPE
  CLUS_1            2            120
  CLUS_2            0             43
  CLUS_3            0             54
  CLUS_4            1            119
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  AQP2 MUTATED        0      0      1
  AQP2 WILD-TYPE     64     84     99
D18V9, multiclass
[1] "Remove cluster labels:" "AQP2 MUTATED"          
clus
  AQP2 MUTATED AQP2 WILD-TYPE 
             1            247 
    TCGA-04-1348     TCGA-04-1357     TCGA-04-1362     TCGA-04-1364 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-04-1365     TCGA-04-1514     TCGA-04-1519     TCGA-09-0364 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-09-0366     TCGA-09-0369     TCGA-09-1659     TCGA-09-1662 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-09-1666     TCGA-09-1669     TCGA-09-1670     TCGA-09-1673 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-09-1674     TCGA-09-2044     TCGA-09-2045     TCGA-09-2051 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-09-2056     TCGA-10-0928     TCGA-13-0730     TCGA-13-0800 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-13-0801     TCGA-13-0890     TCGA-13-0893     TCGA-13-0897 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-13-0899     TCGA-13-0913     TCGA-13-0916     TCGA-13-0920 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-13-0924     TCGA-13-1403     TCGA-13-1405     TCGA-13-1410 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-13-1411     TCGA-13-1481     TCGA-13-1497     TCGA-13-1498 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-13-1505     TCGA-13-1506     TCGA-13-1507     TCGA-13-1512 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-13-2060     TCGA-20-1682     TCGA-20-1683     TCGA-20-1684 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-20-1685     TCGA-20-1687     TCGA-23-1023     TCGA-23-1026 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-23-1027     TCGA-23-1029     TCGA-23-1109     TCGA-23-1111 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-23-1114     TCGA-23-1120     TCGA-23-1122     TCGA-23-1123 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-23-1809     TCGA-23-2077     TCGA-23-2078     TCGA-23-2081 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-24-0975     TCGA-24-1103     TCGA-24-1413     TCGA-24-1416 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-24-1417     TCGA-24-1418     TCGA-24-1419     TCGA-24-1423 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-24-1424     TCGA-24-1425     TCGA-24-1427     TCGA-24-1428 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-24-1434     TCGA-24-1435     TCGA-24-1436     TCGA-24-1463 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-24-1469     TCGA-24-1474     TCGA-24-1544     TCGA-24-1545 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-24-1546     TCGA-24-1548     TCGA-24-1549     TCGA-24-1551 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-24-1552     TCGA-24-1553     TCGA-24-1555     TCGA-24-1556 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-24-1557     TCGA-24-1558     TCGA-24-1560     TCGA-24-1562 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-24-1563     TCGA-24-1564     TCGA-24-1567     TCGA-24-1603 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-24-1604     TCGA-24-1616     TCGA-24-1842     TCGA-24-1843 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-24-1844     TCGA-24-1846     TCGA-24-1847     TCGA-24-1849 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-24-1850     TCGA-24-2019     TCGA-24-2024     TCGA-24-2035 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-24-2038     TCGA-24-2254     TCGA-24-2261     TCGA-24-2262 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-24-2267     TCGA-24-2271     TCGA-24-2281     TCGA-24-2288 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-24-2289     TCGA-24-2290     TCGA-24-2293     TCGA-24-2298 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-25-1313     TCGA-25-1315     TCGA-25-1316     TCGA-25-1317 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-25-1318     TCGA-25-1319     TCGA-25-1320     TCGA-25-1321 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-25-1322     TCGA-25-1324     TCGA-25-1326     TCGA-25-1328 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-25-1329     TCGA-25-1623     TCGA-25-1625     TCGA-25-1626 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-25-1627     TCGA-25-1628     TCGA-25-1630     TCGA-25-1631 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-25-1632     TCGA-25-1633     TCGA-25-1634     TCGA-25-1635 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-25-2042     TCGA-25-2391     TCGA-25-2392     TCGA-25-2393 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-25-2396     TCGA-25-2398     TCGA-25-2399     TCGA-25-2400 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-25-2401     TCGA-25-2404     TCGA-25-2409     TCGA-29-1688 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-29-1690     TCGA-29-1691     TCGA-29-1693     TCGA-29-1694 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-29-1696     TCGA-29-1697     TCGA-29-1698     TCGA-29-1699 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-29-1701     TCGA-29-1702     TCGA-29-1703     TCGA-29-1705 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-29-1710     TCGA-29-1711     TCGA-29-1761     TCGA-29-1762 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-29-1763     TCGA-29-1770     TCGA-29-1776     TCGA-29-1778 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-29-1781     TCGA-29-1783     TCGA-29-1784     TCGA-29-1785 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-29-2427     TCGA-30-1718     TCGA-30-1855     TCGA-30-1857 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-30-1862     TCGA-30-1891     TCGA-31-1953     TCGA-31-1959 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-36-1568     TCGA-36-1569     TCGA-36-1570     TCGA-36-1571 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-36-1574     TCGA-36-1575     TCGA-36-1576     TCGA-36-1577 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-36-1578     TCGA-36-1580     TCGA-57-1582     TCGA-57-1583 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-57-1584     TCGA-57-1993     TCGA-59-2348     TCGA-59-2350 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-59-2351     TCGA-59-2352     TCGA-59-2354     TCGA-59-2355 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-59-2363     TCGA-61-1725     TCGA-61-1728     TCGA-61-1733 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-61-1736     TCGA-61-1737     TCGA-61-1738     TCGA-61-1740 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-61-1741     TCGA-61-1900     TCGA-61-1907     TCGA-61-1910 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-61-1914     TCGA-61-1919     TCGA-61-1995     TCGA-61-1998 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-61-2000     TCGA-61-2002     TCGA-61-2003     TCGA-61-2008 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-61-2009     TCGA-61-2012     TCGA-61-2016     TCGA-61-2088 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-61-2092     TCGA-61-2094     TCGA-61-2095     TCGA-61-2097 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-61-2101     TCGA-61-2102     TCGA-61-2104     TCGA-61-2109 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-61-2110     TCGA-61-2111     TCGA-61-2113 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  AQP2 MUTATED        0      0      1
  AQP2 WILD-TYPE    122     43     82
D18V10, multiclass
[1] "Remove cluster labels:" "AQP2 MUTATED"          
clus
  AQP2 MUTATED AQP2 WILD-TYPE 
             1            247 
    TCGA-04-1348     TCGA-04-1357     TCGA-04-1362     TCGA-04-1364 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-04-1365     TCGA-04-1514     TCGA-04-1519     TCGA-09-0364 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-09-0366     TCGA-09-0369     TCGA-09-1659     TCGA-09-1662 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-09-1666     TCGA-09-1669     TCGA-09-1670     TCGA-09-1673 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-09-1674     TCGA-09-2044     TCGA-09-2045     TCGA-09-2051 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-09-2056     TCGA-10-0928     TCGA-13-0730     TCGA-13-0800 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-13-0801     TCGA-13-0890     TCGA-13-0893     TCGA-13-0897 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-13-0899     TCGA-13-0913     TCGA-13-0916     TCGA-13-0920 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-13-0924     TCGA-13-1403     TCGA-13-1405     TCGA-13-1410 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-13-1411     TCGA-13-1481     TCGA-13-1497     TCGA-13-1498 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-13-1505     TCGA-13-1506     TCGA-13-1507     TCGA-13-1512 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-13-2060     TCGA-20-1682     TCGA-20-1683     TCGA-20-1684 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-20-1685     TCGA-20-1687     TCGA-23-1023     TCGA-23-1026 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-23-1027     TCGA-23-1029     TCGA-23-1109     TCGA-23-1111 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-23-1114     TCGA-23-1120     TCGA-23-1122     TCGA-23-1123 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-23-1809     TCGA-23-2077     TCGA-23-2078     TCGA-23-2081 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-24-0975     TCGA-24-1103     TCGA-24-1413     TCGA-24-1416 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-24-1417     TCGA-24-1418     TCGA-24-1419     TCGA-24-1423 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-24-1424     TCGA-24-1425     TCGA-24-1427     TCGA-24-1428 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-24-1434     TCGA-24-1435     TCGA-24-1436     TCGA-24-1463 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-24-1469     TCGA-24-1474     TCGA-24-1544     TCGA-24-1545 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-24-1546     TCGA-24-1548     TCGA-24-1549     TCGA-24-1551 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-24-1552     TCGA-24-1553     TCGA-24-1555     TCGA-24-1556 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-24-1557     TCGA-24-1558     TCGA-24-1560     TCGA-24-1562 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-24-1563     TCGA-24-1564     TCGA-24-1567     TCGA-24-1603 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-24-1604     TCGA-24-1616     TCGA-24-1842     TCGA-24-1843 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-24-1844     TCGA-24-1846     TCGA-24-1847     TCGA-24-1849 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-24-1850     TCGA-24-2019     TCGA-24-2024     TCGA-24-2035 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-24-2038     TCGA-24-2254     TCGA-24-2261     TCGA-24-2262 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-24-2267     TCGA-24-2271     TCGA-24-2281     TCGA-24-2288 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-24-2289     TCGA-24-2290     TCGA-24-2293     TCGA-24-2298 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-25-1313     TCGA-25-1315     TCGA-25-1316     TCGA-25-1317 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-25-1318     TCGA-25-1319     TCGA-25-1320     TCGA-25-1321 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-25-1322     TCGA-25-1324     TCGA-25-1326     TCGA-25-1328 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-25-1329     TCGA-25-1623     TCGA-25-1625     TCGA-25-1626 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-25-1627     TCGA-25-1628     TCGA-25-1630     TCGA-25-1631 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-25-1632     TCGA-25-1633     TCGA-25-1634     TCGA-25-1635 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-25-2042     TCGA-25-2391     TCGA-25-2392     TCGA-25-2393 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-25-2396     TCGA-25-2398     TCGA-25-2399     TCGA-25-2400 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-25-2401     TCGA-25-2404     TCGA-25-2409     TCGA-29-1688 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-29-1690     TCGA-29-1691     TCGA-29-1693     TCGA-29-1694 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-29-1696     TCGA-29-1697     TCGA-29-1698     TCGA-29-1699 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-29-1701     TCGA-29-1702     TCGA-29-1703     TCGA-29-1705 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-29-1710     TCGA-29-1711     TCGA-29-1761     TCGA-29-1762 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-29-1763     TCGA-29-1770     TCGA-29-1776     TCGA-29-1778 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-29-1781     TCGA-29-1783     TCGA-29-1784     TCGA-29-1785 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-29-2427     TCGA-30-1718     TCGA-30-1855     TCGA-30-1857 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-30-1862     TCGA-30-1891     TCGA-31-1953     TCGA-31-1959 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-36-1568     TCGA-36-1569     TCGA-36-1570     TCGA-36-1571 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-36-1574     TCGA-36-1575     TCGA-36-1576     TCGA-36-1577 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-36-1578     TCGA-36-1580     TCGA-57-1582     TCGA-57-1583 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-57-1584     TCGA-57-1993     TCGA-59-2348     TCGA-59-2350 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-59-2351     TCGA-59-2352     TCGA-59-2354     TCGA-59-2355 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-59-2363     TCGA-61-1725     TCGA-61-1728     TCGA-61-1733 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-61-1736     TCGA-61-1737     TCGA-61-1738     TCGA-61-1740 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-61-1741     TCGA-61-1900     TCGA-61-1907     TCGA-61-1910 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-61-1914     TCGA-61-1919     TCGA-61-1995     TCGA-61-1998 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-61-2000     TCGA-61-2002     TCGA-61-2003     TCGA-61-2008 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-61-2009     TCGA-61-2012     TCGA-61-2016     TCGA-61-2088 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-61-2092     TCGA-61-2094     TCGA-61-2095     TCGA-61-2097 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-61-2101     TCGA-61-2102     TCGA-61-2104     TCGA-61-2109 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-61-2110     TCGA-61-2111     TCGA-61-2113 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  AQP2 MUTATED        1      0      0
  AQP2 WILD-TYPE     96    159    126
D18V11, multiclass
[1] "Remove cluster labels:" "AQP2 MUTATED"          
clus
  AQP2 MUTATED AQP2 WILD-TYPE 
             1            381 
    TCGA-04-1331     TCGA-04-1332     TCGA-04-1336     TCGA-04-1337 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-04-1342     TCGA-04-1346     TCGA-04-1347     TCGA-04-1348 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-04-1349     TCGA-04-1350     TCGA-04-1356     TCGA-04-1357 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-04-1361     TCGA-04-1362     TCGA-04-1364     TCGA-04-1365 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-04-1367     TCGA-04-1514     TCGA-04-1517     TCGA-04-1519 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-04-1525     TCGA-04-1530     TCGA-04-1542     TCGA-04-1638 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-04-1646     TCGA-04-1648     TCGA-04-1649     TCGA-04-1651 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-04-1652     TCGA-04-1655     TCGA-09-0364     TCGA-09-0366 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-09-1661     TCGA-09-1662     TCGA-09-1665     TCGA-09-1666 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-09-1669     TCGA-09-1670     TCGA-09-1673     TCGA-09-1674 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-09-2044     TCGA-09-2045     TCGA-09-2050     TCGA-09-2051 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-09-2053     TCGA-09-2056     TCGA-10-0926     TCGA-10-0927 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-10-0928     TCGA-10-0933     TCGA-10-0934     TCGA-13-0714 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-13-0720     TCGA-13-0723     TCGA-13-0724     TCGA-13-0751 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-13-0755     TCGA-13-0760     TCGA-13-0791     TCGA-13-0792 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-13-0800     TCGA-13-0801     TCGA-13-0802     TCGA-13-0883 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-13-0884     TCGA-13-0885     TCGA-13-0886     TCGA-13-0887 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-13-0889     TCGA-13-0890     TCGA-13-0891     TCGA-13-0893 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-13-0894     TCGA-13-0900     TCGA-13-0901     TCGA-13-0903 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-13-0904     TCGA-13-0905     TCGA-13-0906     TCGA-13-0910 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-13-0911     TCGA-13-0912     TCGA-13-0913     TCGA-13-0916 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-13-0919     TCGA-13-0920     TCGA-13-0923     TCGA-13-0924 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-13-1403     TCGA-13-1404     TCGA-13-1405     TCGA-13-1407 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-13-1408     TCGA-13-1409     TCGA-13-1410     TCGA-13-1411 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-13-1412     TCGA-13-1477     TCGA-13-1481     TCGA-13-1482 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-13-1483     TCGA-13-1484     TCGA-13-1487     TCGA-13-1488 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-13-1489     TCGA-13-1491     TCGA-13-1492     TCGA-13-1494 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-13-1495     TCGA-13-1496     TCGA-13-1497     TCGA-13-1498 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-13-1499     TCGA-13-1501     TCGA-13-1504     TCGA-13-1505 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-13-1506     TCGA-13-1507     TCGA-13-1509     TCGA-13-1510 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-13-1512     TCGA-13-2060     TCGA-20-0987     TCGA-20-0990 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-20-0991     TCGA-20-1682     TCGA-20-1683     TCGA-20-1684 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-20-1685     TCGA-20-1686     TCGA-20-1687     TCGA-23-1021 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-23-1022     TCGA-23-1023     TCGA-23-1026     TCGA-23-1027 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-23-1028     TCGA-23-1029     TCGA-23-1030     TCGA-23-1032 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-23-1107     TCGA-23-1109     TCGA-23-1110     TCGA-23-1111 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-23-1114     TCGA-23-1118     TCGA-23-1119     TCGA-23-1120 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-23-1122     TCGA-23-1123     TCGA-23-1124     TCGA-23-1809 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-23-2072     TCGA-23-2077     TCGA-23-2078     TCGA-23-2079 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-23-2081     TCGA-24-0966     TCGA-24-0968     TCGA-24-0970 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-24-0975     TCGA-24-0979     TCGA-24-0982     TCGA-24-1103 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-24-1104     TCGA-24-1105     TCGA-24-1413     TCGA-24-1416 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-24-1417     TCGA-24-1418     TCGA-24-1419     TCGA-24-1422 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-24-1423     TCGA-24-1424     TCGA-24-1425     TCGA-24-1426 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-24-1427     TCGA-24-1428     TCGA-24-1431     TCGA-24-1434 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-24-1435     TCGA-24-1436     TCGA-24-1463     TCGA-24-1464 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-24-1466     TCGA-24-1469     TCGA-24-1470     TCGA-24-1471 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-24-1474     TCGA-24-1544     TCGA-24-1545     TCGA-24-1546 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-24-1548     TCGA-24-1549     TCGA-24-1551     TCGA-24-1552 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-24-1553     TCGA-24-1555     TCGA-24-1556     TCGA-24-1557 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-24-1558     TCGA-24-1560     TCGA-24-1562     TCGA-24-1563 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-24-1564     TCGA-24-1565     TCGA-24-1567     TCGA-24-1603 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-24-1604     TCGA-24-1614     TCGA-24-1616     TCGA-24-1842 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-24-1843     TCGA-24-1844     TCGA-24-1845     TCGA-24-1846 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-24-1847     TCGA-24-1849     TCGA-24-1850     TCGA-24-2019 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-24-2024     TCGA-24-2030     TCGA-24-2035     TCGA-24-2038 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-24-2254     TCGA-24-2260     TCGA-24-2261     TCGA-24-2262 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-24-2267     TCGA-24-2271     TCGA-24-2280     TCGA-24-2281 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-24-2288     TCGA-24-2289     TCGA-24-2290     TCGA-24-2293 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-24-2298     TCGA-25-1313     TCGA-25-1315     TCGA-25-1316 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-25-1317     TCGA-25-1318     TCGA-25-1319     TCGA-25-1320 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-25-1321     TCGA-25-1322     TCGA-25-1324     TCGA-25-1325 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-25-1326     TCGA-25-1328     TCGA-25-1329     TCGA-25-1623 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-25-1625     TCGA-25-1626     TCGA-25-1627     TCGA-25-1628 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-25-1630     TCGA-25-1631     TCGA-25-1632     TCGA-25-1633 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-25-1634     TCGA-25-1635     TCGA-25-2042     TCGA-25-2391 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-25-2392     TCGA-25-2393     TCGA-25-2396     TCGA-25-2398 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-25-2399     TCGA-25-2400     TCGA-25-2401     TCGA-25-2404 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-25-2408     TCGA-25-2409     TCGA-29-1688     TCGA-29-1690 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-29-1691     TCGA-29-1693     TCGA-29-1694     TCGA-29-1696 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-29-1697     TCGA-29-1698     TCGA-29-1699     TCGA-29-1701 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-29-1702     TCGA-29-1703     TCGA-29-1705     TCGA-29-1707 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-29-1710     TCGA-29-1711     TCGA-29-1761     TCGA-29-1762 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-29-1763     TCGA-29-1764     TCGA-29-1766     TCGA-29-1768 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-29-1769     TCGA-29-1770     TCGA-29-1771     TCGA-29-1774 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-29-1776     TCGA-29-1777     TCGA-29-1778     TCGA-29-1781 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-29-1783     TCGA-29-1784     TCGA-29-1785     TCGA-29-2427 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-30-1714     TCGA-30-1718     TCGA-30-1853     TCGA-30-1855 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-30-1856     TCGA-30-1857     TCGA-30-1862     TCGA-30-1891 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-31-1953     TCGA-31-1959     TCGA-36-1568     TCGA-36-1569 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-36-1570     TCGA-36-1571     TCGA-36-1574     TCGA-36-1575 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-36-1576     TCGA-36-1577     TCGA-36-1578     TCGA-36-1580 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-57-1582     TCGA-57-1583     TCGA-57-1584     TCGA-57-1586 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-57-1993     TCGA-59-2348     TCGA-59-2350     TCGA-59-2351 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-59-2352     TCGA-59-2354     TCGA-59-2355     TCGA-59-2363 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-61-1725     TCGA-61-1728     TCGA-61-1733     TCGA-61-1736 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-61-1737     TCGA-61-1738     TCGA-61-1740     TCGA-61-1741 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-61-1895     TCGA-61-1899     TCGA-61-1900     TCGA-61-1901 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-61-1906     TCGA-61-1907     TCGA-61-1910     TCGA-61-1911 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-61-1913     TCGA-61-1914     TCGA-61-1915     TCGA-61-1919 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-61-1995     TCGA-61-1998     TCGA-61-2000     TCGA-61-2002 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-61-2003     TCGA-61-2008     TCGA-61-2009     TCGA-61-2012 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-61-2016     TCGA-61-2088     TCGA-61-2092     TCGA-61-2094 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-61-2095     TCGA-61-2097     TCGA-61-2101     TCGA-61-2102 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-61-2104     TCGA-61-2109     TCGA-61-2110     TCGA-61-2111 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-61-2113 
"AQP2 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  AQP2 MUTATED        0      0      1      0
  AQP2 WILD-TYPE     90     60    136     95
D18V12, multiclass
[1] "Remove cluster labels:" "AQP2 MUTATED"          
clus
  AQP2 MUTATED AQP2 WILD-TYPE 
             1            381 
    TCGA-04-1331     TCGA-04-1332     TCGA-04-1336     TCGA-04-1337 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-04-1342     TCGA-04-1346     TCGA-04-1347     TCGA-04-1348 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-04-1349     TCGA-04-1350     TCGA-04-1356     TCGA-04-1357 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-04-1361     TCGA-04-1362     TCGA-04-1364     TCGA-04-1365 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-04-1367     TCGA-04-1514     TCGA-04-1517     TCGA-04-1519 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-04-1525     TCGA-04-1530     TCGA-04-1542     TCGA-04-1638 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-04-1646     TCGA-04-1648     TCGA-04-1649     TCGA-04-1651 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-04-1652     TCGA-04-1655     TCGA-09-0364     TCGA-09-0366 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-09-1661     TCGA-09-1662     TCGA-09-1665     TCGA-09-1666 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-09-1669     TCGA-09-1670     TCGA-09-1673     TCGA-09-1674 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-09-2044     TCGA-09-2045     TCGA-09-2050     TCGA-09-2051 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-09-2053     TCGA-09-2056     TCGA-10-0926     TCGA-10-0927 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-10-0928     TCGA-10-0933     TCGA-10-0934     TCGA-13-0714 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-13-0720     TCGA-13-0723     TCGA-13-0724     TCGA-13-0751 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-13-0755     TCGA-13-0760     TCGA-13-0791     TCGA-13-0792 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-13-0800     TCGA-13-0801     TCGA-13-0802     TCGA-13-0883 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-13-0884     TCGA-13-0885     TCGA-13-0886     TCGA-13-0887 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-13-0889     TCGA-13-0890     TCGA-13-0891     TCGA-13-0893 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-13-0894     TCGA-13-0900     TCGA-13-0901     TCGA-13-0903 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-13-0904     TCGA-13-0905     TCGA-13-0906     TCGA-13-0910 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-13-0911     TCGA-13-0912     TCGA-13-0913     TCGA-13-0916 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-13-0919     TCGA-13-0920     TCGA-13-0923     TCGA-13-0924 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-13-1403     TCGA-13-1404     TCGA-13-1405     TCGA-13-1407 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-13-1408     TCGA-13-1409     TCGA-13-1410     TCGA-13-1411 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-13-1412     TCGA-13-1477     TCGA-13-1481     TCGA-13-1482 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-13-1483     TCGA-13-1484     TCGA-13-1487     TCGA-13-1488 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-13-1489     TCGA-13-1491     TCGA-13-1492     TCGA-13-1494 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-13-1495     TCGA-13-1496     TCGA-13-1497     TCGA-13-1498 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-13-1499     TCGA-13-1501     TCGA-13-1504     TCGA-13-1505 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-13-1506     TCGA-13-1507     TCGA-13-1509     TCGA-13-1510 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-13-1512     TCGA-13-2060     TCGA-20-0987     TCGA-20-0990 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-20-0991     TCGA-20-1682     TCGA-20-1683     TCGA-20-1684 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-20-1685     TCGA-20-1686     TCGA-20-1687     TCGA-23-1021 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-23-1022     TCGA-23-1023     TCGA-23-1026     TCGA-23-1027 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-23-1028     TCGA-23-1029     TCGA-23-1030     TCGA-23-1032 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-23-1107     TCGA-23-1109     TCGA-23-1110     TCGA-23-1111 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-23-1114     TCGA-23-1118     TCGA-23-1119     TCGA-23-1120 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-23-1122     TCGA-23-1123     TCGA-23-1124     TCGA-23-1809 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-23-2072     TCGA-23-2077     TCGA-23-2078     TCGA-23-2079 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-23-2081     TCGA-24-0966     TCGA-24-0968     TCGA-24-0970 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-24-0975     TCGA-24-0979     TCGA-24-0982     TCGA-24-1103 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-24-1104     TCGA-24-1105     TCGA-24-1413     TCGA-24-1416 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-24-1417     TCGA-24-1418     TCGA-24-1419     TCGA-24-1422 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-24-1423     TCGA-24-1424     TCGA-24-1425     TCGA-24-1426 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-24-1427     TCGA-24-1428     TCGA-24-1431     TCGA-24-1434 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-24-1435     TCGA-24-1436     TCGA-24-1463     TCGA-24-1464 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-24-1466     TCGA-24-1469     TCGA-24-1470     TCGA-24-1471 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-24-1474     TCGA-24-1544     TCGA-24-1545     TCGA-24-1546 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-24-1548     TCGA-24-1549     TCGA-24-1551     TCGA-24-1552 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-24-1553     TCGA-24-1555     TCGA-24-1556     TCGA-24-1557 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-24-1558     TCGA-24-1560     TCGA-24-1562     TCGA-24-1563 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-24-1564     TCGA-24-1565     TCGA-24-1567     TCGA-24-1603 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-24-1604     TCGA-24-1614     TCGA-24-1616     TCGA-24-1842 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-24-1843     TCGA-24-1844     TCGA-24-1845     TCGA-24-1846 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-24-1847     TCGA-24-1849     TCGA-24-1850     TCGA-24-2019 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-24-2024     TCGA-24-2030     TCGA-24-2035     TCGA-24-2038 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-24-2254     TCGA-24-2260     TCGA-24-2261     TCGA-24-2262 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-24-2267     TCGA-24-2271     TCGA-24-2280     TCGA-24-2281 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-24-2288     TCGA-24-2289     TCGA-24-2290     TCGA-24-2293 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-24-2298     TCGA-25-1313     TCGA-25-1315     TCGA-25-1316 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-25-1317     TCGA-25-1318     TCGA-25-1319     TCGA-25-1320 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-25-1321     TCGA-25-1322     TCGA-25-1324     TCGA-25-1325 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-25-1326     TCGA-25-1328     TCGA-25-1329     TCGA-25-1623 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-25-1625     TCGA-25-1626     TCGA-25-1627     TCGA-25-1628 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-25-1630     TCGA-25-1631     TCGA-25-1632     TCGA-25-1633 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-25-1634     TCGA-25-1635     TCGA-25-2042     TCGA-25-2391 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-25-2392     TCGA-25-2393     TCGA-25-2396     TCGA-25-2398 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-25-2399     TCGA-25-2400     TCGA-25-2401     TCGA-25-2404 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-25-2408     TCGA-25-2409     TCGA-29-1688     TCGA-29-1690 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-29-1691     TCGA-29-1693     TCGA-29-1694     TCGA-29-1696 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-29-1697     TCGA-29-1698     TCGA-29-1699     TCGA-29-1701 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-29-1702     TCGA-29-1703     TCGA-29-1705     TCGA-29-1707 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-29-1710     TCGA-29-1711     TCGA-29-1761     TCGA-29-1762 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-29-1763     TCGA-29-1764     TCGA-29-1766     TCGA-29-1768 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-29-1769     TCGA-29-1770     TCGA-29-1771     TCGA-29-1774 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-29-1776     TCGA-29-1777     TCGA-29-1778     TCGA-29-1781 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-29-1783     TCGA-29-1784     TCGA-29-1785     TCGA-29-2427 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-30-1714     TCGA-30-1718     TCGA-30-1853     TCGA-30-1855 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-30-1856     TCGA-30-1857     TCGA-30-1862     TCGA-30-1891 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-31-1953     TCGA-31-1959     TCGA-36-1568     TCGA-36-1569 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-36-1570     TCGA-36-1571     TCGA-36-1574     TCGA-36-1575 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-36-1576     TCGA-36-1577     TCGA-36-1578     TCGA-36-1580 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-57-1582     TCGA-57-1583     TCGA-57-1584     TCGA-57-1586 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-57-1993     TCGA-59-2348     TCGA-59-2350     TCGA-59-2351 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-59-2352     TCGA-59-2354     TCGA-59-2355     TCGA-59-2363 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-61-1725     TCGA-61-1728     TCGA-61-1733     TCGA-61-1736 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-61-1737     TCGA-61-1738     TCGA-61-1740     TCGA-61-1741 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-61-1895     TCGA-61-1899     TCGA-61-1900     TCGA-61-1901 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-61-1906     TCGA-61-1907     TCGA-61-1910     TCGA-61-1911 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-61-1913     TCGA-61-1914     TCGA-61-1915     TCGA-61-1919 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-61-1995     TCGA-61-1998     TCGA-61-2000     TCGA-61-2002 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-61-2003     TCGA-61-2008     TCGA-61-2009     TCGA-61-2012 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-61-2016     TCGA-61-2088     TCGA-61-2092     TCGA-61-2094 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-61-2095     TCGA-61-2097     TCGA-61-2101     TCGA-61-2102 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-61-2104     TCGA-61-2109     TCGA-61-2110     TCGA-61-2111 
"AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" "AQP2 WILD-TYPE" 
    TCGA-61-2113 
"AQP2 WILD-TYPE" 
D18V13, binary
                cls
clus             0 1
  AQP2 MUTATED   0 0
  AQP2 WILD-TYPE 9 5
[1] "tbl2"
                cls
clus             [,1] [,2]
  AQP2 MUTATED      0    0
  AQP2 WILD-TYPE    9    5
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  AQP2 MUTATED        0      0      0      0      0      0
  AQP2 WILD-TYPE      5      1      1      2      3      2
D18V14, multiclass

Clustering(19) Variable = CREBBP MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CREBBP MUTATED        6      3      2
  CREBBP WILD-TYPE    170    172    112
D19V1, multiclass
        clus
vv       CREBBP MUTATED CREBBP WILD-TYPE
  CLUS_1              6              170
  CLUS_2              3              172
  CLUS_3              2              112
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CREBBP MUTATED        8      2      1
  CREBBP WILD-TYPE    251    134     69
D19V2, multiclass
        clus
vv       CREBBP MUTATED CREBBP WILD-TYPE
  CLUS_1              8              251
  CLUS_2              2              134
  CLUS_3              1               69
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CREBBP MUTATED        3      3      5
  CREBBP WILD-TYPE    131    136    187
D19V3, multiclass
        clus
vv       CREBBP MUTATED CREBBP WILD-TYPE
  CLUS_1              3              131
  CLUS_2              3              136
  CLUS_3              5              187
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_10 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  CREBBP MUTATED        1       3      1      2      1      0      1      1
  CREBBP WILD-TYPE     72      42     48     68     29     64     26     28
                  vv
clus               CLUS_8 CLUS_9
  CREBBP MUTATED        0      1
  CREBBP WILD-TYPE     39     38
D19V4, multiclass
         clus
vv        CREBBP MUTATED CREBBP WILD-TYPE
  CLUS_1               1               72
  CLUS_10              3               42
  CLUS_2               1               48
  CLUS_3               2               68
  CLUS_4               1               29
  CLUS_5               0               64
  CLUS_6               1               26
  CLUS_7               1               28
  CLUS_8               0               39
  CLUS_9               1               38
[1] 10  2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CREBBP MUTATED        3      3      5
  CREBBP WILD-TYPE    134    162    148
D19V5, multiclass
        clus
vv       CREBBP MUTATED CREBBP WILD-TYPE
  CLUS_1              3              134
  CLUS_2              3              162
  CLUS_3              5              148
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CREBBP MUTATED        4      2      5
  CREBBP WILD-TYPE    134    141    179
D19V6, multiclass
        clus
vv       CREBBP MUTATED CREBBP WILD-TYPE
  CLUS_1              4              134
  CLUS_2              2              141
  CLUS_3              5              179
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CREBBP MUTATED        4      5      0
  CREBBP WILD-TYPE    123    146     61
D19V7, multiclass
        clus
vv       CREBBP MUTATED CREBBP WILD-TYPE
  CLUS_1              4              123
  CLUS_2              5              146
  CLUS_3              0               61
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CREBBP MUTATED        4      1      2      2
  CREBBP WILD-TYPE    118     42     52    118
D19V8, multiclass
        clus
vv       CREBBP MUTATED CREBBP WILD-TYPE
  CLUS_1              4              118
  CLUS_2              1               42
  CLUS_3              2               52
  CLUS_4              2              118
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CREBBP MUTATED        0      2      3
  CREBBP WILD-TYPE     64     82     97
D19V9, multiclass
        clus
vv       CREBBP MUTATED CREBBP WILD-TYPE
  CLUS_1              0               64
  CLUS_2              2               82
  CLUS_3              3               97
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CREBBP MUTATED        4      0      1
  CREBBP WILD-TYPE    118     43     82
D19V10, multiclass
        clus
vv       CREBBP MUTATED CREBBP WILD-TYPE
  CLUS_1              4              118
  CLUS_2              0               43
  CLUS_3              1               82
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CREBBP MUTATED        2      4      3
  CREBBP WILD-TYPE     95    155    123
D19V11, multiclass
        clus
vv       CREBBP MUTATED CREBBP WILD-TYPE
  CLUS_1              2               95
  CLUS_2              4              155
  CLUS_3              3              123
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CREBBP MUTATED        2      0      4      3
  CREBBP WILD-TYPE     88     60    133     92
D19V12, multiclass
        clus
vv       CREBBP MUTATED CREBBP WILD-TYPE
  CLUS_1              2               88
  CLUS_2              0               60
  CLUS_3              4              133
  CLUS_4              3               92
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D19V13, binary
                  cls
clus               0 1
  CREBBP MUTATED   0 0
  CREBBP WILD-TYPE 9 5
[1] "tbl2"
                  cls
clus               [,1] [,2]
  CREBBP MUTATED      0    0
  CREBBP WILD-TYPE    9    5
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CREBBP MUTATED        0      0      0      0      0      0
  CREBBP WILD-TYPE      5      1      1      2      3      2
D19V14, multiclass

Clustering(20) Variable = C9ORF171 MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C9ORF171 MUTATED        0      0      5
  C9ORF171 WILD-TYPE    176    175    109
D20V1, multiclass
        clus
vv       C9ORF171 MUTATED C9ORF171 WILD-TYPE
  CLUS_1                0                176
  CLUS_2                0                175
  CLUS_3                5                109
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C9ORF171 MUTATED        0      5      0
  C9ORF171 WILD-TYPE    259    131     70
D20V2, multiclass
        clus
vv       C9ORF171 MUTATED C9ORF171 WILD-TYPE
  CLUS_1                0                259
  CLUS_2                5                131
  CLUS_3                0                 70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C9ORF171 MUTATED        3      1      1
  C9ORF171 WILD-TYPE    131    138    191
D20V3, multiclass
        clus
vv       C9ORF171 MUTATED C9ORF171 WILD-TYPE
  CLUS_1                3                131
  CLUS_2                1                138
  CLUS_3                1                191
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_10 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  C9ORF171 MUTATED        1       0      0      1      2      0      0      0
  C9ORF171 WILD-TYPE     72      45     49     69     28     64     27     29
                    vv
clus                 CLUS_8 CLUS_9
  C9ORF171 MUTATED        0      1
  C9ORF171 WILD-TYPE     39     38
D20V4, multiclass
         clus
vv        C9ORF171 MUTATED C9ORF171 WILD-TYPE
  CLUS_1                 1                 72
  CLUS_10                0                 45
  CLUS_2                 0                 49
  CLUS_3                 1                 69
  CLUS_4                 2                 28
  CLUS_5                 0                 64
  CLUS_6                 0                 27
  CLUS_7                 0                 29
  CLUS_8                 0                 39
  CLUS_9                 1                 38
[1] 10  2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C9ORF171 MUTATED        2      2      1
  C9ORF171 WILD-TYPE    135    163    152
D20V5, multiclass
        clus
vv       C9ORF171 MUTATED C9ORF171 WILD-TYPE
  CLUS_1                2                135
  CLUS_2                2                163
  CLUS_3                1                152
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C9ORF171 MUTATED        0      0      5
  C9ORF171 WILD-TYPE    138    143    179
D20V6, multiclass
        clus
vv       C9ORF171 MUTATED C9ORF171 WILD-TYPE
  CLUS_1                0                138
  CLUS_2                0                143
  CLUS_3                5                179
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C9ORF171 MUTATED        3      1      0
  C9ORF171 WILD-TYPE    124    150     61
D20V7, multiclass
        clus
vv       C9ORF171 MUTATED C9ORF171 WILD-TYPE
  CLUS_1                3                124
  CLUS_2                1                150
  CLUS_3                0                 61
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  C9ORF171 MUTATED        2      0      2      0
  C9ORF171 WILD-TYPE    120     43     52    120
D20V8, multiclass
        clus
vv       C9ORF171 MUTATED C9ORF171 WILD-TYPE
  CLUS_1                2                120
  CLUS_2                0                 43
  CLUS_3                2                 52
  CLUS_4                0                120
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C9ORF171 MUTATED        0      0      1
  C9ORF171 WILD-TYPE     64     84     99
D20V9, multiclass
[1] "Remove cluster labels:" "C9ORF171 MUTATED"      
clus
  C9ORF171 MUTATED C9ORF171 WILD-TYPE 
                 1                247 
        TCGA-04-1348         TCGA-04-1357         TCGA-04-1362 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-04-1364         TCGA-04-1365         TCGA-04-1514 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-04-1519         TCGA-09-0364         TCGA-09-0366 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-09-0369         TCGA-09-1659         TCGA-09-1662 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-09-1666         TCGA-09-1669         TCGA-09-1670 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-09-1673         TCGA-09-1674         TCGA-09-2044 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-09-2045         TCGA-09-2051         TCGA-09-2056 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-10-0928         TCGA-13-0730         TCGA-13-0800 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-13-0801         TCGA-13-0890         TCGA-13-0893 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-13-0897         TCGA-13-0899         TCGA-13-0913 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-13-0916         TCGA-13-0920         TCGA-13-0924 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-13-1403         TCGA-13-1405         TCGA-13-1410 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-13-1411         TCGA-13-1481         TCGA-13-1497 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-13-1498         TCGA-13-1505         TCGA-13-1506 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-13-1507         TCGA-13-1512         TCGA-13-2060 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-20-1682         TCGA-20-1683         TCGA-20-1684 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-20-1685         TCGA-20-1687         TCGA-23-1023 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-23-1026         TCGA-23-1027         TCGA-23-1029 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-23-1109         TCGA-23-1111         TCGA-23-1114 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-23-1120         TCGA-23-1122         TCGA-23-1123 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-23-1809         TCGA-23-2077         TCGA-23-2078 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-23-2081         TCGA-24-0975         TCGA-24-1103 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-24-1413         TCGA-24-1416         TCGA-24-1417 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-24-1418         TCGA-24-1419         TCGA-24-1423 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-24-1424         TCGA-24-1425         TCGA-24-1427 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-24-1428         TCGA-24-1434         TCGA-24-1435 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-24-1436         TCGA-24-1463         TCGA-24-1469 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-24-1474         TCGA-24-1544         TCGA-24-1545 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-24-1546         TCGA-24-1548         TCGA-24-1549 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-24-1551         TCGA-24-1552         TCGA-24-1553 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-24-1555         TCGA-24-1556         TCGA-24-1557 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-24-1558         TCGA-24-1560         TCGA-24-1562 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-24-1563         TCGA-24-1564         TCGA-24-1567 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-24-1603         TCGA-24-1604         TCGA-24-1616 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-24-1842         TCGA-24-1843         TCGA-24-1844 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-24-1846         TCGA-24-1847         TCGA-24-1849 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-24-1850         TCGA-24-2019         TCGA-24-2024 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-24-2038         TCGA-24-2254         TCGA-24-2261 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-24-2262         TCGA-24-2267         TCGA-24-2271 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-24-2281         TCGA-24-2288         TCGA-24-2289 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-24-2290         TCGA-24-2293         TCGA-24-2298 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-25-1313         TCGA-25-1315         TCGA-25-1316 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-25-1317         TCGA-25-1318         TCGA-25-1319 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-25-1320         TCGA-25-1321         TCGA-25-1322 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-25-1324         TCGA-25-1326         TCGA-25-1328 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-25-1329         TCGA-25-1623         TCGA-25-1625 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-25-1626         TCGA-25-1627         TCGA-25-1628 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-25-1630         TCGA-25-1631         TCGA-25-1632 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-25-1633         TCGA-25-1634         TCGA-25-1635 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-25-2042         TCGA-25-2391         TCGA-25-2392 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-25-2393         TCGA-25-2396         TCGA-25-2398 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-25-2399         TCGA-25-2400         TCGA-25-2401 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-25-2404         TCGA-25-2409         TCGA-29-1688 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-29-1690         TCGA-29-1691         TCGA-29-1693 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-29-1694         TCGA-29-1695         TCGA-29-1696 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-29-1697         TCGA-29-1698         TCGA-29-1699 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-29-1701         TCGA-29-1702         TCGA-29-1703 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-29-1705         TCGA-29-1710         TCGA-29-1711 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-29-1761         TCGA-29-1762         TCGA-29-1763 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-29-1770         TCGA-29-1776         TCGA-29-1778 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-29-1781         TCGA-29-1783         TCGA-29-1784 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-29-1785         TCGA-29-2427         TCGA-30-1718 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-30-1855         TCGA-30-1857         TCGA-30-1862 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-30-1891         TCGA-31-1953         TCGA-31-1959 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-36-1568         TCGA-36-1569         TCGA-36-1570 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-36-1571         TCGA-36-1574         TCGA-36-1575 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-36-1576         TCGA-36-1577         TCGA-36-1578 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-36-1580         TCGA-57-1582         TCGA-57-1583 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-57-1584         TCGA-57-1993         TCGA-59-2348 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-59-2350         TCGA-59-2351         TCGA-59-2352 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-59-2354         TCGA-59-2355         TCGA-59-2363 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-61-1725         TCGA-61-1728         TCGA-61-1733 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-61-1736         TCGA-61-1737         TCGA-61-1738 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-61-1740         TCGA-61-1741         TCGA-61-1900 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-61-1907         TCGA-61-1910         TCGA-61-1914 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-61-1919         TCGA-61-1995         TCGA-61-1998 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-61-2000         TCGA-61-2002         TCGA-61-2003 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-61-2008         TCGA-61-2009         TCGA-61-2012 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-61-2016         TCGA-61-2088         TCGA-61-2092 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-61-2094         TCGA-61-2095         TCGA-61-2097 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-61-2101         TCGA-61-2102         TCGA-61-2104 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-61-2109         TCGA-61-2110         TCGA-61-2111 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-61-2113 
"C9ORF171 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C9ORF171 MUTATED        0      0      1
  C9ORF171 WILD-TYPE    122     43     82
D20V10, multiclass
[1] "Remove cluster labels:" "C9ORF171 MUTATED"      
clus
  C9ORF171 MUTATED C9ORF171 WILD-TYPE 
                 1                247 
        TCGA-04-1348         TCGA-04-1357         TCGA-04-1362 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-04-1364         TCGA-04-1365         TCGA-04-1514 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-04-1519         TCGA-09-0364         TCGA-09-0366 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-09-0369         TCGA-09-1659         TCGA-09-1662 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-09-1666         TCGA-09-1669         TCGA-09-1670 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-09-1673         TCGA-09-1674         TCGA-09-2044 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-09-2045         TCGA-09-2051         TCGA-09-2056 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-10-0928         TCGA-13-0730         TCGA-13-0800 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-13-0801         TCGA-13-0890         TCGA-13-0893 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-13-0897         TCGA-13-0899         TCGA-13-0913 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-13-0916         TCGA-13-0920         TCGA-13-0924 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-13-1403         TCGA-13-1405         TCGA-13-1410 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-13-1411         TCGA-13-1481         TCGA-13-1497 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-13-1498         TCGA-13-1505         TCGA-13-1506 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-13-1507         TCGA-13-1512         TCGA-13-2060 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-20-1682         TCGA-20-1683         TCGA-20-1684 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-20-1685         TCGA-20-1687         TCGA-23-1023 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-23-1026         TCGA-23-1027         TCGA-23-1029 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-23-1109         TCGA-23-1111         TCGA-23-1114 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-23-1120         TCGA-23-1122         TCGA-23-1123 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-23-1809         TCGA-23-2077         TCGA-23-2078 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-23-2081         TCGA-24-0975         TCGA-24-1103 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-24-1413         TCGA-24-1416         TCGA-24-1417 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-24-1418         TCGA-24-1419         TCGA-24-1423 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-24-1424         TCGA-24-1425         TCGA-24-1427 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-24-1428         TCGA-24-1434         TCGA-24-1435 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-24-1436         TCGA-24-1463         TCGA-24-1469 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-24-1474         TCGA-24-1544         TCGA-24-1545 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-24-1546         TCGA-24-1548         TCGA-24-1549 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-24-1551         TCGA-24-1552         TCGA-24-1553 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-24-1555         TCGA-24-1556         TCGA-24-1557 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-24-1558         TCGA-24-1560         TCGA-24-1562 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-24-1563         TCGA-24-1564         TCGA-24-1567 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-24-1603         TCGA-24-1604         TCGA-24-1616 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-24-1842         TCGA-24-1843         TCGA-24-1844 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-24-1846         TCGA-24-1847         TCGA-24-1849 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-24-1850         TCGA-24-2019         TCGA-24-2024 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-24-2038         TCGA-24-2254         TCGA-24-2261 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-24-2262         TCGA-24-2267         TCGA-24-2271 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-24-2281         TCGA-24-2288         TCGA-24-2289 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-24-2290         TCGA-24-2293         TCGA-24-2298 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-25-1313         TCGA-25-1315         TCGA-25-1316 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-25-1317         TCGA-25-1318         TCGA-25-1319 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-25-1320         TCGA-25-1321         TCGA-25-1322 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-25-1324         TCGA-25-1326         TCGA-25-1328 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-25-1329         TCGA-25-1623         TCGA-25-1625 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-25-1626         TCGA-25-1627         TCGA-25-1628 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-25-1630         TCGA-25-1631         TCGA-25-1632 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-25-1633         TCGA-25-1634         TCGA-25-1635 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-25-2042         TCGA-25-2391         TCGA-25-2392 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-25-2393         TCGA-25-2396         TCGA-25-2398 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-25-2399         TCGA-25-2400         TCGA-25-2401 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-25-2404         TCGA-25-2409         TCGA-29-1688 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-29-1690         TCGA-29-1691         TCGA-29-1693 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-29-1694         TCGA-29-1695         TCGA-29-1696 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-29-1697         TCGA-29-1698         TCGA-29-1699 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-29-1701         TCGA-29-1702         TCGA-29-1703 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-29-1705         TCGA-29-1710         TCGA-29-1711 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-29-1761         TCGA-29-1762         TCGA-29-1763 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-29-1770         TCGA-29-1776         TCGA-29-1778 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-29-1781         TCGA-29-1783         TCGA-29-1784 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-29-1785         TCGA-29-2427         TCGA-30-1718 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-30-1855         TCGA-30-1857         TCGA-30-1862 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-30-1891         TCGA-31-1953         TCGA-31-1959 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-36-1568         TCGA-36-1569         TCGA-36-1570 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-36-1571         TCGA-36-1574         TCGA-36-1575 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-36-1576         TCGA-36-1577         TCGA-36-1578 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-36-1580         TCGA-57-1582         TCGA-57-1583 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-57-1584         TCGA-57-1993         TCGA-59-2348 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-59-2350         TCGA-59-2351         TCGA-59-2352 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-59-2354         TCGA-59-2355         TCGA-59-2363 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-61-1725         TCGA-61-1728         TCGA-61-1733 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-61-1736         TCGA-61-1737         TCGA-61-1738 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-61-1740         TCGA-61-1741         TCGA-61-1900 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-61-1907         TCGA-61-1910         TCGA-61-1914 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-61-1919         TCGA-61-1995         TCGA-61-1998 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-61-2000         TCGA-61-2002         TCGA-61-2003 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-61-2008         TCGA-61-2009         TCGA-61-2012 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-61-2016         TCGA-61-2088         TCGA-61-2092 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-61-2094         TCGA-61-2095         TCGA-61-2097 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-61-2101         TCGA-61-2102         TCGA-61-2104 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-61-2109         TCGA-61-2110         TCGA-61-2111 
"C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" "C9ORF171 WILD-TYPE" 
        TCGA-61-2113 
"C9ORF171 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  C9ORF171 MUTATED        2      2      0
  C9ORF171 WILD-TYPE     95    157    126
D20V11, multiclass
        clus
vv       C9ORF171 MUTATED C9ORF171 WILD-TYPE
  CLUS_1                2                 95
  CLUS_2                2                157
  CLUS_3                0                126
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  C9ORF171 MUTATED        1      0      3      0
  C9ORF171 WILD-TYPE     89     60    134     95
D20V12, multiclass
        clus
vv       C9ORF171 MUTATED C9ORF171 WILD-TYPE
  CLUS_1                1                 89
  CLUS_2                0                 60
  CLUS_3                3                134
  CLUS_4                0                 95
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D20V13, binary
                    cls
clus                 0 1
  C9ORF171 MUTATED   0 0
  C9ORF171 WILD-TYPE 9 5
[1] "tbl2"
                    cls
clus                 [,1] [,2]
  C9ORF171 MUTATED      0    0
  C9ORF171 WILD-TYPE    9    5
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  C9ORF171 MUTATED        0      0      0      0      0      0
  C9ORF171 WILD-TYPE      5      1      1      2      3      2
D20V14, multiclass

Clustering(21) Variable = NCOA3 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NCOA3 MUTATED        0      4      1
  NCOA3 WILD-TYPE    176    171    113
D21V1, multiclass
        clus
vv       NCOA3 MUTATED NCOA3 WILD-TYPE
  CLUS_1             0             176
  CLUS_2             4             171
  CLUS_3             1             113
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NCOA3 MUTATED        5      0      0
  NCOA3 WILD-TYPE    254    136     70
D21V2, multiclass
        clus
vv       NCOA3 MUTATED NCOA3 WILD-TYPE
  CLUS_1             5             254
  CLUS_2             0             136
  CLUS_3             0              70
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NCOA3 MUTATED        1      1      3
  NCOA3 WILD-TYPE    133    138    189
D21V3, multiclass
        clus
vv       NCOA3 MUTATED NCOA3 WILD-TYPE
  CLUS_1             1             133
  CLUS_2             1             138
  CLUS_3             3             189
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_10 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6 CLUS_7
  NCOA3 MUTATED        0       0      1      2      0      1      1      0
  NCOA3 WILD-TYPE     73      45     48     68     30     63     26     29
                 vv
clus              CLUS_8 CLUS_9
  NCOA3 MUTATED        0      0
  NCOA3 WILD-TYPE     39     39
D21V4, multiclass
         clus
vv        NCOA3 MUTATED NCOA3 WILD-TYPE
  CLUS_1              0              73
  CLUS_10             0              45
  CLUS_2              1              48
  CLUS_3              2              68
  CLUS_4              0              30
  CLUS_5              1              63
  CLUS_6              1              26
  CLUS_7              0              29
  CLUS_8              0              39
  CLUS_9              0              39
[1] 10  2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NCOA3 MUTATED        2      2      1
  NCOA3 WILD-TYPE    135    163    152
D21V5, multiclass
        clus
vv       NCOA3 MUTATED NCOA3 WILD-TYPE
  CLUS_1             2             135
  CLUS_2             2             163
  CLUS_3             1             152
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NCOA3 MUTATED        1      3      1
  NCOA3 WILD-TYPE    137    140    183
D21V6, multiclass
        clus
vv       NCOA3 MUTATED NCOA3 WILD-TYPE
  CLUS_1             1             137
  CLUS_2             3             140
  CLUS_3             1             183
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NCOA3 MUTATED        0      1      0
  NCOA3 WILD-TYPE    127    150     61
D21V7, multiclass
[1] "Remove cluster labels:" "NCOA3 MUTATED"         
clus
  NCOA3 MUTATED NCOA3 WILD-TYPE 
              1             338 
     TCGA-04-1336      TCGA-04-1338      TCGA-04-1342      TCGA-04-1343 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-04-1348      TCGA-04-1349      TCGA-04-1356      TCGA-04-1357 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-04-1361      TCGA-04-1362      TCGA-04-1369      TCGA-04-1514 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-04-1516      TCGA-04-1517      TCGA-04-1519      TCGA-04-1525 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-04-1542      TCGA-04-1638      TCGA-04-1644      TCGA-04-1646 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-04-1648      TCGA-04-1649      TCGA-04-1651      TCGA-09-1662 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-09-1664      TCGA-09-1665      TCGA-09-1666      TCGA-09-1670 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-09-1673      TCGA-09-1674      TCGA-09-2044      TCGA-09-2045 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-09-2049      TCGA-09-2051      TCGA-09-2056      TCGA-10-0926 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-10-0931      TCGA-10-0933      TCGA-13-0720      TCGA-13-0793 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-13-0800      TCGA-13-0801      TCGA-13-0802      TCGA-13-0804 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-13-0884      TCGA-13-0886      TCGA-13-0887      TCGA-13-0891 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-13-0894      TCGA-13-0897      TCGA-13-0899      TCGA-13-0901 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-13-0903      TCGA-13-0906      TCGA-13-0910      TCGA-13-0911 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-13-0913      TCGA-13-0916      TCGA-13-0920      TCGA-13-1404 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-13-1405      TCGA-13-1408      TCGA-13-1409      TCGA-13-1410 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-13-1411      TCGA-13-1412      TCGA-13-1477      TCGA-13-1481 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-13-1482      TCGA-13-1483      TCGA-13-1484      TCGA-13-1487 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-13-1488      TCGA-13-1489      TCGA-13-1491      TCGA-13-1492 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-13-1494      TCGA-13-1495      TCGA-13-1496      TCGA-13-1498 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-13-1499      TCGA-13-1501      TCGA-13-1504      TCGA-13-1505 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-13-1506      TCGA-13-1507      TCGA-13-1509      TCGA-13-1512 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-13-2059      TCGA-13-2060      TCGA-13-2061      TCGA-13-2065 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-13-2066      TCGA-20-1682      TCGA-20-1683      TCGA-20-1684 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-20-1685      TCGA-20-1686      TCGA-20-1687      TCGA-23-1109 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-23-1110      TCGA-23-1111      TCGA-23-1122      TCGA-23-1123 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-23-1124      TCGA-23-1809      TCGA-23-2077      TCGA-23-2078 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-23-2079      TCGA-23-2081      TCGA-23-2641      TCGA-23-2643 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-23-2645      TCGA-23-2647      TCGA-23-2649      TCGA-24-0966 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-24-0970      TCGA-24-0979      TCGA-24-0980      TCGA-24-0982 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-24-1103      TCGA-24-1104      TCGA-24-1105      TCGA-24-1416 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-24-1417      TCGA-24-1419      TCGA-24-1422      TCGA-24-1423 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-24-1424      TCGA-24-1427      TCGA-24-1428      TCGA-24-1431 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-24-1434      TCGA-24-1435      TCGA-24-1436      TCGA-24-1463 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-24-1464      TCGA-24-1466      TCGA-24-1469      TCGA-24-1470 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-24-1471      TCGA-24-1474      TCGA-24-1544      TCGA-24-1545 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-24-1546      TCGA-24-1548      TCGA-24-1549      TCGA-24-1551 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-24-1552      TCGA-24-1553      TCGA-24-1555      TCGA-24-1556 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-24-1557      TCGA-24-1558      TCGA-24-1560      TCGA-24-1562 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-24-1563      TCGA-24-1564      TCGA-24-1565      TCGA-24-1567 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-24-1603      TCGA-24-1604      TCGA-24-1614      TCGA-24-1616 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-24-1842      TCGA-24-1844      TCGA-24-1846      TCGA-24-1849 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-24-1850      TCGA-24-2024      TCGA-24-2030      TCGA-24-2038 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-24-2254      TCGA-24-2260      TCGA-24-2261      TCGA-24-2262 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-24-2267      TCGA-24-2271      TCGA-24-2281      TCGA-24-2288 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-24-2289      TCGA-24-2290      TCGA-24-2293      TCGA-24-2298 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-25-1313      TCGA-25-1315      TCGA-25-1316      TCGA-25-1318 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-25-1319      TCGA-25-1320      TCGA-25-1321      TCGA-25-1322 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-25-1325      TCGA-25-1326      TCGA-25-1328      TCGA-25-1329 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-25-1623      TCGA-25-1625      TCGA-25-1626      TCGA-25-1627 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-25-1628      TCGA-25-1630      TCGA-25-1631      TCGA-25-1632 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-25-1633      TCGA-25-1635      TCGA-25-2042      TCGA-25-2391 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-25-2393      TCGA-25-2396      TCGA-25-2398      TCGA-25-2399 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-25-2400      TCGA-25-2401      TCGA-25-2404      TCGA-25-2408 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-25-2409      TCGA-29-1688      TCGA-29-1690      TCGA-29-1691 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-29-1693      TCGA-29-1694      TCGA-29-1695      TCGA-29-1696 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-29-1697      TCGA-29-1698      TCGA-29-1699      TCGA-29-1701 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-29-1702      TCGA-29-1703      TCGA-29-1705      TCGA-29-1707 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-29-1710      TCGA-29-1711      TCGA-29-1761      TCGA-29-1762 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-29-1764      TCGA-29-1766      TCGA-29-1768      TCGA-29-1769 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-29-1770      TCGA-29-1771      TCGA-29-1774      TCGA-29-1775 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-29-1776      TCGA-29-1777      TCGA-29-1778      TCGA-29-1781 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-29-1783      TCGA-29-1785      TCGA-29-2427      TCGA-29-2429 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-29-2431      TCGA-29-2432      TCGA-29-2434      TCGA-29-2436 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-30-1718      TCGA-30-1855      TCGA-30-1856      TCGA-30-1891 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-31-1950      TCGA-36-1568      TCGA-36-1569      TCGA-36-1570 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-36-1571      TCGA-36-1575      TCGA-36-1576      TCGA-36-1577 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-36-1578      TCGA-36-1580      TCGA-36-2530      TCGA-36-2532 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-36-2533      TCGA-36-2534      TCGA-36-2537      TCGA-36-2538 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-36-2539      TCGA-36-2540      TCGA-36-2542      TCGA-36-2543 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-36-2544      TCGA-36-2545      TCGA-36-2547      TCGA-36-2548 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-36-2551      TCGA-36-2552      TCGA-42-2582      TCGA-42-2587 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-42-2588      TCGA-42-2589      TCGA-42-2590      TCGA-42-2591 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-57-1586      TCGA-59-2348      TCGA-59-2351      TCGA-59-2352 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-59-2354      TCGA-59-2363      TCGA-59-2372      TCGA-61-1722 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-61-1727      TCGA-61-1730      TCGA-61-1733      TCGA-61-1736 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-61-1738      TCGA-61-1740      TCGA-61-1741      TCGA-61-1895 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-61-1899      TCGA-61-1900      TCGA-61-1903      TCGA-61-1906 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-61-1907      TCGA-61-1910      TCGA-61-1911      TCGA-61-1913 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-61-1914      TCGA-61-1915      TCGA-61-1919      TCGA-61-1995 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-61-2000      TCGA-61-2003      TCGA-61-2008      TCGA-61-2009 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-61-2012      TCGA-61-2088      TCGA-61-2092      TCGA-61-2094 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-61-2095      TCGA-61-2101      TCGA-61-2102      TCGA-61-2104 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-61-2109      TCGA-61-2111      TCGA-61-2113      TCGA-61-2612 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-61-2613      TCGA-61-2614 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NCOA3 MUTATED        0      0      1      0
  NCOA3 WILD-TYPE    122     43     53    120
D21V8, multiclass
[1] "Remove cluster labels:" "NCOA3 MUTATED"         
clus
  NCOA3 MUTATED NCOA3 WILD-TYPE 
              1             338 
     TCGA-04-1336      TCGA-04-1338      TCGA-04-1342      TCGA-04-1343 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-04-1348      TCGA-04-1349      TCGA-04-1356      TCGA-04-1357 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-04-1361      TCGA-04-1362      TCGA-04-1369      TCGA-04-1514 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-04-1516      TCGA-04-1517      TCGA-04-1519      TCGA-04-1525 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-04-1542      TCGA-04-1638      TCGA-04-1644      TCGA-04-1646 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-04-1648      TCGA-04-1649      TCGA-04-1651      TCGA-09-1662 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-09-1664      TCGA-09-1665      TCGA-09-1666      TCGA-09-1670 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-09-1673      TCGA-09-1674      TCGA-09-2044      TCGA-09-2045 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-09-2049      TCGA-09-2051      TCGA-09-2056      TCGA-10-0926 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-10-0931      TCGA-10-0933      TCGA-13-0720      TCGA-13-0793 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-13-0800      TCGA-13-0801      TCGA-13-0802      TCGA-13-0804 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-13-0884      TCGA-13-0886      TCGA-13-0887      TCGA-13-0891 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-13-0894      TCGA-13-0897      TCGA-13-0899      TCGA-13-0901 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-13-0903      TCGA-13-0906      TCGA-13-0910      TCGA-13-0911 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-13-0913      TCGA-13-0916      TCGA-13-0920      TCGA-13-1404 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-13-1405      TCGA-13-1408      TCGA-13-1409      TCGA-13-1410 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-13-1411      TCGA-13-1412      TCGA-13-1477      TCGA-13-1481 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-13-1482      TCGA-13-1483      TCGA-13-1484      TCGA-13-1487 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-13-1488      TCGA-13-1489      TCGA-13-1491      TCGA-13-1492 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-13-1494      TCGA-13-1495      TCGA-13-1496      TCGA-13-1498 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-13-1499      TCGA-13-1501      TCGA-13-1504      TCGA-13-1505 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-13-1506      TCGA-13-1507      TCGA-13-1509      TCGA-13-1512 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-13-2059      TCGA-13-2060      TCGA-13-2061      TCGA-13-2065 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-13-2066      TCGA-20-1682      TCGA-20-1683      TCGA-20-1684 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-20-1685      TCGA-20-1686      TCGA-20-1687      TCGA-23-1109 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-23-1110      TCGA-23-1111      TCGA-23-1122      TCGA-23-1123 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-23-1124      TCGA-23-1809      TCGA-23-2077      TCGA-23-2078 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-23-2079      TCGA-23-2081      TCGA-23-2641      TCGA-23-2643 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-23-2645      TCGA-23-2647      TCGA-23-2649      TCGA-24-0966 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-24-0970      TCGA-24-0979      TCGA-24-0980      TCGA-24-0982 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-24-1103      TCGA-24-1104      TCGA-24-1105      TCGA-24-1416 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-24-1417      TCGA-24-1419      TCGA-24-1422      TCGA-24-1423 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-24-1424      TCGA-24-1427      TCGA-24-1428      TCGA-24-1431 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-24-1434      TCGA-24-1435      TCGA-24-1436      TCGA-24-1463 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-24-1464      TCGA-24-1466      TCGA-24-1469      TCGA-24-1470 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-24-1471      TCGA-24-1474      TCGA-24-1544      TCGA-24-1545 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-24-1546      TCGA-24-1548      TCGA-24-1549      TCGA-24-1551 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-24-1552      TCGA-24-1553      TCGA-24-1555      TCGA-24-1556 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-24-1557      TCGA-24-1558      TCGA-24-1560      TCGA-24-1562 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-24-1563      TCGA-24-1564      TCGA-24-1565      TCGA-24-1567 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-24-1603      TCGA-24-1604      TCGA-24-1614      TCGA-24-1616 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-24-1842      TCGA-24-1844      TCGA-24-1846      TCGA-24-1849 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-24-1850      TCGA-24-2024      TCGA-24-2030      TCGA-24-2038 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-24-2254      TCGA-24-2260      TCGA-24-2261      TCGA-24-2262 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-24-2267      TCGA-24-2271      TCGA-24-2281      TCGA-24-2288 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-24-2289      TCGA-24-2290      TCGA-24-2293      TCGA-24-2298 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-25-1313      TCGA-25-1315      TCGA-25-1316      TCGA-25-1318 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-25-1319      TCGA-25-1320      TCGA-25-1321      TCGA-25-1322 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-25-1325      TCGA-25-1326      TCGA-25-1328      TCGA-25-1329 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-25-1623      TCGA-25-1625      TCGA-25-1626      TCGA-25-1627 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-25-1628      TCGA-25-1630      TCGA-25-1631      TCGA-25-1632 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-25-1633      TCGA-25-1635      TCGA-25-2042      TCGA-25-2391 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-25-2393      TCGA-25-2396      TCGA-25-2398      TCGA-25-2399 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-25-2400      TCGA-25-2401      TCGA-25-2404      TCGA-25-2408 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-25-2409      TCGA-29-1688      TCGA-29-1690      TCGA-29-1691 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-29-1693      TCGA-29-1694      TCGA-29-1695      TCGA-29-1696 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-29-1697      TCGA-29-1698      TCGA-29-1699      TCGA-29-1701 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-29-1702      TCGA-29-1703      TCGA-29-1705      TCGA-29-1707 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-29-1710      TCGA-29-1711      TCGA-29-1761      TCGA-29-1762 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-29-1764      TCGA-29-1766      TCGA-29-1768      TCGA-29-1769 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-29-1770      TCGA-29-1771      TCGA-29-1774      TCGA-29-1775 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-29-1776      TCGA-29-1777      TCGA-29-1778      TCGA-29-1781 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-29-1783      TCGA-29-1785      TCGA-29-2427      TCGA-29-2429 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-29-2431      TCGA-29-2432      TCGA-29-2434      TCGA-29-2436 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-30-1718      TCGA-30-1855      TCGA-30-1856      TCGA-30-1891 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-31-1950      TCGA-36-1568      TCGA-36-1569      TCGA-36-1570 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-36-1571      TCGA-36-1575      TCGA-36-1576      TCGA-36-1577 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-36-1578      TCGA-36-1580      TCGA-36-2530      TCGA-36-2532 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-36-2533      TCGA-36-2534      TCGA-36-2537      TCGA-36-2538 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-36-2539      TCGA-36-2540      TCGA-36-2542      TCGA-36-2543 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-36-2544      TCGA-36-2545      TCGA-36-2547      TCGA-36-2548 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-36-2551      TCGA-36-2552      TCGA-42-2582      TCGA-42-2587 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-42-2588      TCGA-42-2589      TCGA-42-2590      TCGA-42-2591 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-57-1586      TCGA-59-2348      TCGA-59-2351      TCGA-59-2352 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-59-2354      TCGA-59-2363      TCGA-59-2372      TCGA-61-1722 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-61-1727      TCGA-61-1730      TCGA-61-1733      TCGA-61-1736 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-61-1738      TCGA-61-1740      TCGA-61-1741      TCGA-61-1895 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-61-1899      TCGA-61-1900      TCGA-61-1903      TCGA-61-1906 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-61-1907      TCGA-61-1910      TCGA-61-1911      TCGA-61-1913 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-61-1914      TCGA-61-1915      TCGA-61-1919      TCGA-61-1995 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-61-2000      TCGA-61-2003      TCGA-61-2008      TCGA-61-2009 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-61-2012      TCGA-61-2088      TCGA-61-2092      TCGA-61-2094 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-61-2095      TCGA-61-2101      TCGA-61-2102      TCGA-61-2104 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-61-2109      TCGA-61-2111      TCGA-61-2113      TCGA-61-2612 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-61-2613      TCGA-61-2614 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NCOA3 MUTATED        1      0      1
  NCOA3 WILD-TYPE     63     84     99
D21V9, multiclass
[1] "Remove cluster labels:" "NCOA3 MUTATED"         
clus
  NCOA3 MUTATED NCOA3 WILD-TYPE 
              2             246 
     TCGA-04-1348      TCGA-04-1357      TCGA-04-1362      TCGA-04-1364 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-04-1514      TCGA-04-1519      TCGA-09-0364      TCGA-09-0366 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-09-0369      TCGA-09-1659      TCGA-09-1662      TCGA-09-1666 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-09-1669      TCGA-09-1670      TCGA-09-1673      TCGA-09-1674 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-09-2044      TCGA-09-2045      TCGA-09-2051      TCGA-09-2056 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-10-0928      TCGA-13-0730      TCGA-13-0800      TCGA-13-0801 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-13-0893      TCGA-13-0897      TCGA-13-0899      TCGA-13-0913 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-13-0916      TCGA-13-0920      TCGA-13-0924      TCGA-13-1403 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-13-1405      TCGA-13-1410      TCGA-13-1411      TCGA-13-1481 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-13-1497      TCGA-13-1498      TCGA-13-1505      TCGA-13-1506 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-13-1507      TCGA-13-1512      TCGA-13-2060      TCGA-20-1682 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-20-1683      TCGA-20-1684      TCGA-20-1685      TCGA-20-1687 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-23-1023      TCGA-23-1026      TCGA-23-1027      TCGA-23-1029 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-23-1109      TCGA-23-1111      TCGA-23-1114      TCGA-23-1120 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-23-1122      TCGA-23-1123      TCGA-23-1809      TCGA-23-2077 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-23-2078      TCGA-23-2081      TCGA-24-0975      TCGA-24-1103 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-24-1413      TCGA-24-1416      TCGA-24-1417      TCGA-24-1418 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-24-1419      TCGA-24-1423      TCGA-24-1424      TCGA-24-1425 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-24-1427      TCGA-24-1428      TCGA-24-1434      TCGA-24-1435 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-24-1436      TCGA-24-1463      TCGA-24-1469      TCGA-24-1474 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-24-1544      TCGA-24-1545      TCGA-24-1546      TCGA-24-1548 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-24-1549      TCGA-24-1551      TCGA-24-1552      TCGA-24-1553 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-24-1555      TCGA-24-1556      TCGA-24-1557      TCGA-24-1558 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-24-1560      TCGA-24-1562      TCGA-24-1563      TCGA-24-1564 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-24-1567      TCGA-24-1603      TCGA-24-1604      TCGA-24-1616 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-24-1842      TCGA-24-1843      TCGA-24-1844      TCGA-24-1846 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-24-1847      TCGA-24-1849      TCGA-24-1850      TCGA-24-2019 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-24-2024      TCGA-24-2035      TCGA-24-2038      TCGA-24-2254 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-24-2261      TCGA-24-2262      TCGA-24-2267      TCGA-24-2271 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-24-2281      TCGA-24-2288      TCGA-24-2289      TCGA-24-2290 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-24-2293      TCGA-24-2298      TCGA-25-1313      TCGA-25-1315 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-25-1316      TCGA-25-1317      TCGA-25-1318      TCGA-25-1319 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-25-1320      TCGA-25-1321      TCGA-25-1322      TCGA-25-1324 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-25-1326      TCGA-25-1328      TCGA-25-1329      TCGA-25-1623 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-25-1625      TCGA-25-1626      TCGA-25-1627      TCGA-25-1628 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-25-1630      TCGA-25-1631      TCGA-25-1632      TCGA-25-1633 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-25-1634      TCGA-25-1635      TCGA-25-2042      TCGA-25-2391 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-25-2392      TCGA-25-2393      TCGA-25-2396      TCGA-25-2398 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-25-2399      TCGA-25-2400      TCGA-25-2401      TCGA-25-2404 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-25-2409      TCGA-29-1688      TCGA-29-1690      TCGA-29-1691 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-29-1693      TCGA-29-1694      TCGA-29-1695      TCGA-29-1696 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-29-1697      TCGA-29-1698      TCGA-29-1699      TCGA-29-1701 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-29-1702      TCGA-29-1703      TCGA-29-1705      TCGA-29-1710 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-29-1711      TCGA-29-1761      TCGA-29-1762      TCGA-29-1763 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-29-1770      TCGA-29-1776      TCGA-29-1778      TCGA-29-1781 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-29-1783      TCGA-29-1784      TCGA-29-1785      TCGA-29-2427 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-30-1718      TCGA-30-1855      TCGA-30-1857      TCGA-30-1862 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-30-1891      TCGA-31-1953      TCGA-31-1959      TCGA-36-1568 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-36-1569      TCGA-36-1570      TCGA-36-1571      TCGA-36-1574 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-36-1575      TCGA-36-1576      TCGA-36-1577      TCGA-36-1578 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-36-1580      TCGA-57-1582      TCGA-57-1583      TCGA-57-1584 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-57-1993      TCGA-59-2348      TCGA-59-2350      TCGA-59-2351 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-59-2352      TCGA-59-2354      TCGA-59-2355      TCGA-59-2363 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-61-1725      TCGA-61-1728      TCGA-61-1733      TCGA-61-1736 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-61-1737      TCGA-61-1738      TCGA-61-1740      TCGA-61-1741 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-61-1900      TCGA-61-1907      TCGA-61-1910      TCGA-61-1914 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-61-1919      TCGA-61-1995      TCGA-61-1998      TCGA-61-2000 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-61-2002      TCGA-61-2003      TCGA-61-2008      TCGA-61-2009 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-61-2012      TCGA-61-2016      TCGA-61-2088      TCGA-61-2092 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-61-2094      TCGA-61-2095      TCGA-61-2097      TCGA-61-2101 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-61-2102      TCGA-61-2104      TCGA-61-2109      TCGA-61-2110 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-61-2111      TCGA-61-2113 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NCOA3 MUTATED        1      0      1
  NCOA3 WILD-TYPE    121     43     82
D21V10, multiclass
[1] "Remove cluster labels:" "NCOA3 MUTATED"         
clus
  NCOA3 MUTATED NCOA3 WILD-TYPE 
              2             246 
     TCGA-04-1348      TCGA-04-1357      TCGA-04-1362      TCGA-04-1364 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-04-1514      TCGA-04-1519      TCGA-09-0364      TCGA-09-0366 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-09-0369      TCGA-09-1659      TCGA-09-1662      TCGA-09-1666 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-09-1669      TCGA-09-1670      TCGA-09-1673      TCGA-09-1674 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-09-2044      TCGA-09-2045      TCGA-09-2051      TCGA-09-2056 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-10-0928      TCGA-13-0730      TCGA-13-0800      TCGA-13-0801 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-13-0893      TCGA-13-0897      TCGA-13-0899      TCGA-13-0913 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-13-0916      TCGA-13-0920      TCGA-13-0924      TCGA-13-1403 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-13-1405      TCGA-13-1410      TCGA-13-1411      TCGA-13-1481 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-13-1497      TCGA-13-1498      TCGA-13-1505      TCGA-13-1506 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-13-1507      TCGA-13-1512      TCGA-13-2060      TCGA-20-1682 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-20-1683      TCGA-20-1684      TCGA-20-1685      TCGA-20-1687 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-23-1023      TCGA-23-1026      TCGA-23-1027      TCGA-23-1029 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-23-1109      TCGA-23-1111      TCGA-23-1114      TCGA-23-1120 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-23-1122      TCGA-23-1123      TCGA-23-1809      TCGA-23-2077 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-23-2078      TCGA-23-2081      TCGA-24-0975      TCGA-24-1103 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-24-1413      TCGA-24-1416      TCGA-24-1417      TCGA-24-1418 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-24-1419      TCGA-24-1423      TCGA-24-1424      TCGA-24-1425 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-24-1427      TCGA-24-1428      TCGA-24-1434      TCGA-24-1435 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-24-1436      TCGA-24-1463      TCGA-24-1469      TCGA-24-1474 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-24-1544      TCGA-24-1545      TCGA-24-1546      TCGA-24-1548 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-24-1549      TCGA-24-1551      TCGA-24-1552      TCGA-24-1553 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-24-1555      TCGA-24-1556      TCGA-24-1557      TCGA-24-1558 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-24-1560      TCGA-24-1562      TCGA-24-1563      TCGA-24-1564 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-24-1567      TCGA-24-1603      TCGA-24-1604      TCGA-24-1616 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-24-1842      TCGA-24-1843      TCGA-24-1844      TCGA-24-1846 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-24-1847      TCGA-24-1849      TCGA-24-1850      TCGA-24-2019 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-24-2024      TCGA-24-2035      TCGA-24-2038      TCGA-24-2254 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-24-2261      TCGA-24-2262      TCGA-24-2267      TCGA-24-2271 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-24-2281      TCGA-24-2288      TCGA-24-2289      TCGA-24-2290 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-24-2293      TCGA-24-2298      TCGA-25-1313      TCGA-25-1315 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-25-1316      TCGA-25-1317      TCGA-25-1318      TCGA-25-1319 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-25-1320      TCGA-25-1321      TCGA-25-1322      TCGA-25-1324 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-25-1326      TCGA-25-1328      TCGA-25-1329      TCGA-25-1623 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-25-1625      TCGA-25-1626      TCGA-25-1627      TCGA-25-1628 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-25-1630      TCGA-25-1631      TCGA-25-1632      TCGA-25-1633 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-25-1634      TCGA-25-1635      TCGA-25-2042      TCGA-25-2391 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-25-2392      TCGA-25-2393      TCGA-25-2396      TCGA-25-2398 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-25-2399      TCGA-25-2400      TCGA-25-2401      TCGA-25-2404 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-25-2409      TCGA-29-1688      TCGA-29-1690      TCGA-29-1691 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-29-1693      TCGA-29-1694      TCGA-29-1695      TCGA-29-1696 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-29-1697      TCGA-29-1698      TCGA-29-1699      TCGA-29-1701 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-29-1702      TCGA-29-1703      TCGA-29-1705      TCGA-29-1710 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-29-1711      TCGA-29-1761      TCGA-29-1762      TCGA-29-1763 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-29-1770      TCGA-29-1776      TCGA-29-1778      TCGA-29-1781 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-29-1783      TCGA-29-1784      TCGA-29-1785      TCGA-29-2427 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-30-1718      TCGA-30-1855      TCGA-30-1857      TCGA-30-1862 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-30-1891      TCGA-31-1953      TCGA-31-1959      TCGA-36-1568 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-36-1569      TCGA-36-1570      TCGA-36-1571      TCGA-36-1574 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-36-1575      TCGA-36-1576      TCGA-36-1577      TCGA-36-1578 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-36-1580      TCGA-57-1582      TCGA-57-1583      TCGA-57-1584 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-57-1993      TCGA-59-2348      TCGA-59-2350      TCGA-59-2351 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-59-2352      TCGA-59-2354      TCGA-59-2355      TCGA-59-2363 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-61-1725      TCGA-61-1728      TCGA-61-1733      TCGA-61-1736 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-61-1737      TCGA-61-1738      TCGA-61-1740      TCGA-61-1741 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-61-1900      TCGA-61-1907      TCGA-61-1910      TCGA-61-1914 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-61-1919      TCGA-61-1995      TCGA-61-1998      TCGA-61-2000 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-61-2002      TCGA-61-2003      TCGA-61-2008      TCGA-61-2009 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-61-2012      TCGA-61-2016      TCGA-61-2088      TCGA-61-2092 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-61-2094      TCGA-61-2095      TCGA-61-2097      TCGA-61-2101 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-61-2102      TCGA-61-2104      TCGA-61-2109      TCGA-61-2110 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
     TCGA-61-2111      TCGA-61-2113 
"NCOA3 WILD-TYPE" "NCOA3 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  NCOA3 MUTATED        1      4      0
  NCOA3 WILD-TYPE     96    155    126
D21V11, multiclass
        clus
vv       NCOA3 MUTATED NCOA3 WILD-TYPE
  CLUS_1             1              96
  CLUS_2             4             155
  CLUS_3             0             126
[1] 3 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NCOA3 MUTATED        3      0      2      0
  NCOA3 WILD-TYPE     87     60    135     95
D21V12, multiclass
        clus
vv       NCOA3 MUTATED NCOA3 WILD-TYPE
  CLUS_1             3              87
  CLUS_2             0              60
  CLUS_3             2             135
  CLUS_4             0              95
[1] 4 2
[1] TRUE
[1] "dimension of contingency table is larger than 2 by 2 --- so will do fisher test with simulate.p.value=TRUE"
D21V13, binary
                 cls
clus              0 1
  NCOA3 MUTATED   0 0
  NCOA3 WILD-TYPE 9 5
[1] "tbl2"
                 cls
clus              [,1] [,2]
  NCOA3 MUTATED      0    0
  NCOA3 WILD-TYPE    9    5
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  NCOA3 MUTATED        0      0      0      0      0      0
  NCOA3 WILD-TYPE      5      1      1      2      3      2
D21V14, multiclass
