
R version 2.10.1 (2009-12-14)
Copyright (C) 2009 The R Foundation for Statistical Computing
ISBN 3-900051-07-0

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> source("/xchip/tcga/gdac_prod/applications/process_mgmt/firehose_task_registry/tcga-gdac/GDAC_Correlate_Genomic_Events/broadinstitute.org/cancer.genome.analysis/10441/13/Correlate_Genomic_Events.R")
> result <- main("/xchip/tcga/gdac_prod/applications/process_mgmt/firehose_task_registry/tcga-gdac/GDAC_Correlate_Genomic_Events/broadinstitute.org/cancer.genome.analysis/10441/13/", "-nF=/xchip/tcga/Tools/Nozzle/v1.current", "-tTRUE", "-iD=/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_Correlate_Genomic_Events_Preprocess/COADREAD-TP/6068690/transformed.cor.cli.txt", "-iC=/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_mergedClustering/COADREAD-TP/6165701/COADREAD-TP.transferedmergedcluster.txt", "-fF=", "-fC=3", "-fH=5", "-fW=9", "-fP=OUT", "-cP=0.05", "-cQ=0.25", "-MF=ALL", "-oT=COADREAD-TP", "-nV=Nozzle.R1", "-OP=MUTSIG", "-iT=", "-iX=")
[1] "terrence_modification_tag"
[1] TRUE
[1] "nver"          "-nV=Nozzle.R1"
[1] "nfn"                                 "/xchip/tcga/Tools/Nozzle/v1.current"
[1] "Nozzle.R1"
[1] "successfully load Nozzle.R1"
[1] "ofn"             "-oT=COADREAD-TP"
[1] "opt"        "-OP=MUTSIG"
[1] "tl"   "-iT="
[1] "dx"   "-iX="
[1] "opt"    "MUTSIG"
[1] "dx" ""  
[1] "cfn:"
[1] "/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_mergedClustering/COADREAD-TP/6165701/COADREAD-TP.transferedmergedcluster.txt"
[1] "dfn:"
[1] "/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_Correlate_Genomic_Events_Preprocess/COADREAD-TP/6068690/transformed.cor.cli.txt"

nPatients in clinical file=602, in cluster file=223, common to both=223
[1]  24 223
[1] "APC MUTATION ANALYSIS"
[1] 3
  APC MUTATED APC WILD-TYPE 
          160            63 
  APC MUTATED APC WILD-TYPE 
          160            63 
[1] "FBXW7 MUTATION ANALYSIS"
[1] 3
  FBXW7 MUTATED FBXW7 WILD-TYPE 
             38             185 
  FBXW7 MUTATED FBXW7 WILD-TYPE 
             38             185 
[1] "NRAS MUTATION ANALYSIS"
[1] 3
  NRAS MUTATED NRAS WILD-TYPE 
            20            203 
  NRAS MUTATED NRAS WILD-TYPE 
            20            203 
[1] "BRAF MUTATION ANALYSIS"
[1] 3
  BRAF MUTATED BRAF WILD-TYPE 
            22            201 
  BRAF MUTATED BRAF WILD-TYPE 
            22            201 
[1] "KRAS MUTATION ANALYSIS"
[1] 3
  KRAS MUTATED KRAS WILD-TYPE 
            96            127 
  KRAS MUTATED KRAS WILD-TYPE 
            96            127 
[1] "TP53 MUTATION ANALYSIS"
[1] 3
  TP53 MUTATED TP53 WILD-TYPE 
           119            104 
  TP53 MUTATED TP53 WILD-TYPE 
           119            104 
[1] "SMAD4 MUTATION ANALYSIS"
[1] 3
  SMAD4 MUTATED SMAD4 WILD-TYPE 
             26             197 
  SMAD4 MUTATED SMAD4 WILD-TYPE 
             26             197 
[1] "FAM123B MUTATION ANALYSIS"
[1] 3
  FAM123B MUTATED FAM123B WILD-TYPE 
               25               198 
  FAM123B MUTATED FAM123B WILD-TYPE 
               25               198 
[1] "PIK3CA MUTATION ANALYSIS"
[1] 3
  PIK3CA MUTATED PIK3CA WILD-TYPE 
              33              190 
  PIK3CA MUTATED PIK3CA WILD-TYPE 
              33              190 
[1] "SMAD2 MUTATION ANALYSIS"
[1] 3
  SMAD2 MUTATED SMAD2 WILD-TYPE 
             15             208 
  SMAD2 MUTATED SMAD2 WILD-TYPE 
             15             208 
[1] "TCF7L2 MUTATION ANALYSIS"
[1] 3
  TCF7L2 MUTATED TCF7L2 WILD-TYPE 
              18              205 
  TCF7L2 MUTATED TCF7L2 WILD-TYPE 
              18              205 
[1] "ACVR2A MUTATION ANALYSIS"
[1] 3
  ACVR2A MUTATED ACVR2A WILD-TYPE 
               9              214 
  ACVR2A MUTATED ACVR2A WILD-TYPE 
               9              214 
[1] "SOX9 MUTATION ANALYSIS"
[1] 3
  SOX9 MUTATED SOX9 WILD-TYPE 
            10            213 
  SOX9 MUTATED SOX9 WILD-TYPE 
            10            213 
[1] "ELF3 MUTATION ANALYSIS"
[1] 3
  ELF3 MUTATED ELF3 WILD-TYPE 
             6            217 
  ELF3 MUTATED ELF3 WILD-TYPE 
             6            217 
[1] "CRTC1 MUTATION ANALYSIS"
[1] 3
  CRTC1 MUTATED CRTC1 WILD-TYPE 
              6             217 
  CRTC1 MUTATED CRTC1 WILD-TYPE 
              6             217 
[1] "TNFRSF10C MUTATION ANALYSIS"
[1] 3
  TNFRSF10C MUTATED TNFRSF10C WILD-TYPE 
                  6                 217 
  TNFRSF10C MUTATED TNFRSF10C WILD-TYPE 
                  6                 217 
[1] "KIAA1804 MUTATION ANALYSIS"
[1] 3
  KIAA1804 MUTATED KIAA1804 WILD-TYPE 
                15                208 
  KIAA1804 MUTATED KIAA1804 WILD-TYPE 
                15                208 
[1] "KRTAP5-5 MUTATION ANALYSIS"
[1] 3
  KRTAP5-5 MUTATED KRTAP5-5 WILD-TYPE 
                 4                219 
  KRTAP5-5 MUTATED KRTAP5-5 WILD-TYPE 
                 4                219 
[1] "PTEN MUTATION ANALYSIS"
[1] 3
  PTEN MUTATED PTEN WILD-TYPE 
             7            216 
  PTEN MUTATED PTEN WILD-TYPE 
             7            216 
[1] "ACOT4 MUTATION ANALYSIS"
[1] 3
  ACOT4 MUTATED ACOT4 WILD-TYPE 
              3             220 
  ACOT4 MUTATED ACOT4 WILD-TYPE 
              3             220 
[1] "MYO1B MUTATION ANALYSIS"
[1] 3
  MYO1B MUTATED MYO1B WILD-TYPE 
             13             210 
  MYO1B MUTATED MYO1B WILD-TYPE 
             13             210 
[1] "PCBP1 MUTATION ANALYSIS"
[1] 3
  PCBP1 MUTATED PCBP1 WILD-TYPE 
              6             217 
  PCBP1 MUTATED PCBP1 WILD-TYPE 
              6             217 
[1] "GGT1 MUTATION ANALYSIS"
[1] 3
  GGT1 MUTATED GGT1 WILD-TYPE 
             3            220 
  GGT1 MUTATED GGT1 WILD-TYPE 
             3            220 
[1] "ACVR1B MUTATION ANALYSIS"
[1] 3
  ACVR1B MUTATED ACVR1B WILD-TYPE 
              14              209 
  ACVR1B MUTATED ACVR1B WILD-TYPE 
              14              209 
[1] "terrence_modification_tag"
[1] TRUE
[1] "data2feature, selection="
 [1] "MRNA_CNMF"                   "MRNA_CHIERARCHICAL"         
 [3] "CN_CNMF"                     "METHLYATION_CNMF"           
 [5] "RPPA_CNMF"                   "RPPA_CHIERARCHICAL"         
 [7] "MRNASEQ_CNMF"                "MRNASEQ_CHIERARCHICAL"      
 [9] "MIRSEQ_CNMF"                 "MIRSEQ_CHIERARCHICAL"       
[11] "MIRSEQ_MATURE_CNMF"          "MIRSEQ_MATURE_CHIERARCHICAL"

Input Data has 12 rows and 223 columns.

Variable 1:'MRNA_CNMF':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 2:'MRNA_CHIERARCHICAL':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 3:'CN_CNMF':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 4:'METHLYATION_CNMF':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 5:'RPPA_CNMF':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 6:'RPPA_CHIERARCHICAL':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 7:'MRNASEQ_CNMF':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 8:'MRNASEQ_CHIERARCHICAL':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 9:'MIRSEQ_CNMF':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 10:'MIRSEQ_CHIERARCHICAL':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 11:'MIRSEQ_MATURE_CNMF':	nDistinctValues=0,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
Variable 12:'MIRSEQ_MATURE_CHIERARCHICAL':	nDistinctValues=0,	numeric=FALSE,	binary=FALSE,	exclude=TRUE.
[1] "rownames(nsurv.mat)"
 [1] "MRNA_CNMF"             "MRNA_CHIERARCHICAL"    "CN_CNMF"              
 [4] "METHLYATION_CNMF"      "RPPA_CNMF"             "RPPA_CHIERARCHICAL"   
 [7] "MRNASEQ_CNMF"          "MRNASEQ_CHIERARCHICAL" "MIRSEQ_CNMF"          
[10] "MIRSEQ_CHIERARCHICAL" 
[1] "TUMOR.?STAGE"
[1] "TUMOR.?GRADE"
[1] "PATHOLOGY.T"
[1] "PATHOLOGY.N"
Output Data has 223 columns, 0 survival variables, and 10 non-survival variables.
MRNA_CNMF, nv=4, binary=FALSE, numeric=FALSE
MRNA_CHIERARCHICAL, nv=4, binary=FALSE, numeric=FALSE
CN_CNMF, nv=4, binary=FALSE, numeric=FALSE
METHLYATION_CNMF, nv=3, binary=FALSE, numeric=FALSE
RPPA_CNMF, nv=4, binary=FALSE, numeric=FALSE
RPPA_CHIERARCHICAL, nv=4, binary=FALSE, numeric=FALSE
MRNASEQ_CNMF, nv=4, binary=FALSE, numeric=FALSE
MRNASEQ_CHIERARCHICAL, nv=3, binary=FALSE, numeric=FALSE
MIRSEQ_CNMF, nv=3, binary=FALSE, numeric=FALSE
MIRSEQ_CHIERARCHICAL, nv=3, binary=FALSE, numeric=FALSE

Clustering(1) Variable = APC MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  APC MUTATED       21     46     50     30
  APC WILD-TYPE     21     11     17      9
D1V1, multiclass
        clus
vv       APC MUTATED APC WILD-TYPE
  CLUS_1          21            21
  CLUS_2          46            11
  CLUS_3          50            17
  CLUS_4          30             9
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  APC MUTATED       32     35     35     45
  APC WILD-TYPE      8     13     26     11
D1V2, multiclass
        clus
vv       APC MUTATED APC WILD-TYPE
  CLUS_1          32             8
  CLUS_2          35            13
  CLUS_3          35            26
  CLUS_4          45            11
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  APC MUTATED       54     53     47      3
  APC WILD-TYPE     15     32     15      1
D1V3, multiclass
        clus
vv       APC MUTATED APC WILD-TYPE
  CLUS_1          54            15
  CLUS_2          53            32
  CLUS_3          47            15
  CLUS_4           3             1
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  APC MUTATED        5      2      1
  APC WILD-TYPE      0      0      0
D1V4, multiclass
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  APC MUTATED       32     44     17     18
  APC WILD-TYPE      8     23      7      8
D1V5, multiclass
        clus
vv       APC MUTATED APC WILD-TYPE
  CLUS_1          32             8
  CLUS_2          44            23
  CLUS_3          17             7
  CLUS_4          18             8
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  APC MUTATED       16     75     15      5
  APC WILD-TYPE      4     34      4      4
D1V6, multiclass
        clus
vv       APC MUTATED APC WILD-TYPE
  CLUS_1          16             4
  CLUS_2          75            34
  CLUS_3          15             4
  CLUS_4           5             4
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  APC MUTATED        5     20      7    124
  APC WILD-TYPE      3      6      6     45
D1V7, multiclass
        clus
vv       APC MUTATED APC WILD-TYPE
  CLUS_1           5             3
  CLUS_2          20             6
  CLUS_3           7             6
  CLUS_4         124            45
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  APC MUTATED      155      1      0
  APC WILD-TYPE     58      1      1
D1V8, multiclass
        clus
vv       APC MUTATED APC WILD-TYPE
  CLUS_1         155            58
  CLUS_2           1             1
  CLUS_3           0             1
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  APC MUTATED        3      5    141
  APC WILD-TYPE      0      4     53
D1V9, multiclass
        clus
vv       APC MUTATED APC WILD-TYPE
  CLUS_1           3             0
  CLUS_2           5             4
  CLUS_3         141            53
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  APC MUTATED        6      1    142
  APC WILD-TYPE      2      1     54
D1V10, multiclass
        clus
vv       APC MUTATED APC WILD-TYPE
  CLUS_1           6             2
  CLUS_2           1             1
  CLUS_3         142            54

Clustering(2) Variable = FBXW7 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FBXW7 MUTATED       11      6      7      9
  FBXW7 WILD-TYPE     31     51     60     30
D2V1, multiclass
        clus
vv       FBXW7 MUTATED FBXW7 WILD-TYPE
  CLUS_1            11              31
  CLUS_2             6              51
  CLUS_3             7              60
  CLUS_4             9              30
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FBXW7 MUTATED        4      5     17      7
  FBXW7 WILD-TYPE     36     43     44     49
D2V2, multiclass
        clus
vv       FBXW7 MUTATED FBXW7 WILD-TYPE
  CLUS_1             4              36
  CLUS_2             5              43
  CLUS_3            17              44
  CLUS_4             7              49
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FBXW7 MUTATED        2     26      9      1
  FBXW7 WILD-TYPE     67     59     53      3
D2V3, multiclass
        clus
vv       FBXW7 MUTATED FBXW7 WILD-TYPE
  CLUS_1             2              67
  CLUS_2            26              59
  CLUS_3             9              53
  CLUS_4             1               3
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FBXW7 MUTATED        1      1      0
  FBXW7 WILD-TYPE      4      1      1
D2V4, multiclass
[1] "Remove cluster labels:" "FBXW7 MUTATED"         
clus
  FBXW7 MUTATED FBXW7 WILD-TYPE 
              2               6 
     TCGA-A6-3810      TCGA-AG-A01W      TCGA-AG-A01Y      TCGA-AG-A020 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
     TCGA-AG-A026      TCGA-AG-A036 
"FBXW7 WILD-TYPE" "FBXW7 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FBXW7 MUTATED        7      9      2     11
  FBXW7 WILD-TYPE     33     58     22     15
D2V5, multiclass
        clus
vv       FBXW7 MUTATED FBXW7 WILD-TYPE
  CLUS_1             7              33
  CLUS_2             9              58
  CLUS_3             2              22
  CLUS_4            11              15
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FBXW7 MUTATED        3     18      8      0
  FBXW7 WILD-TYPE     17     91     11      9
D2V6, multiclass
        clus
vv       FBXW7 MUTATED FBXW7 WILD-TYPE
  CLUS_1             3              17
  CLUS_2            18              91
  CLUS_3             8              11
  CLUS_4             0               9
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FBXW7 MUTATED        0     12      1     25
  FBXW7 WILD-TYPE      8     14     12    144
D2V7, multiclass
        clus
vv       FBXW7 MUTATED FBXW7 WILD-TYPE
  CLUS_1             0               8
  CLUS_2            12              14
  CLUS_3             1              12
  CLUS_4            25             144
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FBXW7 MUTATED       37      1      0
  FBXW7 WILD-TYPE    176      1      1
D2V8, multiclass
        clus
vv       FBXW7 MUTATED FBXW7 WILD-TYPE
  CLUS_1            37             176
  CLUS_2             1               1
  CLUS_3             0               1
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FBXW7 MUTATED        0      0     36
  FBXW7 WILD-TYPE      3      9    158
D2V9, multiclass
        clus
vv       FBXW7 MUTATED FBXW7 WILD-TYPE
  CLUS_1             0               3
  CLUS_2             0               9
  CLUS_3            36             158
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FBXW7 MUTATED        0      1     35
  FBXW7 WILD-TYPE      8      1    161
D2V10, multiclass
        clus
vv       FBXW7 MUTATED FBXW7 WILD-TYPE
  CLUS_1             0               8
  CLUS_2             1               1
  CLUS_3            35             161

Clustering(3) Variable = NRAS MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NRAS MUTATED        0      8      6      5
  NRAS WILD-TYPE     42     49     61     34
D3V1, multiclass
        clus
vv       NRAS MUTATED NRAS WILD-TYPE
  CLUS_1            0             42
  CLUS_2            8             49
  CLUS_3            6             61
  CLUS_4            5             34
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NRAS MUTATED        1      8      4      6
  NRAS WILD-TYPE     39     40     57     50
D3V2, multiclass
        clus
vv       NRAS MUTATED NRAS WILD-TYPE
  CLUS_1            1             39
  CLUS_2            8             40
  CLUS_3            4             57
  CLUS_4            6             50
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NRAS MUTATED        9      9      2      0
  NRAS WILD-TYPE     60     76     60      4
D3V3, multiclass
        clus
vv       NRAS MUTATED NRAS WILD-TYPE
  CLUS_1            9             60
  CLUS_2            9             76
  CLUS_3            2             60
  CLUS_4            0              4
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NRAS MUTATED        0      0      0
  NRAS WILD-TYPE      5      2      1
D3V4, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NRAS MUTATED        3      7      1      2
  NRAS WILD-TYPE     37     60     23     24
D3V5, multiclass
        clus
vv       NRAS MUTATED NRAS WILD-TYPE
  CLUS_1            3             37
  CLUS_2            7             60
  CLUS_3            1             23
  CLUS_4            2             24
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NRAS MUTATED        0     10      2      1
  NRAS WILD-TYPE     20     99     17      8
D3V6, multiclass
        clus
vv       NRAS MUTATED NRAS WILD-TYPE
  CLUS_1            0             20
  CLUS_2           10             99
  CLUS_3            2             17
  CLUS_4            1              8
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NRAS MUTATED        0      5      0     14
  NRAS WILD-TYPE      8     21     13    155
D3V7, multiclass
        clus
vv       NRAS MUTATED NRAS WILD-TYPE
  CLUS_1            0              8
  CLUS_2            5             21
  CLUS_3            0             13
  CLUS_4           14            155
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NRAS MUTATED       19      0      0
  NRAS WILD-TYPE    194      2      1
D3V8, multiclass
        clus
vv       NRAS MUTATED NRAS WILD-TYPE
  CLUS_1           19            194
  CLUS_2            0              2
  CLUS_3            0              1
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NRAS MUTATED        1      0     17
  NRAS WILD-TYPE      2      9    177
D3V9, multiclass
        clus
vv       NRAS MUTATED NRAS WILD-TYPE
  CLUS_1            1              2
  CLUS_2            0              9
  CLUS_3           17            177
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NRAS MUTATED        0      0     18
  NRAS WILD-TYPE      8      2    178
D3V10, multiclass
        clus
vv       NRAS MUTATED NRAS WILD-TYPE
  CLUS_1            0              8
  CLUS_2            0              2
  CLUS_3           18            178

Clustering(4) Variable = BRAF MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  BRAF MUTATED       13      1      1      5
  BRAF WILD-TYPE     29     56     66     34
D4V1, multiclass
        clus
vv       BRAF MUTATED BRAF WILD-TYPE
  CLUS_1           13             29
  CLUS_2            1             56
  CLUS_3            1             66
  CLUS_4            5             34
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  BRAF MUTATED        1      0     18      1
  BRAF WILD-TYPE     39     48     43     55
D4V2, multiclass
        clus
vv       BRAF MUTATED BRAF WILD-TYPE
  CLUS_1            1             39
  CLUS_2            0             48
  CLUS_3           18             43
  CLUS_4            1             55
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  BRAF MUTATED        1     18      3      0
  BRAF WILD-TYPE     68     67     59      4
D4V3, multiclass
        clus
vv       BRAF MUTATED BRAF WILD-TYPE
  CLUS_1            1             68
  CLUS_2           18             67
  CLUS_3            3             59
  CLUS_4            0              4
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  BRAF MUTATED        0      0      0
  BRAF WILD-TYPE      5      2      1
D4V4, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  BRAF MUTATED        3      4      4      2
  BRAF WILD-TYPE     37     63     20     24
D4V5, multiclass
        clus
vv       BRAF MUTATED BRAF WILD-TYPE
  CLUS_1            3             37
  CLUS_2            4             63
  CLUS_3            4             20
  CLUS_4            2             24
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  BRAF MUTATED        1      8      2      2
  BRAF WILD-TYPE     19    101     17      7
D4V6, multiclass
        clus
vv       BRAF MUTATED BRAF WILD-TYPE
  CLUS_1            1             19
  CLUS_2            8            101
  CLUS_3            2             17
  CLUS_4            2              7
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  BRAF MUTATED        1      4      0     17
  BRAF WILD-TYPE      7     22     13    152
D4V7, multiclass
        clus
vv       BRAF MUTATED BRAF WILD-TYPE
  CLUS_1            1              7
  CLUS_2            4             22
  CLUS_3            0             13
  CLUS_4           17            152
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  BRAF MUTATED       21      1      0
  BRAF WILD-TYPE    192      1      1
D4V8, multiclass
        clus
vv       BRAF MUTATED BRAF WILD-TYPE
  CLUS_1           21            192
  CLUS_2            1              1
  CLUS_3            0              1
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  BRAF MUTATED        0      1     21
  BRAF WILD-TYPE      3      8    173
D4V9, multiclass
        clus
vv       BRAF MUTATED BRAF WILD-TYPE
  CLUS_1            0              3
  CLUS_2            1              8
  CLUS_3           21            173
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  BRAF MUTATED        0      0     22
  BRAF WILD-TYPE      8      2    174
D4V10, multiclass
        clus
vv       BRAF MUTATED BRAF WILD-TYPE
  CLUS_1            0              8
  CLUS_2            0              2
  CLUS_3           22            174

Clustering(5) Variable = KRAS MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KRAS MUTATED       13     14     31     27
  KRAS WILD-TYPE     29     43     36     12
D5V1, multiclass
        clus
vv       KRAS MUTATED KRAS WILD-TYPE
  CLUS_1           13             29
  CLUS_2           14             43
  CLUS_3           31             36
  CLUS_4           27             12
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KRAS MUTATED       10     33     26     16
  KRAS WILD-TYPE     30     15     35     40
D5V2, multiclass
        clus
vv       KRAS MUTATED KRAS WILD-TYPE
  CLUS_1           10             30
  CLUS_2           33             15
  CLUS_3           26             35
  CLUS_4           16             40
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KRAS MUTATED       25     40     27      3
  KRAS WILD-TYPE     44     45     35      1
D5V3, multiclass
        clus
vv       KRAS MUTATED KRAS WILD-TYPE
  CLUS_1           25             44
  CLUS_2           40             45
  CLUS_3           27             35
  CLUS_4            3              1
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  KRAS MUTATED        1      2      0
  KRAS WILD-TYPE      4      0      1
D5V4, multiclass
        clus
vv       KRAS MUTATED KRAS WILD-TYPE
  CLUS_1            1              4
  CLUS_2            2              0
  CLUS_3            0              1
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KRAS MUTATED       16     34      9     13
  KRAS WILD-TYPE     24     33     15     13
D5V5, multiclass
        clus
vv       KRAS MUTATED KRAS WILD-TYPE
  CLUS_1           16             24
  CLUS_2           34             33
  CLUS_3            9             15
  CLUS_4           13             13
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KRAS MUTATED        9     50      9      4
  KRAS WILD-TYPE     11     59     10      5
D5V6, multiclass
        clus
vv       KRAS MUTATED KRAS WILD-TYPE
  CLUS_1            9             11
  CLUS_2           50             59
  CLUS_3            9             10
  CLUS_4            4              5
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KRAS MUTATED        4     19      2     66
  KRAS WILD-TYPE      4      7     11    103
D5V7, multiclass
        clus
vv       KRAS MUTATED KRAS WILD-TYPE
  CLUS_1            4              4
  CLUS_2           19              7
  CLUS_3            2             11
  CLUS_4           66            103
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  KRAS MUTATED       89      1      1
  KRAS WILD-TYPE    124      1      0
D5V8, multiclass
        clus
vv       KRAS MUTATED KRAS WILD-TYPE
  CLUS_1           89            124
  CLUS_2            1              1
  CLUS_3            1              0
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  KRAS MUTATED        0      7     79
  KRAS WILD-TYPE      3      2    115
D5V9, multiclass
        clus
vv       KRAS MUTATED KRAS WILD-TYPE
  CLUS_1            0              3
  CLUS_2            7              2
  CLUS_3           79            115
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  KRAS MUTATED        1      2     83
  KRAS WILD-TYPE      7      0    113
D5V10, multiclass
        clus
vv       KRAS MUTATED KRAS WILD-TYPE
  CLUS_1            1              7
  CLUS_2            2              0
  CLUS_3           83            113

Clustering(6) Variable = TP53 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TP53 MUTATED       17     40     39     14
  TP53 WILD-TYPE     25     17     28     25
D6V1, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1           17             25
  CLUS_2           40             17
  CLUS_3           39             28
  CLUS_4           14             25
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TP53 MUTATED       30     19     25     36
  TP53 WILD-TYPE     10     29     36     20
D6V2, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1           30             10
  CLUS_2           19             29
  CLUS_3           25             36
  CLUS_4           36             20
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TP53 MUTATED       55     23     38      1
  TP53 WILD-TYPE     14     62     24      3
D6V3, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1           55             14
  CLUS_2           23             62
  CLUS_3           38             24
  CLUS_4            1              3
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TP53 MUTATED        4      2      1
  TP53 WILD-TYPE      1      0      0
D6V4, multiclass
[1] "Remove cluster labels:" "TP53 WILD-TYPE"        
clus
  TP53 MUTATED TP53 WILD-TYPE 
             7              1 
  TCGA-A6-3810   TCGA-AG-A01W   TCGA-AG-A01Y   TCGA-AG-A020   TCGA-AG-A026 
"TP53 MUTATED" "TP53 MUTATED" "TP53 MUTATED" "TP53 MUTATED" "TP53 MUTATED" 
  TCGA-AG-A02N   TCGA-AG-A036 
"TP53 MUTATED" "TP53 MUTATED" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TP53 MUTATED       18     34     15     12
  TP53 WILD-TYPE     22     33      9     14
D6V5, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1           18             22
  CLUS_2           34             33
  CLUS_3           15              9
  CLUS_4           12             14
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TP53 MUTATED        8     57      9      5
  TP53 WILD-TYPE     12     52     10      4
D6V6, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1            8             12
  CLUS_2           57             52
  CLUS_3            9             10
  CLUS_4            5              4
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TP53 MUTATED        3      7      8     96
  TP53 WILD-TYPE      5     19      5     73
D6V7, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1            3              5
  CLUS_2            7             19
  CLUS_3            8              5
  CLUS_4           96             73
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TP53 MUTATED      113      1      0
  TP53 WILD-TYPE    100      1      1
D6V8, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1          113            100
  CLUS_2            1              1
  CLUS_3            0              1
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TP53 MUTATED        3      2    106
  TP53 WILD-TYPE      0      7     88
D6V9, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1            3              0
  CLUS_2            2              7
  CLUS_3          106             88
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TP53 MUTATED        6      1    104
  TP53 WILD-TYPE      2      1     92
D6V10, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1            6              2
  CLUS_2            1              1
  CLUS_3          104             92

Clustering(7) Variable = SMAD4 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SMAD4 MUTATED        7      4      4      9
  SMAD4 WILD-TYPE     35     53     63     30
D7V1, multiclass
        clus
vv       SMAD4 MUTATED SMAD4 WILD-TYPE
  CLUS_1             7              35
  CLUS_2             4              53
  CLUS_3             4              63
  CLUS_4             9              30
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SMAD4 MUTATED        5      6     10      3
  SMAD4 WILD-TYPE     35     42     51     53
D7V2, multiclass
        clus
vv       SMAD4 MUTATED SMAD4 WILD-TYPE
  CLUS_1             5              35
  CLUS_2             6              42
  CLUS_3            10              51
  CLUS_4             3              53
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SMAD4 MUTATED        3     15      8      0
  SMAD4 WILD-TYPE     66     70     54      4
D7V3, multiclass
        clus
vv       SMAD4 MUTATED SMAD4 WILD-TYPE
  CLUS_1             3              66
  CLUS_2            15              70
  CLUS_3             8              54
  CLUS_4             0               4
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SMAD4 MUTATED        1      0      0
  SMAD4 WILD-TYPE      4      2      1
D7V4, multiclass
[1] "Remove cluster labels:" "SMAD4 MUTATED"         
clus
  SMAD4 MUTATED SMAD4 WILD-TYPE 
              1               7 
     TCGA-A6-2677      TCGA-A6-3810      TCGA-AG-A01W      TCGA-AG-A01Y 
"SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" 
     TCGA-AG-A026      TCGA-AG-A02N      TCGA-AG-A036 
"SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" "SMAD4 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SMAD4 MUTATED        4     10      4      3
  SMAD4 WILD-TYPE     36     57     20     23
D7V5, multiclass
        clus
vv       SMAD4 MUTATED SMAD4 WILD-TYPE
  CLUS_1             4              36
  CLUS_2            10              57
  CLUS_3             4              20
  CLUS_4             3              23
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SMAD4 MUTATED        2     14      2      3
  SMAD4 WILD-TYPE     18     95     17      6
D7V6, multiclass
        clus
vv       SMAD4 MUTATED SMAD4 WILD-TYPE
  CLUS_1             2              18
  CLUS_2            14              95
  CLUS_3             2              17
  CLUS_4             3               6
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SMAD4 MUTATED        1      4      0     20
  SMAD4 WILD-TYPE      7     22     13    149
D7V7, multiclass
        clus
vv       SMAD4 MUTATED SMAD4 WILD-TYPE
  CLUS_1             1               7
  CLUS_2             4              22
  CLUS_3             0              13
  CLUS_4            20             149
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SMAD4 MUTATED       25      0      0
  SMAD4 WILD-TYPE    188      2      1
D7V8, multiclass
        clus
vv       SMAD4 MUTATED SMAD4 WILD-TYPE
  CLUS_1            25             188
  CLUS_2             0               2
  CLUS_3             0               1
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SMAD4 MUTATED        0      1     24
  SMAD4 WILD-TYPE      3      8    170
D7V9, multiclass
        clus
vv       SMAD4 MUTATED SMAD4 WILD-TYPE
  CLUS_1             0               3
  CLUS_2             1               8
  CLUS_3            24             170
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SMAD4 MUTATED        1      0     24
  SMAD4 WILD-TYPE      7      2    172
D7V10, multiclass
        clus
vv       SMAD4 MUTATED SMAD4 WILD-TYPE
  CLUS_1             1               7
  CLUS_2             0               2
  CLUS_3            24             172

Clustering(8) Variable = FAM123B MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FAM123B MUTATED        9      5      4      6
  FAM123B WILD-TYPE     33     52     63     33
D8V1, multiclass
        clus
vv       FAM123B MUTATED FAM123B WILD-TYPE
  CLUS_1               9                33
  CLUS_2               5                52
  CLUS_3               4                63
  CLUS_4               6                33
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FAM123B MUTATED        2      3     12      7
  FAM123B WILD-TYPE     38     45     49     49
D8V2, multiclass
        clus
vv       FAM123B MUTATED FAM123B WILD-TYPE
  CLUS_1               2                38
  CLUS_2               3                45
  CLUS_3              12                49
  CLUS_4               7                49
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FAM123B MUTATED        5     17      2      0
  FAM123B WILD-TYPE     64     68     60      4
D8V3, multiclass
        clus
vv       FAM123B MUTATED FAM123B WILD-TYPE
  CLUS_1               5                64
  CLUS_2              17                68
  CLUS_3               2                60
  CLUS_4               0                 4
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  FAM123B MUTATED        0      1      0
  FAM123B WILD-TYPE      5      1      1
D8V4, multiclass
[1] "Remove cluster labels:" "FAM123B MUTATED"       
clus
  FAM123B MUTATED FAM123B WILD-TYPE 
                1                 7 
       TCGA-A6-2677        TCGA-A6-3810        TCGA-AG-A01W        TCGA-AG-A01Y 
"FAM123B WILD-TYPE" "FAM123B WILD-TYPE" "FAM123B WILD-TYPE" "FAM123B WILD-TYPE" 
       TCGA-AG-A020        TCGA-AG-A026        TCGA-AG-A036 
"FAM123B WILD-TYPE" "FAM123B WILD-TYPE" "FAM123B WILD-TYPE" 
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FAM123B MUTATED        2      7      2      5
  FAM123B WILD-TYPE     38     60     22     21
D8V5, multiclass
        clus
vv       FAM123B MUTATED FAM123B WILD-TYPE
  CLUS_1               2                38
  CLUS_2               7                60
  CLUS_3               2                22
  CLUS_4               5                21
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FAM123B MUTATED        1     12      3      0
  FAM123B WILD-TYPE     19     97     16      9
D8V6, multiclass
        clus
vv       FAM123B MUTATED FAM123B WILD-TYPE
  CLUS_1               1                19
  CLUS_2              12                97
  CLUS_3               3                16
  CLUS_4               0                 9
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FAM123B MUTATED        1      7      0     17
  FAM123B WILD-TYPE      7     19     13    152
D8V7, multiclass
        clus
vv       FAM123B MUTATED FAM123B WILD-TYPE
  CLUS_1               1                 7
  CLUS_2               7                19
  CLUS_3               0                13
  CLUS_4              17               152
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  FAM123B MUTATED       25      0      0
  FAM123B WILD-TYPE    188      2      1
D8V8, multiclass
        clus
vv       FAM123B MUTATED FAM123B WILD-TYPE
  CLUS_1              25               188
  CLUS_2               0                 2
  CLUS_3               0                 1
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  FAM123B MUTATED        0      1     23
  FAM123B WILD-TYPE      3      8    171
D8V9, multiclass
        clus
vv       FAM123B MUTATED FAM123B WILD-TYPE
  CLUS_1               0                 3
  CLUS_2               1                 8
  CLUS_3              23               171
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  FAM123B MUTATED        1      0     23
  FAM123B WILD-TYPE      7      2    173
D8V10, multiclass
        clus
vv       FAM123B MUTATED FAM123B WILD-TYPE
  CLUS_1               1                 7
  CLUS_2               0                 2
  CLUS_3              23               173

Clustering(9) Variable = PIK3CA MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PIK3CA MUTATED        8      4      7      7
  PIK3CA WILD-TYPE     34     53     60     32
D9V1, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1              8               34
  CLUS_2              4               53
  CLUS_3              7               60
  CLUS_4              7               32
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PIK3CA MUTATED        3      7     10      6
  PIK3CA WILD-TYPE     37     41     51     50
D9V2, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1              3               37
  CLUS_2              7               41
  CLUS_3             10               51
  CLUS_4              6               50
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PIK3CA MUTATED        4     23      4      1
  PIK3CA WILD-TYPE     65     62     58      3
D9V3, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1              4               65
  CLUS_2             23               62
  CLUS_3              4               58
  CLUS_4              1                3
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PIK3CA MUTATED        1      1      0
  PIK3CA WILD-TYPE      4      1      1
D9V4, multiclass
[1] "Remove cluster labels:" "PIK3CA MUTATED"        
clus
  PIK3CA MUTATED PIK3CA WILD-TYPE 
               2                6 
      TCGA-A6-2677       TCGA-A6-3810       TCGA-AG-A01W       TCGA-AG-A01Y 
"PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" 
      TCGA-AG-A026       TCGA-AG-A036 
"PIK3CA WILD-TYPE" "PIK3CA WILD-TYPE" 
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PIK3CA MUTATED       11      9      1      6
  PIK3CA WILD-TYPE     29     58     23     20
D9V5, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1             11               29
  CLUS_2              9               58
  CLUS_3              1               23
  CLUS_4              6               20
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PIK3CA MUTATED        6     16      5      0
  PIK3CA WILD-TYPE     14     93     14      9
D9V6, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1              6               14
  CLUS_2             16               93
  CLUS_3              5               14
  CLUS_4              0                9
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PIK3CA MUTATED        2      7      0     23
  PIK3CA WILD-TYPE      6     19     13    146
D9V7, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1              2                6
  CLUS_2              7               19
  CLUS_3              0               13
  CLUS_4             23              146
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PIK3CA MUTATED       32      0      0
  PIK3CA WILD-TYPE    181      2      1
D9V8, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1             32              181
  CLUS_2              0                2
  CLUS_3              0                1
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PIK3CA MUTATED        0      3     26
  PIK3CA WILD-TYPE      3      6    168
D9V9, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1              0                3
  CLUS_2              3                6
  CLUS_3             26              168
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PIK3CA MUTATED        1      0     28
  PIK3CA WILD-TYPE      7      2    168
D9V10, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1              1                7
  CLUS_2              0                2
  CLUS_3             28              168

Clustering(10) Variable = SMAD2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SMAD2 MUTATED        4      2      2      5
  SMAD2 WILD-TYPE     38     55     65     34
D10V1, multiclass
        clus
vv       SMAD2 MUTATED SMAD2 WILD-TYPE
  CLUS_1             4              38
  CLUS_2             2              55
  CLUS_3             2              65
  CLUS_4             5              34
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SMAD2 MUTATED        3      2      6      2
  SMAD2 WILD-TYPE     37     46     55     54
D10V2, multiclass
        clus
vv       SMAD2 MUTATED SMAD2 WILD-TYPE
  CLUS_1             3              37
  CLUS_2             2              46
  CLUS_3             6              55
  CLUS_4             2              54
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SMAD2 MUTATED        2     10      3      0
  SMAD2 WILD-TYPE     67     75     59      4
D10V3, multiclass
        clus
vv       SMAD2 MUTATED SMAD2 WILD-TYPE
  CLUS_1             2              67
  CLUS_2            10              75
  CLUS_3             3              59
  CLUS_4             0               4
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SMAD2 MUTATED        0      1      0
  SMAD2 WILD-TYPE      5      1      1
D10V4, multiclass
[1] "Remove cluster labels:" "SMAD2 MUTATED"         
clus
  SMAD2 MUTATED SMAD2 WILD-TYPE 
              1               7 
     TCGA-A6-2677      TCGA-A6-3810      TCGA-AG-A01Y      TCGA-AG-A020 
"SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" 
     TCGA-AG-A026      TCGA-AG-A02N      TCGA-AG-A036 
"SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" "SMAD2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SMAD2 MUTATED        2      3      2      3
  SMAD2 WILD-TYPE     38     64     22     23
D10V5, multiclass
        clus
vv       SMAD2 MUTATED SMAD2 WILD-TYPE
  CLUS_1             2              38
  CLUS_2             3              64
  CLUS_3             2              22
  CLUS_4             3              23
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SMAD2 MUTATED        0      6      3      1
  SMAD2 WILD-TYPE     20    103     16      8
D10V6, multiclass
        clus
vv       SMAD2 MUTATED SMAD2 WILD-TYPE
  CLUS_1             0              20
  CLUS_2             6             103
  CLUS_3             3              16
  CLUS_4             1               8
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SMAD2 MUTATED        0      3      0     12
  SMAD2 WILD-TYPE      8     23     13    157
D10V7, multiclass
        clus
vv       SMAD2 MUTATED SMAD2 WILD-TYPE
  CLUS_1             0               8
  CLUS_2             3              23
  CLUS_3             0              13
  CLUS_4            12             157
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SMAD2 MUTATED       15      0      0
  SMAD2 WILD-TYPE    198      2      1
D10V8, multiclass
        clus
vv       SMAD2 MUTATED SMAD2 WILD-TYPE
  CLUS_1            15             198
  CLUS_2             0               2
  CLUS_3             0               1
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SMAD2 MUTATED        0      0     14
  SMAD2 WILD-TYPE      3      9    180
D10V9, multiclass
        clus
vv       SMAD2 MUTATED SMAD2 WILD-TYPE
  CLUS_1             0               3
  CLUS_2             0               9
  CLUS_3            14             180
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SMAD2 MUTATED        0      0     14
  SMAD2 WILD-TYPE      8      2    182
D10V10, multiclass
        clus
vv       SMAD2 MUTATED SMAD2 WILD-TYPE
  CLUS_1             0               8
  CLUS_2             0               2
  CLUS_3            14             182

Clustering(11) Variable = TCF7L2 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TCF7L2 MUTATED        3      4      5      3
  TCF7L2 WILD-TYPE     39     53     62     36
D11V1, multiclass
        clus
vv       TCF7L2 MUTATED TCF7L2 WILD-TYPE
  CLUS_1              3               39
  CLUS_2              4               53
  CLUS_3              5               62
  CLUS_4              3               36
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TCF7L2 MUTATED        4      5      2      4
  TCF7L2 WILD-TYPE     36     43     59     52
D11V2, multiclass
        clus
vv       TCF7L2 MUTATED TCF7L2 WILD-TYPE
  CLUS_1              4               36
  CLUS_2              5               43
  CLUS_3              2               59
  CLUS_4              4               52
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TCF7L2 MUTATED        7      6      2      3
  TCF7L2 WILD-TYPE     62     79     60      1
D11V3, multiclass
        clus
vv       TCF7L2 MUTATED TCF7L2 WILD-TYPE
  CLUS_1              7               62
  CLUS_2              6               79
  CLUS_3              2               60
  CLUS_4              3                1
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TCF7L2 MUTATED        0      0      0
  TCF7L2 WILD-TYPE      5      2      1
D11V4, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TCF7L2 MUTATED        3      5      1      3
  TCF7L2 WILD-TYPE     37     62     23     23
D11V5, multiclass
        clus
vv       TCF7L2 MUTATED TCF7L2 WILD-TYPE
  CLUS_1              3               37
  CLUS_2              5               62
  CLUS_3              1               23
  CLUS_4              3               23
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TCF7L2 MUTATED        1      9      2      0
  TCF7L2 WILD-TYPE     19    100     17      9
D11V6, multiclass
        clus
vv       TCF7L2 MUTATED TCF7L2 WILD-TYPE
  CLUS_1              1               19
  CLUS_2              9              100
  CLUS_3              2               17
  CLUS_4              0                9
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TCF7L2 MUTATED        0      0      1     16
  TCF7L2 WILD-TYPE      8     26     12    153
D11V7, multiclass
        clus
vv       TCF7L2 MUTATED TCF7L2 WILD-TYPE
  CLUS_1              0                8
  CLUS_2              0               26
  CLUS_3              1               12
  CLUS_4             16              153
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TCF7L2 MUTATED       17      0      0
  TCF7L2 WILD-TYPE    196      2      1
D11V8, multiclass
        clus
vv       TCF7L2 MUTATED TCF7L2 WILD-TYPE
  CLUS_1             17              196
  CLUS_2              0                2
  CLUS_3              0                1
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TCF7L2 MUTATED        0      0     15
  TCF7L2 WILD-TYPE      3      9    179
D11V9, multiclass
        clus
vv       TCF7L2 MUTATED TCF7L2 WILD-TYPE
  CLUS_1              0                3
  CLUS_2              0                9
  CLUS_3             15              179
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  TCF7L2 MUTATED        0      0     15
  TCF7L2 WILD-TYPE      8      2    181
D11V10, multiclass
        clus
vv       TCF7L2 MUTATED TCF7L2 WILD-TYPE
  CLUS_1              0                8
  CLUS_2              0                2
  CLUS_3             15              181

Clustering(12) Variable = ACVR2A MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ACVR2A MUTATED        5      1      0      2
  ACVR2A WILD-TYPE     37     56     67     37
D12V1, multiclass
        clus
vv       ACVR2A MUTATED ACVR2A WILD-TYPE
  CLUS_1              5               37
  CLUS_2              1               56
  CLUS_3              0               67
  CLUS_4              2               37
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ACVR2A MUTATED        1      0      5      2
  ACVR2A WILD-TYPE     39     48     56     54
D12V2, multiclass
        clus
vv       ACVR2A MUTATED ACVR2A WILD-TYPE
  CLUS_1              1               39
  CLUS_2              0               48
  CLUS_3              5               56
  CLUS_4              2               54
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ACVR2A MUTATED        1      8      0      0
  ACVR2A WILD-TYPE     68     77     62      4
D12V3, multiclass
        clus
vv       ACVR2A MUTATED ACVR2A WILD-TYPE
  CLUS_1              1               68
  CLUS_2              8               77
  CLUS_3              0               62
  CLUS_4              0                4
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ACVR2A MUTATED        0      0      0
  ACVR2A WILD-TYPE      5      2      1
D12V4, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ACVR2A MUTATED        0      4      0      3
  ACVR2A WILD-TYPE     40     63     24     23
D12V5, multiclass
        clus
vv       ACVR2A MUTATED ACVR2A WILD-TYPE
  CLUS_1              0               40
  CLUS_2              4               63
  CLUS_3              0               24
  CLUS_4              3               23
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ACVR2A MUTATED        0      5      2      0
  ACVR2A WILD-TYPE     20    104     17      9
D12V6, multiclass
        clus
vv       ACVR2A MUTATED ACVR2A WILD-TYPE
  CLUS_1              0               20
  CLUS_2              5              104
  CLUS_3              2               17
  CLUS_4              0                9
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ACVR2A MUTATED        0      1      0      8
  ACVR2A WILD-TYPE      8     25     13    161
D12V7, multiclass
        clus
vv       ACVR2A MUTATED ACVR2A WILD-TYPE
  CLUS_1              0                8
  CLUS_2              1               25
  CLUS_3              0               13
  CLUS_4              8              161
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ACVR2A MUTATED        9      0      0
  ACVR2A WILD-TYPE    204      2      1
D12V8, multiclass
        clus
vv       ACVR2A MUTATED ACVR2A WILD-TYPE
  CLUS_1              9              204
  CLUS_2              0                2
  CLUS_3              0                1
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ACVR2A MUTATED        1      0      8
  ACVR2A WILD-TYPE      2      9    186
D12V9, multiclass
        clus
vv       ACVR2A MUTATED ACVR2A WILD-TYPE
  CLUS_1              1                2
  CLUS_2              0                9
  CLUS_3              8              186
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ACVR2A MUTATED        0      0      9
  ACVR2A WILD-TYPE      8      2    187
D12V10, multiclass
        clus
vv       ACVR2A MUTATED ACVR2A WILD-TYPE
  CLUS_1              0                8
  CLUS_2              0                2
  CLUS_3              9              187

Clustering(13) Variable = SOX9 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SOX9 MUTATED        2      1      6      0
  SOX9 WILD-TYPE     40     56     61     39
D13V1, multiclass
        clus
vv       SOX9 MUTATED SOX9 WILD-TYPE
  CLUS_1            2             40
  CLUS_2            1             56
  CLUS_3            6             61
  CLUS_4            0             39
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SOX9 MUTATED        2      5      1      1
  SOX9 WILD-TYPE     38     43     60     55
D13V2, multiclass
        clus
vv       SOX9 MUTATED SOX9 WILD-TYPE
  CLUS_1            2             38
  CLUS_2            5             43
  CLUS_3            1             60
  CLUS_4            1             55
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SOX9 MUTATED        0      9      1      0
  SOX9 WILD-TYPE     69     76     61      4
D13V3, multiclass
        clus
vv       SOX9 MUTATED SOX9 WILD-TYPE
  CLUS_1            0             69
  CLUS_2            9             76
  CLUS_3            1             61
  CLUS_4            0              4
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SOX9 MUTATED        0      0      0
  SOX9 WILD-TYPE      5      2      1
D13V4, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SOX9 MUTATED        0      3      0      2
  SOX9 WILD-TYPE     40     64     24     24
D13V5, multiclass
        clus
vv       SOX9 MUTATED SOX9 WILD-TYPE
  CLUS_1            0             40
  CLUS_2            3             64
  CLUS_3            0             24
  CLUS_4            2             24
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SOX9 MUTATED        0      4      1      0
  SOX9 WILD-TYPE     20    105     18      9
D13V6, multiclass
        clus
vv       SOX9 MUTATED SOX9 WILD-TYPE
  CLUS_1            0             20
  CLUS_2            4            105
  CLUS_3            1             18
  CLUS_4            0              9
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SOX9 MUTATED        0      2      0      8
  SOX9 WILD-TYPE      8     24     13    161
D13V7, multiclass
        clus
vv       SOX9 MUTATED SOX9 WILD-TYPE
  CLUS_1            0              8
  CLUS_2            2             24
  CLUS_3            0             13
  CLUS_4            8            161
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SOX9 MUTATED       10      0      0
  SOX9 WILD-TYPE    203      2      1
D13V8, multiclass
        clus
vv       SOX9 MUTATED SOX9 WILD-TYPE
  CLUS_1           10            203
  CLUS_2            0              2
  CLUS_3            0              1
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SOX9 MUTATED        0      0     10
  SOX9 WILD-TYPE      3      9    184
D13V9, multiclass
        clus
vv       SOX9 MUTATED SOX9 WILD-TYPE
  CLUS_1            0              3
  CLUS_2            0              9
  CLUS_3           10            184
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SOX9 MUTATED        0      0     10
  SOX9 WILD-TYPE      8      2    186
D13V10, multiclass
        clus
vv       SOX9 MUTATED SOX9 WILD-TYPE
  CLUS_1            0              8
  CLUS_2            0              2
  CLUS_3           10            186

Clustering(14) Variable = ELF3 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ELF3 MUTATED        1      0      3      2
  ELF3 WILD-TYPE     41     57     64     37
D14V1, multiclass
        clus
vv       ELF3 MUTATED ELF3 WILD-TYPE
  CLUS_1            1             41
  CLUS_2            0             57
  CLUS_3            3             64
  CLUS_4            2             37
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ELF3 MUTATED        2      1      2      1
  ELF3 WILD-TYPE     38     47     59     55
D14V2, multiclass
        clus
vv       ELF3 MUTATED ELF3 WILD-TYPE
  CLUS_1            2             38
  CLUS_2            1             47
  CLUS_3            2             59
  CLUS_4            1             55
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ELF3 MUTATED        0      3      3      0
  ELF3 WILD-TYPE     69     82     59      4
D14V3, multiclass
        clus
vv       ELF3 MUTATED ELF3 WILD-TYPE
  CLUS_1            0             69
  CLUS_2            3             82
  CLUS_3            3             59
  CLUS_4            0              4
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ELF3 MUTATED        0      0      0
  ELF3 WILD-TYPE      5      2      1
D14V4, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ELF3 MUTATED        2      1      0      1
  ELF3 WILD-TYPE     38     66     24     25
D14V5, multiclass
        clus
vv       ELF3 MUTATED ELF3 WILD-TYPE
  CLUS_1            2             38
  CLUS_2            1             66
  CLUS_3            0             24
  CLUS_4            1             25
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ELF3 MUTATED        1      2      1      0
  ELF3 WILD-TYPE     19    107     18      9
D14V6, multiclass
        clus
vv       ELF3 MUTATED ELF3 WILD-TYPE
  CLUS_1            1             19
  CLUS_2            2            107
  CLUS_3            1             18
  CLUS_4            0              9
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ELF3 MUTATED        1      2      0      2
  ELF3 WILD-TYPE      7     24     13    167
D14V7, multiclass
        clus
vv       ELF3 MUTATED ELF3 WILD-TYPE
  CLUS_1            1              7
  CLUS_2            2             24
  CLUS_3            0             13
  CLUS_4            2            167
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ELF3 MUTATED        5      0      0
  ELF3 WILD-TYPE    208      2      1
D14V8, multiclass
        clus
vv       ELF3 MUTATED ELF3 WILD-TYPE
  CLUS_1            5            208
  CLUS_2            0              2
  CLUS_3            0              1
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ELF3 MUTATED        0      0      6
  ELF3 WILD-TYPE      3      9    188
D14V9, multiclass
        clus
vv       ELF3 MUTATED ELF3 WILD-TYPE
  CLUS_1            0              3
  CLUS_2            0              9
  CLUS_3            6            188
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ELF3 MUTATED        0      0      6
  ELF3 WILD-TYPE      8      2    190
D14V10, multiclass
        clus
vv       ELF3 MUTATED ELF3 WILD-TYPE
  CLUS_1            0              8
  CLUS_2            0              2
  CLUS_3            6            190

Clustering(15) Variable = CRTC1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CRTC1 MUTATED        2      0      4      0
  CRTC1 WILD-TYPE     40     57     63     39
D15V1, multiclass
        clus
vv       CRTC1 MUTATED CRTC1 WILD-TYPE
  CLUS_1             2              40
  CLUS_2             0              57
  CLUS_3             4              63
  CLUS_4             0              39
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CRTC1 MUTATED        3      1      2      0
  CRTC1 WILD-TYPE     37     47     59     56
D15V2, multiclass
        clus
vv       CRTC1 MUTATED CRTC1 WILD-TYPE
  CLUS_1             3              37
  CLUS_2             1              47
  CLUS_3             2              59
  CLUS_4             0              56
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CRTC1 MUTATED        0      3      3      0
  CRTC1 WILD-TYPE     69     82     59      4
D15V3, multiclass
        clus
vv       CRTC1 MUTATED CRTC1 WILD-TYPE
  CLUS_1             0              69
  CLUS_2             3              82
  CLUS_3             3              59
  CLUS_4             0               4
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CRTC1 MUTATED        0      0      0
  CRTC1 WILD-TYPE      5      2      1
D15V4, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CRTC1 MUTATED        2      0      0      1
  CRTC1 WILD-TYPE     38     67     24     25
D15V5, multiclass
        clus
vv       CRTC1 MUTATED CRTC1 WILD-TYPE
  CLUS_1             2              38
  CLUS_2             0              67
  CLUS_3             0              24
  CLUS_4             1              25
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CRTC1 MUTATED        0      2      1      0
  CRTC1 WILD-TYPE     20    107     18      9
D15V6, multiclass
        clus
vv       CRTC1 MUTATED CRTC1 WILD-TYPE
  CLUS_1             0              20
  CLUS_2             2             107
  CLUS_3             1              18
  CLUS_4             0               9
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CRTC1 MUTATED        0      1      0      5
  CRTC1 WILD-TYPE      8     25     13    164
D15V7, multiclass
        clus
vv       CRTC1 MUTATED CRTC1 WILD-TYPE
  CLUS_1             0               8
  CLUS_2             1              25
  CLUS_3             0              13
  CLUS_4             5             164
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CRTC1 MUTATED        6      0      0
  CRTC1 WILD-TYPE    207      2      1
D15V8, multiclass
        clus
vv       CRTC1 MUTATED CRTC1 WILD-TYPE
  CLUS_1             6             207
  CLUS_2             0               2
  CLUS_3             0               1
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CRTC1 MUTATED        0      0      6
  CRTC1 WILD-TYPE      3      9    188
D15V9, multiclass
        clus
vv       CRTC1 MUTATED CRTC1 WILD-TYPE
  CLUS_1             0               3
  CLUS_2             0               9
  CLUS_3             6             188
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CRTC1 MUTATED        0      0      6
  CRTC1 WILD-TYPE      8      2    190
D15V10, multiclass
        clus
vv       CRTC1 MUTATED CRTC1 WILD-TYPE
  CLUS_1             0               8
  CLUS_2             0               2
  CLUS_3             6             190

Clustering(16) Variable = TNFRSF10C MUTATION ANALYSIS
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TNFRSF10C MUTATED        3      1      2      0
  TNFRSF10C WILD-TYPE     39     56     65     39
D16V1, multiclass
        clus
vv       TNFRSF10C MUTATED TNFRSF10C WILD-TYPE
  CLUS_1                 3                  39
  CLUS_2                 1                  56
  CLUS_3                 2                  65
  CLUS_4                 0                  39
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TNFRSF10C MUTATED        1      3      2      0
  TNFRSF10C WILD-TYPE     39     45     59     56
D16V2, multiclass
        clus
vv       TNFRSF10C MUTATED TNFRSF10C WILD-TYPE
  CLUS_1                 1                  39
  CLUS_2                 3                  45
  CLUS_3                 2                  59
  CLUS_4                 0                  56
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TNFRSF10C MUTATED        3      2      1      0
  TNFRSF10C WILD-TYPE     66     83     61      4
D16V3, multiclass
        clus
vv       TNFRSF10C MUTATED TNFRSF10C WILD-TYPE
  CLUS_1                 3                  66
  CLUS_2                 2                  83
  CLUS_3                 1                  61
  CLUS_4                 0                   4
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3
  TNFRSF10C MUTATED        0      0      0
  TNFRSF10C WILD-TYPE      5      2      1
D16V4, multiclass
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TNFRSF10C MUTATED        3      1      0      1
  TNFRSF10C WILD-TYPE     37     66     24     25
D16V5, multiclass
        clus
vv       TNFRSF10C MUTATED TNFRSF10C WILD-TYPE
  CLUS_1                 3                  37
  CLUS_2                 1                  66
  CLUS_3                 0                  24
  CLUS_4                 1                  25
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TNFRSF10C MUTATED        2      3      0      0
  TNFRSF10C WILD-TYPE     18    106     19      9
D16V6, multiclass
        clus
vv       TNFRSF10C MUTATED TNFRSF10C WILD-TYPE
  CLUS_1                 2                  18
  CLUS_2                 3                 106
  CLUS_3                 0                  19
  CLUS_4                 0                   9
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TNFRSF10C MUTATED        1      1      0      4
  TNFRSF10C WILD-TYPE      7     25     13    165
D16V7, multiclass
        clus
vv       TNFRSF10C MUTATED TNFRSF10C WILD-TYPE
  CLUS_1                 1                   7
  CLUS_2                 1                  25
  CLUS_3                 0                  13
  CLUS_4                 4                 165
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3
  TNFRSF10C MUTATED        6      0      0
  TNFRSF10C WILD-TYPE    207      2      1
D16V8, multiclass
        clus
vv       TNFRSF10C MUTATED TNFRSF10C WILD-TYPE
  CLUS_1                 6                 207
  CLUS_2                 0                   2
  CLUS_3                 0                   1
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3
  TNFRSF10C MUTATED        0      0      6
  TNFRSF10C WILD-TYPE      3      9    188
D16V9, multiclass
        clus
vv       TNFRSF10C MUTATED TNFRSF10C WILD-TYPE
  CLUS_1                 0                   3
  CLUS_2                 0                   9
  CLUS_3                 6                 188
                     vv
clus                  CLUS_1 CLUS_2 CLUS_3
  TNFRSF10C MUTATED        0      0      6
  TNFRSF10C WILD-TYPE      8      2    190
D16V10, multiclass
        clus
vv       TNFRSF10C MUTATED TNFRSF10C WILD-TYPE
  CLUS_1                 0                   8
  CLUS_2                 0                   2
  CLUS_3                 6                 190

Clustering(17) Variable = KIAA1804 MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KIAA1804 MUTATED        3      1      6      4
  KIAA1804 WILD-TYPE     39     56     61     35
D17V1, multiclass
        clus
vv       KIAA1804 MUTATED KIAA1804 WILD-TYPE
  CLUS_1                3                 39
  CLUS_2                1                 56
  CLUS_3                6                 61
  CLUS_4                4                 35
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KIAA1804 MUTATED        4      2      6      2
  KIAA1804 WILD-TYPE     36     46     55     54
D17V2, multiclass
        clus
vv       KIAA1804 MUTATED KIAA1804 WILD-TYPE
  CLUS_1                4                 36
  CLUS_2                2                 46
  CLUS_3                6                 55
  CLUS_4                2                 54
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KIAA1804 MUTATED        3     10      1      1
  KIAA1804 WILD-TYPE     66     75     61      3
D17V3, multiclass
        clus
vv       KIAA1804 MUTATED KIAA1804 WILD-TYPE
  CLUS_1                3                 66
  CLUS_2               10                 75
  CLUS_3                1                 61
  CLUS_4                1                  3
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  KIAA1804 MUTATED        0      1      0
  KIAA1804 WILD-TYPE      5      1      1
D17V4, multiclass
[1] "Remove cluster labels:" "KIAA1804 MUTATED"      
clus
  KIAA1804 MUTATED KIAA1804 WILD-TYPE 
                 1                  7 
        TCGA-A6-2677         TCGA-A6-3810         TCGA-AG-A01W 
"KIAA1804 WILD-TYPE" "KIAA1804 WILD-TYPE" "KIAA1804 WILD-TYPE" 
        TCGA-AG-A01Y         TCGA-AG-A020         TCGA-AG-A026 
"KIAA1804 WILD-TYPE" "KIAA1804 WILD-TYPE" "KIAA1804 WILD-TYPE" 
        TCGA-AG-A036 
"KIAA1804 WILD-TYPE" 
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KIAA1804 MUTATED        2      6      1      4
  KIAA1804 WILD-TYPE     38     61     23     22
D17V5, multiclass
        clus
vv       KIAA1804 MUTATED KIAA1804 WILD-TYPE
  CLUS_1                2                 38
  CLUS_2                6                 61
  CLUS_3                1                 23
  CLUS_4                4                 22
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KIAA1804 MUTATED        0     11      2      0
  KIAA1804 WILD-TYPE     20     98     17      9
D17V6, multiclass
        clus
vv       KIAA1804 MUTATED KIAA1804 WILD-TYPE
  CLUS_1                0                 20
  CLUS_2               11                 98
  CLUS_3                2                 17
  CLUS_4                0                  9
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KIAA1804 MUTATED        0      3      0     12
  KIAA1804 WILD-TYPE      8     23     13    157
D17V7, multiclass
        clus
vv       KIAA1804 MUTATED KIAA1804 WILD-TYPE
  CLUS_1                0                  8
  CLUS_2                3                 23
  CLUS_3                0                 13
  CLUS_4               12                157
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  KIAA1804 MUTATED       15      0      0
  KIAA1804 WILD-TYPE    198      2      1
D17V8, multiclass
        clus
vv       KIAA1804 MUTATED KIAA1804 WILD-TYPE
  CLUS_1               15                198
  CLUS_2                0                  2
  CLUS_3                0                  1
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  KIAA1804 MUTATED        0      0     15
  KIAA1804 WILD-TYPE      3      9    179
D17V9, multiclass
        clus
vv       KIAA1804 MUTATED KIAA1804 WILD-TYPE
  CLUS_1                0                  3
  CLUS_2                0                  9
  CLUS_3               15                179
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  KIAA1804 MUTATED        0      0     15
  KIAA1804 WILD-TYPE      8      2    181
D17V10, multiclass
        clus
vv       KIAA1804 MUTATED KIAA1804 WILD-TYPE
  CLUS_1                0                  8
  CLUS_2                0                  2
  CLUS_3               15                181

Clustering(18) Variable = KRTAP5-5 MUTATION ANALYSIS
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KRTAP5-5 MUTATED        1      0      3      0
  KRTAP5-5 WILD-TYPE     41     57     64     39
D18V1, multiclass
        clus
vv       KRTAP5-5 MUTATED KRTAP5-5 WILD-TYPE
  CLUS_1                1                 41
  CLUS_2                0                 57
  CLUS_3                3                 64
  CLUS_4                0                 39
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KRTAP5-5 MUTATED        1      2      1      0
  KRTAP5-5 WILD-TYPE     39     46     60     56
D18V2, multiclass
        clus
vv       KRTAP5-5 MUTATED KRTAP5-5 WILD-TYPE
  CLUS_1                1                 39
  CLUS_2                2                 46
  CLUS_3                1                 60
  CLUS_4                0                 56
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KRTAP5-5 MUTATED        2      1      1      0
  KRTAP5-5 WILD-TYPE     67     84     61      4
D18V3, multiclass
        clus
vv       KRTAP5-5 MUTATED KRTAP5-5 WILD-TYPE
  CLUS_1                2                 67
  CLUS_2                1                 84
  CLUS_3                1                 61
  CLUS_4                0                  4
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  KRTAP5-5 MUTATED        0      0      0
  KRTAP5-5 WILD-TYPE      5      2      1
D18V4, multiclass
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KRTAP5-5 MUTATED        0      3      1      0
  KRTAP5-5 WILD-TYPE     40     64     23     26
D18V5, multiclass
        clus
vv       KRTAP5-5 MUTATED KRTAP5-5 WILD-TYPE
  CLUS_1                0                 40
  CLUS_2                3                 64
  CLUS_3                1                 23
  CLUS_4                0                 26
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KRTAP5-5 MUTATED        0      4      0      0
  KRTAP5-5 WILD-TYPE     20    105     19      9
D18V6, multiclass
        clus
vv       KRTAP5-5 MUTATED KRTAP5-5 WILD-TYPE
  CLUS_1                0                 20
  CLUS_2                4                105
  CLUS_3                0                 19
  CLUS_4                0                  9
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KRTAP5-5 MUTATED        0      0      0      4
  KRTAP5-5 WILD-TYPE      8     26     13    165
D18V7, multiclass
        clus
vv       KRTAP5-5 MUTATED KRTAP5-5 WILD-TYPE
  CLUS_1                0                  8
  CLUS_2                0                 26
  CLUS_3                0                 13
  CLUS_4                4                165
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  KRTAP5-5 MUTATED        4      0      0
  KRTAP5-5 WILD-TYPE    209      2      1
D18V8, multiclass
        clus
vv       KRTAP5-5 MUTATED KRTAP5-5 WILD-TYPE
  CLUS_1                4                209
  CLUS_2                0                  2
  CLUS_3                0                  1
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  KRTAP5-5 MUTATED        0      0      3
  KRTAP5-5 WILD-TYPE      3      9    191
D18V9, multiclass
        clus
vv       KRTAP5-5 MUTATED KRTAP5-5 WILD-TYPE
  CLUS_1                0                  3
  CLUS_2                0                  9
  CLUS_3                3                191
                    vv
clus                 CLUS_1 CLUS_2 CLUS_3
  KRTAP5-5 MUTATED        0      0      3
  KRTAP5-5 WILD-TYPE      8      2    193
D18V10, multiclass
        clus
vv       KRTAP5-5 MUTATED KRTAP5-5 WILD-TYPE
  CLUS_1                0                  8
  CLUS_2                0                  2
  CLUS_3                3                193

Clustering(19) Variable = PTEN MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PTEN MUTATED        2      0      1      4
  PTEN WILD-TYPE     40     57     66     35
D19V1, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1            2             40
  CLUS_2            0             57
  CLUS_3            1             66
  CLUS_4            4             35
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PTEN MUTATED        1      0      4      2
  PTEN WILD-TYPE     39     48     57     54
D19V2, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1            1             39
  CLUS_2            0             48
  CLUS_3            4             57
  CLUS_4            2             54
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PTEN MUTATED        0      6      1      0
  PTEN WILD-TYPE     69     79     61      4
D19V3, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1            0             69
  CLUS_2            6             79
  CLUS_3            1             61
  CLUS_4            0              4
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PTEN MUTATED        0      0      0
  PTEN WILD-TYPE      5      2      1
D19V4, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PTEN MUTATED        2      1      0      1
  PTEN WILD-TYPE     38     66     24     25
D19V5, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1            2             38
  CLUS_2            1             66
  CLUS_3            0             24
  CLUS_4            1             25
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PTEN MUTATED        1      2      1      0
  PTEN WILD-TYPE     19    107     18      9
D19V6, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1            1             19
  CLUS_2            2            107
  CLUS_3            1             18
  CLUS_4            0              9
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PTEN MUTATED        1      2      0      4
  PTEN WILD-TYPE      7     24     13    165
D19V7, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1            1              7
  CLUS_2            2             24
  CLUS_3            0             13
  CLUS_4            4            165
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PTEN MUTATED        7      0      0
  PTEN WILD-TYPE    206      2      1
D19V8, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1            7            206
  CLUS_2            0              2
  CLUS_3            0              1
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PTEN MUTATED        0      1      6
  PTEN WILD-TYPE      3      8    188
D19V9, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1            0              3
  CLUS_2            1              8
  CLUS_3            6            188
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PTEN MUTATED        1      0      6
  PTEN WILD-TYPE      7      2    190
D19V10, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1            1              7
  CLUS_2            0              2
  CLUS_3            6            190

Clustering(20) Variable = ACOT4 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ACOT4 MUTATED        2      0      1      0
  ACOT4 WILD-TYPE     40     57     66     39
D20V1, multiclass
        clus
vv       ACOT4 MUTATED ACOT4 WILD-TYPE
  CLUS_1             2              40
  CLUS_2             0              57
  CLUS_3             1              66
  CLUS_4             0              39
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ACOT4 MUTATED        0      1      2      0
  ACOT4 WILD-TYPE     40     47     59     56
D20V2, multiclass
        clus
vv       ACOT4 MUTATED ACOT4 WILD-TYPE
  CLUS_1             0              40
  CLUS_2             1              47
  CLUS_3             2              59
  CLUS_4             0              56
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ACOT4 MUTATED        1      2      0      0
  ACOT4 WILD-TYPE     68     83     62      4
D20V3, multiclass
        clus
vv       ACOT4 MUTATED ACOT4 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             2              83
  CLUS_3             0              62
  CLUS_4             0               4
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ACOT4 MUTATED        0      0      0
  ACOT4 WILD-TYPE      5      2      1
D20V4, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ACOT4 MUTATED        0      0      0      1
  ACOT4 WILD-TYPE     40     67     24     25
D20V5, multiclass
[1] "Remove cluster labels:" "ACOT4 MUTATED"         
clus
  ACOT4 MUTATED ACOT4 WILD-TYPE 
              1             156 
     TCGA-A6-2672      TCGA-A6-2676      TCGA-A6-2677      TCGA-A6-2678 
"ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" 
     TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808      TCGA-A6-3810 
"ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" 
     TCGA-AA-3514      TCGA-AA-3517      TCGA-AA-3519      TCGA-AA-3520 
"ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3525      TCGA-AA-3529 
"ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" 
     TCGA-AA-3530      TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534 
"ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" 
     TCGA-AA-3548      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3558      TCGA-AA-3560      TCGA-AA-3561 
"ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" 
     TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3672      TCGA-AA-3678 
"ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" 
     TCGA-AA-3681      TCGA-AA-3688      TCGA-AA-3695      TCGA-AA-3696 
"ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3818      TCGA-AA-3819      TCGA-AA-3831 
"ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" 
     TCGA-AA-3833      TCGA-AA-3837      TCGA-AA-3844      TCGA-AA-3845 
"ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3852      TCGA-AA-3854 
"ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" 
     TCGA-AA-3856      TCGA-AA-3864      TCGA-AA-3866      TCGA-AA-3872 
"ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" 
     TCGA-AA-3930      TCGA-AA-3947      TCGA-AA-3955      TCGA-AA-3971 
"ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" 
     TCGA-AA-3972      TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3982 
"ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" 
     TCGA-AA-3986      TCGA-AA-3989      TCGA-AA-A004      TCGA-AA-A00A 
"ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" 
     TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J      TCGA-AA-A00K 
"ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00Q      TCGA-AA-A00R 
"ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" 
     TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z      TCGA-AA-A010 
"ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" 
     TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F      TCGA-AA-A01I 
"ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" 
     TCGA-AA-A01K      TCGA-AA-A01P      TCGA-AA-A01Q      TCGA-AA-A01R 
"ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" 
     TCGA-AA-A01S      TCGA-AA-A01T      TCGA-AA-A01V      TCGA-AA-A01X 
"ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" 
     TCGA-AA-A022      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02O      TCGA-AA-A02W 
"ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" 
     TCGA-AA-A02Y      TCGA-AA-A03F      TCGA-AA-A03J      TCGA-AF-2689 
"ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" 
     TCGA-AF-3400      TCGA-AF-3913      TCGA-AG-3574      TCGA-AG-3578 
"ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" 
     TCGA-AG-3580      TCGA-AG-3581      TCGA-AG-3582      TCGA-AG-3583 
"ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" 
     TCGA-AG-3584      TCGA-AG-3586      TCGA-AG-3587      TCGA-AG-3593 
"ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" 
     TCGA-AG-3594      TCGA-AG-3598      TCGA-AG-3599      TCGA-AG-3600 
"ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" 
     TCGA-AG-3601      TCGA-AG-3602      TCGA-AG-3605      TCGA-AG-3609 
"ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" 
     TCGA-AG-3612      TCGA-AG-3727      TCGA-AG-3878      TCGA-AG-3881 
"ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" 
     TCGA-AG-3882      TCGA-AG-3893      TCGA-AG-3896      TCGA-AG-3898 
"ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" 
     TCGA-AG-3901      TCGA-AG-3902      TCGA-AG-4001      TCGA-AG-4005 
"ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" 
     TCGA-AG-4007      TCGA-AG-4008      TCGA-AG-4015      TCGA-AG-A002 
"ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" 
     TCGA-AG-A008      TCGA-AG-A00C      TCGA-AG-A00H      TCGA-AG-A00Y 
"ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" 
     TCGA-AG-A011      TCGA-AG-A014      TCGA-AG-A015      TCGA-AG-A016 
"ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" 
     TCGA-AG-A01W      TCGA-AG-A01Y      TCGA-AG-A020      TCGA-AG-A026 
"ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" 
     TCGA-AG-A02G      TCGA-AG-A02N      TCGA-AG-A02X      TCGA-AG-A036 
"ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ACOT4 MUTATED        0      1      0      0
  ACOT4 WILD-TYPE     20    108     19      9
D20V6, multiclass
[1] "Remove cluster labels:" "ACOT4 MUTATED"         
clus
  ACOT4 MUTATED ACOT4 WILD-TYPE 
              1             156 
     TCGA-A6-2672      TCGA-A6-2676      TCGA-A6-2677      TCGA-A6-2678 
"ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" 
     TCGA-A6-2683      TCGA-A6-3807      TCGA-A6-3808      TCGA-A6-3810 
"ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" 
     TCGA-AA-3514      TCGA-AA-3517      TCGA-AA-3519      TCGA-AA-3520 
"ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" 
     TCGA-AA-3521      TCGA-AA-3522      TCGA-AA-3525      TCGA-AA-3529 
"ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" 
     TCGA-AA-3530      TCGA-AA-3531      TCGA-AA-3532      TCGA-AA-3534 
"ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" 
     TCGA-AA-3548      TCGA-AA-3552      TCGA-AA-3553      TCGA-AA-3554 
"ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" 
     TCGA-AA-3555      TCGA-AA-3558      TCGA-AA-3560      TCGA-AA-3561 
"ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" 
     TCGA-AA-3562      TCGA-AA-3664      TCGA-AA-3672      TCGA-AA-3678 
"ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" 
     TCGA-AA-3681      TCGA-AA-3688      TCGA-AA-3695      TCGA-AA-3696 
"ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" 
     TCGA-AA-3710      TCGA-AA-3715      TCGA-AA-3811      TCGA-AA-3812 
"ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" 
     TCGA-AA-3814      TCGA-AA-3818      TCGA-AA-3819      TCGA-AA-3831 
"ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" 
     TCGA-AA-3833      TCGA-AA-3837      TCGA-AA-3844      TCGA-AA-3845 
"ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" 
     TCGA-AA-3848      TCGA-AA-3850      TCGA-AA-3852      TCGA-AA-3854 
"ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" 
     TCGA-AA-3856      TCGA-AA-3864      TCGA-AA-3866      TCGA-AA-3872 
"ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" 
     TCGA-AA-3930      TCGA-AA-3947      TCGA-AA-3955      TCGA-AA-3971 
"ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" 
     TCGA-AA-3972      TCGA-AA-3973      TCGA-AA-3975      TCGA-AA-3982 
"ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" 
     TCGA-AA-3986      TCGA-AA-3989      TCGA-AA-A004      TCGA-AA-A00A 
"ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" 
     TCGA-AA-A00E      TCGA-AA-A00F      TCGA-AA-A00J      TCGA-AA-A00K 
"ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" 
     TCGA-AA-A00L      TCGA-AA-A00N      TCGA-AA-A00Q      TCGA-AA-A00R 
"ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" 
     TCGA-AA-A00U      TCGA-AA-A00W      TCGA-AA-A00Z      TCGA-AA-A010 
"ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" 
     TCGA-AA-A017      TCGA-AA-A01D      TCGA-AA-A01F      TCGA-AA-A01I 
"ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" 
     TCGA-AA-A01K      TCGA-AA-A01P      TCGA-AA-A01Q      TCGA-AA-A01R 
"ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" 
     TCGA-AA-A01S      TCGA-AA-A01T      TCGA-AA-A01V      TCGA-AA-A01X 
"ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" 
     TCGA-AA-A022      TCGA-AA-A024      TCGA-AA-A029      TCGA-AA-A02F 
"ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" 
     TCGA-AA-A02H      TCGA-AA-A02J      TCGA-AA-A02O      TCGA-AA-A02W 
"ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" 
     TCGA-AA-A02Y      TCGA-AA-A03F      TCGA-AA-A03J      TCGA-AF-2689 
"ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" 
     TCGA-AF-3400      TCGA-AF-3913      TCGA-AG-3574      TCGA-AG-3578 
"ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" 
     TCGA-AG-3580      TCGA-AG-3581      TCGA-AG-3582      TCGA-AG-3583 
"ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" 
     TCGA-AG-3584      TCGA-AG-3586      TCGA-AG-3587      TCGA-AG-3593 
"ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" 
     TCGA-AG-3594      TCGA-AG-3598      TCGA-AG-3599      TCGA-AG-3600 
"ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" 
     TCGA-AG-3601      TCGA-AG-3602      TCGA-AG-3605      TCGA-AG-3609 
"ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" 
     TCGA-AG-3612      TCGA-AG-3727      TCGA-AG-3878      TCGA-AG-3881 
"ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" 
     TCGA-AG-3882      TCGA-AG-3893      TCGA-AG-3896      TCGA-AG-3898 
"ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" 
     TCGA-AG-3901      TCGA-AG-3902      TCGA-AG-4001      TCGA-AG-4005 
"ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" 
     TCGA-AG-4007      TCGA-AG-4008      TCGA-AG-4015      TCGA-AG-A002 
"ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" 
     TCGA-AG-A008      TCGA-AG-A00C      TCGA-AG-A00H      TCGA-AG-A00Y 
"ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" 
     TCGA-AG-A011      TCGA-AG-A014      TCGA-AG-A015      TCGA-AG-A016 
"ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" 
     TCGA-AG-A01W      TCGA-AG-A01Y      TCGA-AG-A020      TCGA-AG-A026 
"ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" 
     TCGA-AG-A02G      TCGA-AG-A02N      TCGA-AG-A02X      TCGA-AG-A036 
"ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" "ACOT4 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ACOT4 MUTATED        0      1      0      2
  ACOT4 WILD-TYPE      8     25     13    167
D20V7, multiclass
        clus
vv       ACOT4 MUTATED ACOT4 WILD-TYPE
  CLUS_1             0               8
  CLUS_2             1              25
  CLUS_3             0              13
  CLUS_4             2             167
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ACOT4 MUTATED        3      0      0
  ACOT4 WILD-TYPE    210      2      1
D20V8, multiclass
        clus
vv       ACOT4 MUTATED ACOT4 WILD-TYPE
  CLUS_1             3             210
  CLUS_2             0               2
  CLUS_3             0               1
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ACOT4 MUTATED        0      0      3
  ACOT4 WILD-TYPE      3      9    191
D20V9, multiclass
        clus
vv       ACOT4 MUTATED ACOT4 WILD-TYPE
  CLUS_1             0               3
  CLUS_2             0               9
  CLUS_3             3             191
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ACOT4 MUTATED        0      0      3
  ACOT4 WILD-TYPE      8      2    193
D20V10, multiclass
        clus
vv       ACOT4 MUTATED ACOT4 WILD-TYPE
  CLUS_1             0               8
  CLUS_2             0               2
  CLUS_3             3             193

Clustering(21) Variable = MYO1B MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MYO1B MUTATED        6      1      1      4
  MYO1B WILD-TYPE     36     56     66     35
D21V1, multiclass
        clus
vv       MYO1B MUTATED MYO1B WILD-TYPE
  CLUS_1             6              36
  CLUS_2             1              56
  CLUS_3             1              66
  CLUS_4             4              35
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MYO1B MUTATED        3      0      8      1
  MYO1B WILD-TYPE     37     48     53     55
D21V2, multiclass
        clus
vv       MYO1B MUTATED MYO1B WILD-TYPE
  CLUS_1             3              37
  CLUS_2             0              48
  CLUS_3             8              53
  CLUS_4             1              55
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MYO1B MUTATED        2     11      0      0
  MYO1B WILD-TYPE     67     74     62      4
D21V3, multiclass
        clus
vv       MYO1B MUTATED MYO1B WILD-TYPE
  CLUS_1             2              67
  CLUS_2            11              74
  CLUS_3             0              62
  CLUS_4             0               4
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MYO1B MUTATED        0      1      0
  MYO1B WILD-TYPE      5      1      1
D21V4, multiclass
[1] "Remove cluster labels:" "MYO1B MUTATED"         
clus
  MYO1B MUTATED MYO1B WILD-TYPE 
              1               7 
     TCGA-A6-2677      TCGA-A6-3810      TCGA-AG-A01W      TCGA-AG-A01Y 
"MYO1B WILD-TYPE" "MYO1B WILD-TYPE" "MYO1B WILD-TYPE" "MYO1B WILD-TYPE" 
     TCGA-AG-A020      TCGA-AG-A026      TCGA-AG-A036 
"MYO1B WILD-TYPE" "MYO1B WILD-TYPE" "MYO1B WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MYO1B MUTATED        3      0      1      3
  MYO1B WILD-TYPE     37     67     23     23
D21V5, multiclass
        clus
vv       MYO1B MUTATED MYO1B WILD-TYPE
  CLUS_1             3              37
  CLUS_2             0              67
  CLUS_3             1              23
  CLUS_4             3              23
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MYO1B MUTATED        0      5      2      0
  MYO1B WILD-TYPE     20    104     17      9
D21V6, multiclass
        clus
vv       MYO1B MUTATED MYO1B WILD-TYPE
  CLUS_1             0              20
  CLUS_2             5             104
  CLUS_3             2              17
  CLUS_4             0               9
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MYO1B MUTATED        0      4      0      8
  MYO1B WILD-TYPE      8     22     13    161
D21V7, multiclass
        clus
vv       MYO1B MUTATED MYO1B WILD-TYPE
  CLUS_1             0               8
  CLUS_2             4              22
  CLUS_3             0              13
  CLUS_4             8             161
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MYO1B MUTATED       12      0      0
  MYO1B WILD-TYPE    201      2      1
D21V8, multiclass
        clus
vv       MYO1B MUTATED MYO1B WILD-TYPE
  CLUS_1            12             201
  CLUS_2             0               2
  CLUS_3             0               1
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MYO1B MUTATED        0      0     12
  MYO1B WILD-TYPE      3      9    182
D21V9, multiclass
        clus
vv       MYO1B MUTATED MYO1B WILD-TYPE
  CLUS_1             0               3
  CLUS_2             0               9
  CLUS_3            12             182
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MYO1B MUTATED        0      0     12
  MYO1B WILD-TYPE      8      2    184
D21V10, multiclass
        clus
vv       MYO1B MUTATED MYO1B WILD-TYPE
  CLUS_1             0               8
  CLUS_2             0               2
  CLUS_3            12             184

Clustering(22) Variable = PCBP1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PCBP1 MUTATED        0      1      2      3
  PCBP1 WILD-TYPE     42     56     65     36
D22V1, multiclass
        clus
vv       PCBP1 MUTATED PCBP1 WILD-TYPE
  CLUS_1             0              42
  CLUS_2             1              56
  CLUS_3             2              65
  CLUS_4             3              36
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PCBP1 MUTATED        2      1      2      1
  PCBP1 WILD-TYPE     38     47     59     55
D22V2, multiclass
        clus
vv       PCBP1 MUTATED PCBP1 WILD-TYPE
  CLUS_1             2              38
  CLUS_2             1              47
  CLUS_3             2              59
  CLUS_4             1              55
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PCBP1 MUTATED        1      3      2      0
  PCBP1 WILD-TYPE     68     82     60      4
D22V3, multiclass
        clus
vv       PCBP1 MUTATED PCBP1 WILD-TYPE
  CLUS_1             1              68
  CLUS_2             3              82
  CLUS_3             2              60
  CLUS_4             0               4
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PCBP1 MUTATED        0      0      0
  PCBP1 WILD-TYPE      5      2      1
D22V4, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PCBP1 MUTATED        0      2      0      1
  PCBP1 WILD-TYPE     40     65     24     25
D22V5, multiclass
        clus
vv       PCBP1 MUTATED PCBP1 WILD-TYPE
  CLUS_1             0              40
  CLUS_2             2              65
  CLUS_3             0              24
  CLUS_4             1              25
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PCBP1 MUTATED        0      2      1      0
  PCBP1 WILD-TYPE     20    107     18      9
D22V6, multiclass
        clus
vv       PCBP1 MUTATED PCBP1 WILD-TYPE
  CLUS_1             0              20
  CLUS_2             2             107
  CLUS_3             1              18
  CLUS_4             0               9
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PCBP1 MUTATED        0      0      0      6
  PCBP1 WILD-TYPE      8     26     13    163
D22V7, multiclass
        clus
vv       PCBP1 MUTATED PCBP1 WILD-TYPE
  CLUS_1             0               8
  CLUS_2             0              26
  CLUS_3             0              13
  CLUS_4             6             163
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PCBP1 MUTATED        6      0      0
  PCBP1 WILD-TYPE    207      2      1
D22V8, multiclass
        clus
vv       PCBP1 MUTATED PCBP1 WILD-TYPE
  CLUS_1             6             207
  CLUS_2             0               2
  CLUS_3             0               1
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PCBP1 MUTATED        0      0      5
  PCBP1 WILD-TYPE      3      9    189
D22V9, multiclass
        clus
vv       PCBP1 MUTATED PCBP1 WILD-TYPE
  CLUS_1             0               3
  CLUS_2             0               9
  CLUS_3             5             189
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  PCBP1 MUTATED        0      0      5
  PCBP1 WILD-TYPE      8      2    191
D22V10, multiclass
        clus
vv       PCBP1 MUTATED PCBP1 WILD-TYPE
  CLUS_1             0               8
  CLUS_2             0               2
  CLUS_3             5             191

Clustering(23) Variable = GGT1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GGT1 MUTATED        2      0      0      0
  GGT1 WILD-TYPE     40     57     67     39
D23V1, multiclass
[1] "Remove cluster labels:" "GGT1 MUTATED"          
clus
  GGT1 MUTATED GGT1 WILD-TYPE 
             2            203 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516     TCGA-AA-3517 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520     TCGA-AA-3521 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525     TCGA-AA-3526 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530     TCGA-AA-3531 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538     TCGA-AA-3542 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548     TCGA-AA-3549 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554     TCGA-AA-3555 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560     TCGA-AA-3561 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666     TCGA-AA-3667 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678     TCGA-AA-3679 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684     TCGA-AA-3685 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693     TCGA-AA-3696 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811     TCGA-AA-3812 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AA-3814     TCGA-AA-3818     TCGA-AA-3819     TCGA-AA-3821 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837     TCGA-AA-3842 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AA-3844     TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AA-3851     TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AA-3856     TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3864 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973     TCGA-AA-3975 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979     TCGA-AA-3980 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AA-3982     TCGA-AA-3986     TCGA-AA-3989     TCGA-AA-3994 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AA-A004     TCGA-AA-A00A     TCGA-AA-A00D     TCGA-AA-A00E 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AA-A00F     TCGA-AA-A00J     TCGA-AA-A00K     TCGA-AA-A00L 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AA-A00N     TCGA-AA-A00O     TCGA-AA-A00Q     TCGA-AA-A00R 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AA-A00U     TCGA-AA-A00W     TCGA-AA-A00Z     TCGA-AA-A010 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F     TCGA-AA-A01G 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q     TCGA-AA-A024 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H     TCGA-AA-A02J 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AA-A02W     TCGA-AF-2689     TCGA-AF-2691     TCGA-AF-2692 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AF-3400     TCGA-AF-3913     TCGA-AG-3574     TCGA-AG-3575 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AG-3578     TCGA-AG-3580     TCGA-AG-3581     TCGA-AG-3582 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AG-3583     TCGA-AG-3584     TCGA-AG-3586     TCGA-AG-3587 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AG-3593     TCGA-AG-3594     TCGA-AG-3598     TCGA-AG-3599 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AG-3600     TCGA-AG-3601     TCGA-AG-3602     TCGA-AG-3605 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AG-3608     TCGA-AG-3609     TCGA-AG-3611     TCGA-AG-3612 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AG-3726     TCGA-AG-3727     TCGA-AG-3878     TCGA-AG-3881 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AG-3882     TCGA-AG-3883     TCGA-AG-3887     TCGA-AG-3890 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AG-3892     TCGA-AG-3893     TCGA-AG-3894     TCGA-AG-3896 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AG-3898     TCGA-AG-3901     TCGA-AG-3902     TCGA-AG-3909 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AG-3999     TCGA-AG-4001     TCGA-AG-4005     TCGA-AG-4007 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AG-4008     TCGA-AG-4015     TCGA-AG-A002     TCGA-AG-A008 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AG-A00C     TCGA-AG-A00H     TCGA-AG-A00Y     TCGA-AG-A011 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AG-A014     TCGA-AG-A015     TCGA-AG-A016     TCGA-AG-A01L 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AG-A025     TCGA-AG-A026     TCGA-AG-A02G     TCGA-AG-A02X 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AG-A032     TCGA-AY-4070     TCGA-AY-4071 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GGT1 MUTATED        1      0      1      0
  GGT1 WILD-TYPE     39     48     60     56
D23V2, multiclass
[1] "Remove cluster labels:" "GGT1 MUTATED"          
clus
  GGT1 MUTATED GGT1 WILD-TYPE 
             2            203 
    TCGA-A6-2672     TCGA-A6-2674     TCGA-A6-2676     TCGA-A6-2677 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-A6-2678     TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-A6-3810     TCGA-AA-3514     TCGA-AA-3516     TCGA-AA-3517 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AA-3518     TCGA-AA-3519     TCGA-AA-3520     TCGA-AA-3521 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AA-3522     TCGA-AA-3524     TCGA-AA-3525     TCGA-AA-3526 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AA-3527     TCGA-AA-3529     TCGA-AA-3530     TCGA-AA-3531 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AA-3532     TCGA-AA-3534     TCGA-AA-3538     TCGA-AA-3542 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AA-3543     TCGA-AA-3544     TCGA-AA-3548     TCGA-AA-3549 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554     TCGA-AA-3555 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AA-3556     TCGA-AA-3558     TCGA-AA-3560     TCGA-AA-3561 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3666     TCGA-AA-3667 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AA-3672     TCGA-AA-3673     TCGA-AA-3678     TCGA-AA-3679 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AA-3680     TCGA-AA-3681     TCGA-AA-3684     TCGA-AA-3685 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AA-3688     TCGA-AA-3692     TCGA-AA-3693     TCGA-AA-3696 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811     TCGA-AA-3812 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AA-3814     TCGA-AA-3818     TCGA-AA-3819     TCGA-AA-3821 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AA-3831     TCGA-AA-3833     TCGA-AA-3837     TCGA-AA-3842 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AA-3844     TCGA-AA-3846     TCGA-AA-3848     TCGA-AA-3850 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AA-3851     TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3855 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AA-3856     TCGA-AA-3858     TCGA-AA-3860     TCGA-AA-3864 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AA-3866     TCGA-AA-3867     TCGA-AA-3869     TCGA-AA-3870 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AA-3872     TCGA-AA-3875     TCGA-AA-3877     TCGA-AA-3930 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AA-3939     TCGA-AA-3941     TCGA-AA-3947     TCGA-AA-3949 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AA-3952     TCGA-AA-3955     TCGA-AA-3956     TCGA-AA-3966 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AA-3971     TCGA-AA-3972     TCGA-AA-3973     TCGA-AA-3975 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AA-3976     TCGA-AA-3977     TCGA-AA-3979     TCGA-AA-3980 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AA-3982     TCGA-AA-3986     TCGA-AA-3989     TCGA-AA-3994 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AA-A004     TCGA-AA-A00A     TCGA-AA-A00D     TCGA-AA-A00E 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AA-A00F     TCGA-AA-A00J     TCGA-AA-A00K     TCGA-AA-A00L 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AA-A00N     TCGA-AA-A00O     TCGA-AA-A00Q     TCGA-AA-A00R 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AA-A00U     TCGA-AA-A00W     TCGA-AA-A00Z     TCGA-AA-A010 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F     TCGA-AA-A01G 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AA-A01I     TCGA-AA-A01K     TCGA-AA-A01Q     TCGA-AA-A024 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H     TCGA-AA-A02J 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AA-A02W     TCGA-AF-2689     TCGA-AF-2691     TCGA-AF-2692 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AF-3400     TCGA-AF-3913     TCGA-AG-3574     TCGA-AG-3575 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AG-3578     TCGA-AG-3580     TCGA-AG-3581     TCGA-AG-3582 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AG-3583     TCGA-AG-3584     TCGA-AG-3586     TCGA-AG-3587 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AG-3593     TCGA-AG-3594     TCGA-AG-3598     TCGA-AG-3599 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AG-3600     TCGA-AG-3601     TCGA-AG-3602     TCGA-AG-3605 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AG-3608     TCGA-AG-3609     TCGA-AG-3611     TCGA-AG-3612 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AG-3726     TCGA-AG-3727     TCGA-AG-3878     TCGA-AG-3881 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AG-3882     TCGA-AG-3883     TCGA-AG-3887     TCGA-AG-3890 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AG-3892     TCGA-AG-3893     TCGA-AG-3894     TCGA-AG-3896 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AG-3898     TCGA-AG-3901     TCGA-AG-3902     TCGA-AG-3909 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AG-3999     TCGA-AG-4001     TCGA-AG-4005     TCGA-AG-4007 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AG-4008     TCGA-AG-4015     TCGA-AG-A002     TCGA-AG-A008 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AG-A00C     TCGA-AG-A00H     TCGA-AG-A00Y     TCGA-AG-A011 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AG-A014     TCGA-AG-A015     TCGA-AG-A016     TCGA-AG-A01L 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AG-A025     TCGA-AG-A026     TCGA-AG-A02G     TCGA-AG-A02X 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AG-A032     TCGA-AY-4070     TCGA-AY-4071 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GGT1 MUTATED        0      3      0      0
  GGT1 WILD-TYPE     69     82     62      4
D23V3, multiclass
        clus
vv       GGT1 MUTATED GGT1 WILD-TYPE
  CLUS_1            0             69
  CLUS_2            3             82
  CLUS_3            0             62
  CLUS_4            0              4
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GGT1 MUTATED        0      0      0
  GGT1 WILD-TYPE      5      2      1
D23V4, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GGT1 MUTATED        0      1      0      1
  GGT1 WILD-TYPE     40     66     24     25
D23V5, multiclass
[1] "Remove cluster labels:" "GGT1 MUTATED"          
clus
  GGT1 MUTATED GGT1 WILD-TYPE 
             2            155 
    TCGA-A6-2672     TCGA-A6-2676     TCGA-A6-2677     TCGA-A6-2678 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808     TCGA-A6-3810 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AA-3514     TCGA-AA-3517     TCGA-AA-3519     TCGA-AA-3520 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3525     TCGA-AA-3529 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AA-3530     TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AA-3548     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3558     TCGA-AA-3560     TCGA-AA-3561 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3672     TCGA-AA-3678 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AA-3681     TCGA-AA-3688     TCGA-AA-3695     TCGA-AA-3696 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811     TCGA-AA-3812 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AA-3814     TCGA-AA-3818     TCGA-AA-3819     TCGA-AA-3831 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AA-3833     TCGA-AA-3837     TCGA-AA-3844     TCGA-AA-3848 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AA-3850     TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3856 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AA-3864     TCGA-AA-3866     TCGA-AA-3869     TCGA-AA-3872 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AA-3930     TCGA-AA-3947     TCGA-AA-3955     TCGA-AA-3971 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AA-3972     TCGA-AA-3973     TCGA-AA-3975     TCGA-AA-3982 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AA-3986     TCGA-AA-3989     TCGA-AA-A004     TCGA-AA-A00A 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J     TCGA-AA-A00K 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00Q     TCGA-AA-A00R 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AA-A00U     TCGA-AA-A00W     TCGA-AA-A00Z     TCGA-AA-A010 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F     TCGA-AA-A01I 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AA-A01K     TCGA-AA-A01P     TCGA-AA-A01Q     TCGA-AA-A01R 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AA-A01S     TCGA-AA-A01T     TCGA-AA-A01X     TCGA-AA-A022 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02O     TCGA-AA-A02W     TCGA-AA-A02Y 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AA-A03F     TCGA-AA-A03J     TCGA-AF-2689     TCGA-AF-3400 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AF-3913     TCGA-AG-3574     TCGA-AG-3578     TCGA-AG-3580 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AG-3581     TCGA-AG-3582     TCGA-AG-3583     TCGA-AG-3584 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AG-3586     TCGA-AG-3587     TCGA-AG-3593     TCGA-AG-3594 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AG-3598     TCGA-AG-3599     TCGA-AG-3600     TCGA-AG-3601 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AG-3602     TCGA-AG-3605     TCGA-AG-3609     TCGA-AG-3612 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AG-3727     TCGA-AG-3878     TCGA-AG-3881     TCGA-AG-3882 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AG-3893     TCGA-AG-3896     TCGA-AG-3898     TCGA-AG-3901 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AG-3902     TCGA-AG-4001     TCGA-AG-4005     TCGA-AG-4007 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AG-4008     TCGA-AG-4015     TCGA-AG-A002     TCGA-AG-A008 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AG-A00C     TCGA-AG-A00H     TCGA-AG-A00Y     TCGA-AG-A011 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AG-A014     TCGA-AG-A015     TCGA-AG-A016     TCGA-AG-A01W 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AG-A01Y     TCGA-AG-A020     TCGA-AG-A026     TCGA-AG-A02G 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AG-A02N     TCGA-AG-A02X     TCGA-AG-A036 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GGT1 MUTATED        0      2      0      0
  GGT1 WILD-TYPE     20    107     19      9
D23V6, multiclass
[1] "Remove cluster labels:" "GGT1 MUTATED"          
clus
  GGT1 MUTATED GGT1 WILD-TYPE 
             2            155 
    TCGA-A6-2672     TCGA-A6-2676     TCGA-A6-2677     TCGA-A6-2678 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-A6-2683     TCGA-A6-3807     TCGA-A6-3808     TCGA-A6-3810 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AA-3514     TCGA-AA-3517     TCGA-AA-3519     TCGA-AA-3520 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AA-3521     TCGA-AA-3522     TCGA-AA-3525     TCGA-AA-3529 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AA-3530     TCGA-AA-3531     TCGA-AA-3532     TCGA-AA-3534 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AA-3548     TCGA-AA-3552     TCGA-AA-3553     TCGA-AA-3554 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AA-3555     TCGA-AA-3558     TCGA-AA-3560     TCGA-AA-3561 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AA-3562     TCGA-AA-3664     TCGA-AA-3672     TCGA-AA-3678 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AA-3681     TCGA-AA-3688     TCGA-AA-3695     TCGA-AA-3696 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AA-3710     TCGA-AA-3715     TCGA-AA-3811     TCGA-AA-3812 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AA-3814     TCGA-AA-3818     TCGA-AA-3819     TCGA-AA-3831 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AA-3833     TCGA-AA-3837     TCGA-AA-3844     TCGA-AA-3848 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AA-3850     TCGA-AA-3852     TCGA-AA-3854     TCGA-AA-3856 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AA-3864     TCGA-AA-3866     TCGA-AA-3869     TCGA-AA-3872 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AA-3930     TCGA-AA-3947     TCGA-AA-3955     TCGA-AA-3971 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AA-3972     TCGA-AA-3973     TCGA-AA-3975     TCGA-AA-3982 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AA-3986     TCGA-AA-3989     TCGA-AA-A004     TCGA-AA-A00A 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AA-A00E     TCGA-AA-A00F     TCGA-AA-A00J     TCGA-AA-A00K 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AA-A00L     TCGA-AA-A00N     TCGA-AA-A00Q     TCGA-AA-A00R 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AA-A00U     TCGA-AA-A00W     TCGA-AA-A00Z     TCGA-AA-A010 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AA-A017     TCGA-AA-A01D     TCGA-AA-A01F     TCGA-AA-A01I 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AA-A01K     TCGA-AA-A01P     TCGA-AA-A01Q     TCGA-AA-A01R 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AA-A01S     TCGA-AA-A01T     TCGA-AA-A01X     TCGA-AA-A022 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AA-A024     TCGA-AA-A029     TCGA-AA-A02F     TCGA-AA-A02H 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AA-A02J     TCGA-AA-A02O     TCGA-AA-A02W     TCGA-AA-A02Y 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AA-A03F     TCGA-AA-A03J     TCGA-AF-2689     TCGA-AF-3400 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AF-3913     TCGA-AG-3574     TCGA-AG-3578     TCGA-AG-3580 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AG-3581     TCGA-AG-3582     TCGA-AG-3583     TCGA-AG-3584 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AG-3586     TCGA-AG-3587     TCGA-AG-3593     TCGA-AG-3594 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AG-3598     TCGA-AG-3599     TCGA-AG-3600     TCGA-AG-3601 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AG-3602     TCGA-AG-3605     TCGA-AG-3609     TCGA-AG-3612 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AG-3727     TCGA-AG-3878     TCGA-AG-3881     TCGA-AG-3882 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AG-3893     TCGA-AG-3896     TCGA-AG-3898     TCGA-AG-3901 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AG-3902     TCGA-AG-4001     TCGA-AG-4005     TCGA-AG-4007 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AG-4008     TCGA-AG-4015     TCGA-AG-A002     TCGA-AG-A008 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AG-A00C     TCGA-AG-A00H     TCGA-AG-A00Y     TCGA-AG-A011 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AG-A014     TCGA-AG-A015     TCGA-AG-A016     TCGA-AG-A01W 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AG-A01Y     TCGA-AG-A020     TCGA-AG-A026     TCGA-AG-A02G 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
    TCGA-AG-A02N     TCGA-AG-A02X     TCGA-AG-A036 
"GGT1 WILD-TYPE" "GGT1 WILD-TYPE" "GGT1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  GGT1 MUTATED        0      1      0      2
  GGT1 WILD-TYPE      8     25     13    167
D23V7, multiclass
        clus
vv       GGT1 MUTATED GGT1 WILD-TYPE
  CLUS_1            0              8
  CLUS_2            1             25
  CLUS_3            0             13
  CLUS_4            2            167
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GGT1 MUTATED        3      0      0
  GGT1 WILD-TYPE    210      2      1
D23V8, multiclass
        clus
vv       GGT1 MUTATED GGT1 WILD-TYPE
  CLUS_1            3            210
  CLUS_2            0              2
  CLUS_3            0              1
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GGT1 MUTATED        0      0      3
  GGT1 WILD-TYPE      3      9    191
D23V9, multiclass
        clus
vv       GGT1 MUTATED GGT1 WILD-TYPE
  CLUS_1            0              3
  CLUS_2            0              9
  CLUS_3            3            191
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  GGT1 MUTATED        0      0      3
  GGT1 WILD-TYPE      8      2    193
D23V10, multiclass
        clus
vv       GGT1 MUTATED GGT1 WILD-TYPE
  CLUS_1            0              8
  CLUS_2            0              2
  CLUS_3            3            193

Clustering(24) Variable = ACVR1B MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ACVR1B MUTATED        3      2      2      4
  ACVR1B WILD-TYPE     39     55     65     35
D24V1, multiclass
        clus
vv       ACVR1B MUTATED ACVR1B WILD-TYPE
  CLUS_1              3               39
  CLUS_2              2               55
  CLUS_3              2               65
  CLUS_4              4               35
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ACVR1B MUTATED        0      3      5      3
  ACVR1B WILD-TYPE     40     45     56     53
D24V2, multiclass
        clus
vv       ACVR1B MUTATED ACVR1B WILD-TYPE
  CLUS_1              0               40
  CLUS_2              3               45
  CLUS_3              5               56
  CLUS_4              3               53
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ACVR1B MUTATED        2     10      2      0
  ACVR1B WILD-TYPE     67     75     60      4
D24V3, multiclass
        clus
vv       ACVR1B MUTATED ACVR1B WILD-TYPE
  CLUS_1              2               67
  CLUS_2             10               75
  CLUS_3              2               60
  CLUS_4              0                4
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ACVR1B MUTATED        0      0      0
  ACVR1B WILD-TYPE      5      2      1
D24V4, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ACVR1B MUTATED        2      5      1      3
  ACVR1B WILD-TYPE     38     62     23     23
D24V5, multiclass
        clus
vv       ACVR1B MUTATED ACVR1B WILD-TYPE
  CLUS_1              2               38
  CLUS_2              5               62
  CLUS_3              1               23
  CLUS_4              3               23
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ACVR1B MUTATED        1      7      3      0
  ACVR1B WILD-TYPE     19    102     16      9
D24V6, multiclass
        clus
vv       ACVR1B MUTATED ACVR1B WILD-TYPE
  CLUS_1              1               19
  CLUS_2              7              102
  CLUS_3              3               16
  CLUS_4              0                9
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ACVR1B MUTATED        0      2      1     11
  ACVR1B WILD-TYPE      8     24     12    158
D24V7, multiclass
        clus
vv       ACVR1B MUTATED ACVR1B WILD-TYPE
  CLUS_1              0                8
  CLUS_2              2               24
  CLUS_3              1               12
  CLUS_4             11              158
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ACVR1B MUTATED       14      0      0
  ACVR1B WILD-TYPE    199      2      1
D24V8, multiclass
        clus
vv       ACVR1B MUTATED ACVR1B WILD-TYPE
  CLUS_1             14              199
  CLUS_2              0                2
  CLUS_3              0                1
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ACVR1B MUTATED        0      1     13
  ACVR1B WILD-TYPE      3      8    181
D24V9, multiclass
        clus
vv       ACVR1B MUTATED ACVR1B WILD-TYPE
  CLUS_1              0                3
  CLUS_2              1                8
  CLUS_3             13              181
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ACVR1B MUTATED        0      0     14
  ACVR1B WILD-TYPE      8      2    182
D24V10, multiclass
        clus
vv       ACVR1B MUTATED ACVR1B WILD-TYPE
  CLUS_1              0                8
  CLUS_2              0                2
  CLUS_3             14              182
> q(save="no")
