
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/UCEC-TP/6068758/transformed.cor.cli.txt", "-iC=/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_mergedClustering/UCEC-TP/6462233/UCEC-TP.transferedmergedcluster.txt", "-fF=", "-fC=3", "-fH=5", "-fW=9", "-fP=OUT", "-cP=0.05", "-cQ=0.25", "-MF=ALL", "-oT=UCEC-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=UCEC-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/UCEC-TP/6462233/UCEC-TP.transferedmergedcluster.txt"
[1] "dfn:"
[1] "/xchip/cga/gdac-prod/tcga-gdac/jobResults/GDAC_Correlate_Genomic_Events_Preprocess/UCEC-TP/6068758/transformed.cor.cli.txt"

nPatients in clinical file=525, in cluster file=248, common to both=248
[1]  33 248
[1] "PPP2R1A MUTATION ANALYSIS"
[1] 3
  PPP2R1A MUTATED PPP2R1A WILD-TYPE 
               27               221 
  PPP2R1A MUTATED PPP2R1A WILD-TYPE 
               27               221 
[1] "PIK3CA MUTATION ANALYSIS"
[1] 3
  PIK3CA MUTATED PIK3CA WILD-TYPE 
             132              116 
  PIK3CA MUTATED PIK3CA WILD-TYPE 
             132              116 
[1] "CTNNB1 MUTATION ANALYSIS"
[1] 3
  CTNNB1 MUTATED CTNNB1 WILD-TYPE 
              74              174 
  CTNNB1 MUTATED CTNNB1 WILD-TYPE 
              74              174 
[1] "PIK3R1 MUTATION ANALYSIS"
[1] 3
  PIK3R1 MUTATED PIK3R1 WILD-TYPE 
              83              165 
  PIK3R1 MUTATED PIK3R1 WILD-TYPE 
              83              165 
[1] "PRKAR1B MUTATION ANALYSIS"
[1] 3
  PRKAR1B MUTATED PRKAR1B WILD-TYPE 
                4               244 
  PRKAR1B MUTATED PRKAR1B WILD-TYPE 
                4               244 
[1] "PTEN MUTATION ANALYSIS"
[1] 3
  PTEN MUTATED PTEN WILD-TYPE 
           161             87 
  PTEN MUTATED PTEN WILD-TYPE 
           161             87 
[1] "KRAS MUTATION ANALYSIS"
[1] 3
  KRAS MUTATED KRAS WILD-TYPE 
            53            195 
  KRAS MUTATED KRAS WILD-TYPE 
            53            195 
[1] "TP53 MUTATION ANALYSIS"
[1] 3
  TP53 MUTATED TP53 WILD-TYPE 
            69            179 
  TP53 MUTATED TP53 WILD-TYPE 
            69            179 
[1] "FBXW7 MUTATION ANALYSIS"
[1] 3
  FBXW7 MUTATED FBXW7 WILD-TYPE 
             39             209 
  FBXW7 MUTATED FBXW7 WILD-TYPE 
             39             209 
[1] "CTCF MUTATION ANALYSIS"
[1] 3
  CTCF MUTATED CTCF WILD-TYPE 
            44            204 
  CTCF MUTATED CTCF WILD-TYPE 
            44            204 
[1] "ARID1A MUTATION ANALYSIS"
[1] 3
  ARID1A MUTATED ARID1A WILD-TYPE 
              83              165 
  ARID1A MUTATED ARID1A WILD-TYPE 
              83              165 
[1] "SPOP MUTATION ANALYSIS"
[1] 3
  SPOP MUTATED SPOP WILD-TYPE 
            21            227 
  SPOP MUTATED SPOP WILD-TYPE 
            21            227 
[1] "ARID5B MUTATION ANALYSIS"
[1] 3
  ARID5B MUTATED ARID5B WILD-TYPE 
              29              219 
  ARID5B MUTATED ARID5B WILD-TYPE 
              29              219 
[1] "FGFR2 MUTATION ANALYSIS"
[1] 3
  FGFR2 MUTATED FGFR2 WILD-TYPE 
             31             217 
  FGFR2 MUTATED FGFR2 WILD-TYPE 
             31             217 
[1] "NFE2L2 MUTATION ANALYSIS"
[1] 3
  NFE2L2 MUTATED NFE2L2 WILD-TYPE 
              15              233 
  NFE2L2 MUTATED NFE2L2 WILD-TYPE 
              15              233 
[1] "CCND1 MUTATION ANALYSIS"
[1] 3
  CCND1 MUTATED CCND1 WILD-TYPE 
             14             234 
  CCND1 MUTATED CCND1 WILD-TYPE 
             14             234 
[1] "CHD4 MUTATION ANALYSIS"
[1] 3
  CHD4 MUTATED CHD4 WILD-TYPE 
            35            213 
  CHD4 MUTATED CHD4 WILD-TYPE 
            35            213 
[1] "FAM9A MUTATION ANALYSIS"
[1] 3
  FAM9A MUTATED FAM9A WILD-TYPE 
             14             234 
  FAM9A MUTATED FAM9A WILD-TYPE 
             14             234 
[1] "MORC4 MUTATION ANALYSIS"
[1] 3
  MORC4 MUTATED MORC4 WILD-TYPE 
             20             228 
  MORC4 MUTATED MORC4 WILD-TYPE 
             20             228 
[1] "CASP8 MUTATION ANALYSIS"
[1] 3
  CASP8 MUTATED CASP8 WILD-TYPE 
             17             231 
  CASP8 MUTATED CASP8 WILD-TYPE 
             17             231 
[1] "FOXA2 MUTATION ANALYSIS"
[1] 3
  FOXA2 MUTATED FOXA2 WILD-TYPE 
             12             236 
  FOXA2 MUTATED FOXA2 WILD-TYPE 
             12             236 
[1] "ABI1 MUTATION ANALYSIS"
[1] 3
  ABI1 MUTATED ABI1 WILD-TYPE 
             4            244 
  ABI1 MUTATED ABI1 WILD-TYPE 
             4            244 
[1] "DNER MUTATION ANALYSIS"
[1] 3
  DNER MUTATED DNER WILD-TYPE 
            18            230 
  DNER MUTATED DNER WILD-TYPE 
            18            230 
[1] "BCOR MUTATION ANALYSIS"
[1] 3
  BCOR MUTATED BCOR WILD-TYPE 
            30            218 
  BCOR MUTATED BCOR WILD-TYPE 
            30            218 
[1] "BRS3 MUTATION ANALYSIS"
[1] 3
  BRS3 MUTATED BRS3 WILD-TYPE 
            15            233 
  BRS3 MUTATED BRS3 WILD-TYPE 
            15            233 
[1] "SGK1 MUTATION ANALYSIS"
[1] 3
  SGK1 MUTATED SGK1 WILD-TYPE 
            15            233 
  SGK1 MUTATED SGK1 WILD-TYPE 
            15            233 
[1] "NRAS MUTATION ANALYSIS"
[1] 3
  NRAS MUTATED NRAS WILD-TYPE 
             9            239 
  NRAS MUTATED NRAS WILD-TYPE 
             9            239 
[1] "TIAL1 MUTATION ANALYSIS"
[1] 3
  TIAL1 MUTATED TIAL1 WILD-TYPE 
             11             237 
  TIAL1 MUTATED TIAL1 WILD-TYPE 
             11             237 
[1] "SIN3A MUTATION ANALYSIS"
[1] 3
  SIN3A MUTATED SIN3A WILD-TYPE 
             21             227 
  SIN3A MUTATED SIN3A WILD-TYPE 
             21             227 
[1] "SLC48A1 MUTATION ANALYSIS"
[1] 3
  SLC48A1 MUTATED SLC48A1 WILD-TYPE 
                5               243 
  SLC48A1 MUTATED SLC48A1 WILD-TYPE 
                5               243 
[1] "RNF43 MUTATION ANALYSIS"
[1] 3
  RNF43 MUTATED RNF43 WILD-TYPE 
             12             236 
  RNF43 MUTATED RNF43 WILD-TYPE 
             12             236 
[1] "ZFHX3 MUTATION ANALYSIS"
[1] 3
  ZFHX3 MUTATED ZFHX3 WILD-TYPE 
             44             204 
  ZFHX3 MUTATED ZFHX3 WILD-TYPE 
             44             204 
[1] "RB1 MUTATION ANALYSIS"
[1] 3
  RB1 MUTATED RB1 WILD-TYPE 
           20           228 
  RB1 MUTATED RB1 WILD-TYPE 
           20           228 
[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 248 columns.

Variable 1:'MRNA_CNMF':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 2:'MRNA_CHIERARCHICAL':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 3:'CN_CNMF':	nDistinctValues=6,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 4:'METHLYATION_CNMF':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 5:'RPPA_CNMF':	nDistinctValues=6,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 6:'RPPA_CHIERARCHICAL':	nDistinctValues=2,	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=5,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 10:'MIRSEQ_CHIERARCHICAL':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 11:'MIRSEQ_MATURE_CNMF':	nDistinctValues=3,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
Variable 12:'MIRSEQ_MATURE_CHIERARCHICAL':	nDistinctValues=4,	numeric=FALSE,	binary=FALSE,	exclude=FALSE.
[1] "rownames(nsurv.mat)"
 [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"
[1] "TUMOR.?STAGE"
[1] "TUMOR.?GRADE"
[1] "PATHOLOGY.T"
[1] "PATHOLOGY.N"
Output Data has 248 columns, 0 survival variables, and 12 non-survival variables.
MRNA_CNMF, nv=4, binary=FALSE, numeric=FALSE
MRNA_CHIERARCHICAL, nv=3, binary=FALSE, numeric=FALSE
CN_CNMF, nv=6, binary=FALSE, numeric=FALSE
METHLYATION_CNMF, nv=3, binary=FALSE, numeric=FALSE
RPPA_CNMF, nv=6, binary=FALSE, numeric=FALSE
RPPA_CHIERARCHICAL, nv=2, binary=FALSE, numeric=FALSE
MRNASEQ_CNMF, nv=4, binary=FALSE, numeric=FALSE
MRNASEQ_CHIERARCHICAL, nv=3, binary=FALSE, numeric=FALSE
MIRSEQ_CNMF, nv=5, binary=FALSE, numeric=FALSE
MIRSEQ_CHIERARCHICAL, nv=3, binary=FALSE, numeric=FALSE
MIRSEQ_MATURE_CNMF, nv=3, binary=FALSE, numeric=FALSE
MIRSEQ_MATURE_CHIERARCHICAL, nv=4, binary=FALSE, numeric=FALSE

Clustering(1) Variable = PPP2R1A MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PPP2R1A MUTATED        3      5      0      0
  PPP2R1A WILD-TYPE      9     13     11     10
D1V1, multiclass
        clus
vv       PPP2R1A MUTATED PPP2R1A WILD-TYPE
  CLUS_1               3                 9
  CLUS_2               5                13
  CLUS_3               0                11
  CLUS_4               0                10
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PPP2R1A MUTATED        4      0      4
  PPP2R1A WILD-TYPE     13     18     12
D1V2, multiclass
        clus
vv       PPP2R1A MUTATED PPP2R1A WILD-TYPE
  CLUS_1               4                13
  CLUS_2               0                18
  CLUS_3               4                12
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PPP2R1A MUTATED       11      0     12      2      0      0
  PPP2R1A WILD-TYPE    146     12     42      6     10      1
D1V3, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PPP2R1A MUTATED       10      1      5
  PPP2R1A WILD-TYPE     33     40     46
D1V4, multiclass
        clus
vv       PPP2R1A MUTATED PPP2R1A WILD-TYPE
  CLUS_1              10                33
  CLUS_2               1                40
  CLUS_3               5                46
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PPP2R1A MUTATED        3      7      2      0      2      4
  PPP2R1A WILD-TYPE     36     29     35     10     38     20
D1V5, multiclass
D1V6, binary
                   cls
clus                  0   1
  PPP2R1A MUTATED     9   9
  PPP2R1A WILD-TYPE 106  62
[1] "tbl2"
                   cls
clus                [,1] [,2]
  PPP2R1A MUTATED      9    9
  PPP2R1A WILD-TYPE  106   62
        clus
vv       PPP2R1A MUTATED PPP2R1A WILD-TYPE
  CLUS_1               9               106
  CLUS_2               9                62
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PPP2R1A MUTATED       15      2      6      4
  PPP2R1A WILD-TYPE     48     34     66     70
D1V7, multiclass
        clus
vv       PPP2R1A MUTATED PPP2R1A WILD-TYPE
  CLUS_1              15                48
  CLUS_2               2                34
  CLUS_3               6                66
  CLUS_4               4                70
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PPP2R1A MUTATED       17      4      6
  PPP2R1A WILD-TYPE     68     44    106
D1V8, multiclass
        clus
vv       PPP2R1A MUTATED PPP2R1A WILD-TYPE
  CLUS_1              17                68
  CLUS_2               4                44
  CLUS_3               6               106
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PPP2R1A MUTATED       10      4      3      2      6
  PPP2R1A WILD-TYPE     32     74     20     24     65
D1V9, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PPP2R1A MUTATED        0      8     17
  PPP2R1A WILD-TYPE      4    123     88
D1V10, multiclass
        clus
vv       PPP2R1A MUTATED PPP2R1A WILD-TYPE
  CLUS_1               0                 4
  CLUS_2               8               123
  CLUS_3              17                88
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PPP2R1A MUTATED        9      3      4
  PPP2R1A WILD-TYPE     27     23     50
D1V11, multiclass
        clus
vv       PPP2R1A MUTATED PPP2R1A WILD-TYPE
  CLUS_1               9                27
  CLUS_2               3                23
  CLUS_3               4                50
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PPP2R1A MUTATED        6      6      4      0
  PPP2R1A WILD-TYPE     17     16     61      6
D1V12, multiclass
        clus
vv       PPP2R1A MUTATED PPP2R1A WILD-TYPE
  CLUS_1               6                17
  CLUS_2               6                16
  CLUS_3               4                61
  CLUS_4               0                 6

Clustering(2) Variable = PIK3CA MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PIK3CA MUTATED        7      8      6      6
  PIK3CA WILD-TYPE      5     10      5      4
D2V1, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1              7                5
  CLUS_2              8               10
  CLUS_3              6                5
  CLUS_4              6                4
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PIK3CA MUTATED       12      8      7
  PIK3CA WILD-TYPE      5     10      9
D2V2, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1             12                5
  CLUS_2              8               10
  CLUS_3              7                9
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PIK3CA MUTATED       86      8     24      3      6      1
  PIK3CA WILD-TYPE     71      4     30      5      4      0
D2V3, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PIK3CA MUTATED       22     23     24
  PIK3CA WILD-TYPE     21     18     27
D2V4, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1             22               21
  CLUS_2             23               18
  CLUS_3             24               27
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PIK3CA MUTATED       17     22     19      7     18     15
  PIK3CA WILD-TYPE     22     14     18      3     22      9
D2V5, multiclass
D2V6, binary
                  cls
clus                0  1
  PIK3CA MUTATED   64 34
  PIK3CA WILD-TYPE 51 37
[1] "tbl2"
                  cls
clus               [,1] [,2]
  PIK3CA MUTATED     64   34
  PIK3CA WILD-TYPE   51   37
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1             64               51
  CLUS_2             34               37
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PIK3CA MUTATED       27     24     39     40
  PIK3CA WILD-TYPE     36     12     33     34
D2V7, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1             27               36
  CLUS_2             24               12
  CLUS_3             39               33
  CLUS_4             40               34
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PIK3CA MUTATED       45     25     60
  PIK3CA WILD-TYPE     40     23     52
D2V8, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1             45               40
  CLUS_2             25               23
  CLUS_3             60               52
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PIK3CA MUTATED       20     46     11     13     38
  PIK3CA WILD-TYPE     22     32     12     13     33
D2V9, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PIK3CA MUTATED        3     74     51
  PIK3CA WILD-TYPE      1     57     54
D2V10, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1              3                1
  CLUS_2             74               57
  CLUS_3             51               54
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PIK3CA MUTATED       15     14     30
  PIK3CA WILD-TYPE     21     12     24
D2V11, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1             15               21
  CLUS_2             14               12
  CLUS_3             30               24
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PIK3CA MUTATED       12      9     35      3
  PIK3CA WILD-TYPE     11     13     30      3
D2V12, multiclass
        clus
vv       PIK3CA MUTATED PIK3CA WILD-TYPE
  CLUS_1             12               11
  CLUS_2              9               13
  CLUS_3             35               30
  CLUS_4              3                3

Clustering(3) Variable = CTNNB1 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CTNNB1 MUTATED        0      3      4     10
  CTNNB1 WILD-TYPE     12     15      7      0
D3V1, multiclass
        clus
vv       CTNNB1 MUTATED CTNNB1 WILD-TYPE
  CLUS_1              0               12
  CLUS_2              3               15
  CLUS_3              4                7
  CLUS_4             10                0
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CTNNB1 MUTATED        3     12      2
  CTNNB1 WILD-TYPE     14      6     14
D3V2, multiclass
        clus
vv       CTNNB1 MUTATED CTNNB1 WILD-TYPE
  CLUS_1              3               14
  CLUS_2             12                6
  CLUS_3              2               14
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CTNNB1 MUTATED       60      7      1      2      2      0
  CTNNB1 WILD-TYPE     97      5     53      6      8      1
D3V3, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CTNNB1 MUTATED        4     15     18
  CTNNB1 WILD-TYPE     39     26     33
D3V4, multiclass
        clus
vv       CTNNB1 MUTATED CTNNB1 WILD-TYPE
  CLUS_1              4               39
  CLUS_2             15               26
  CLUS_3             18               33
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CTNNB1 MUTATED        6     10      6      0     32     10
  CTNNB1 WILD-TYPE     33     26     31     10      8     14
D3V5, multiclass
D3V6, binary
                  cls
clus                0  1
  CTNNB1 MUTATED   45 19
  CTNNB1 WILD-TYPE 70 52
[1] "tbl2"
                  cls
clus               [,1] [,2]
  CTNNB1 MUTATED     45   19
  CTNNB1 WILD-TYPE   70   52
        clus
vv       CTNNB1 MUTATED CTNNB1 WILD-TYPE
  CLUS_1             45               70
  CLUS_2             19               52
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CTNNB1 MUTATED        3      4     53     13
  CTNNB1 WILD-TYPE     60     32     19     61
D3V7, multiclass
        clus
vv       CTNNB1 MUTATED CTNNB1 WILD-TYPE
  CLUS_1              3               60
  CLUS_2              4               32
  CLUS_3             53               19
  CLUS_4             13               61
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CTNNB1 MUTATED        9     19     45
  CTNNB1 WILD-TYPE     76     29     67
D3V8, multiclass
        clus
vv       CTNNB1 MUTATED CTNNB1 WILD-TYPE
  CLUS_1              9               76
  CLUS_2             19               29
  CLUS_3             45               67
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CTNNB1 MUTATED        1     13      6     20     31
  CTNNB1 WILD-TYPE     41     65     17      6     40
D3V9, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CTNNB1 MUTATED        0     45     26
  CTNNB1 WILD-TYPE      4     86     79
D3V10, multiclass
        clus
vv       CTNNB1 MUTATED CTNNB1 WILD-TYPE
  CLUS_1              0                4
  CLUS_2             45               86
  CLUS_3             26               79
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  CTNNB1 MUTATED        3      9     15
  CTNNB1 WILD-TYPE     33     17     39
D3V11, multiclass
        clus
vv       CTNNB1 MUTATED CTNNB1 WILD-TYPE
  CLUS_1              3               33
  CLUS_2              9               17
  CLUS_3             15               39
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CTNNB1 MUTATED        4      0     22      1
  CTNNB1 WILD-TYPE     19     22     43      5
D3V12, multiclass
        clus
vv       CTNNB1 MUTATED CTNNB1 WILD-TYPE
  CLUS_1              4               19
  CLUS_2              0               22
  CLUS_3             22               43
  CLUS_4              1                5

Clustering(4) Variable = PIK3R1 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PIK3R1 MUTATED        5      2      6      3
  PIK3R1 WILD-TYPE      7     16      5      7
D4V1, multiclass
        clus
vv       PIK3R1 MUTATED PIK3R1 WILD-TYPE
  CLUS_1              5                7
  CLUS_2              2               16
  CLUS_3              6                5
  CLUS_4              3                7
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PIK3R1 MUTATED        8      7      1
  PIK3R1 WILD-TYPE      9     11     15
D4V2, multiclass
        clus
vv       PIK3R1 MUTATED PIK3R1 WILD-TYPE
  CLUS_1              8                9
  CLUS_2              7               11
  CLUS_3              1               15
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PIK3R1 MUTATED       64      2      6      5      5      0
  PIK3R1 WILD-TYPE     93     10     48      3      5      1
D4V3, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PIK3R1 MUTATED        5     12     28
  PIK3R1 WILD-TYPE     38     29     23
D4V4, multiclass
        clus
vv       PIK3R1 MUTATED PIK3R1 WILD-TYPE
  CLUS_1              5               38
  CLUS_2             12               29
  CLUS_3             28               23
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PIK3R1 MUTATED       13     11     18      3     16      9
  PIK3R1 WILD-TYPE     26     25     19      7     24     15
D4V5, multiclass
D4V6, binary
                  cls
clus                0  1
  PIK3R1 MUTATED   44 26
  PIK3R1 WILD-TYPE 71 45
[1] "tbl2"
                  cls
clus               [,1] [,2]
  PIK3R1 MUTATED     44   26
  PIK3R1 WILD-TYPE   71   45
        clus
vv       PIK3R1 MUTATED PIK3R1 WILD-TYPE
  CLUS_1             44               71
  CLUS_2             26               45
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PIK3R1 MUTATED        7     15     28     31
  PIK3R1 WILD-TYPE     56     21     44     43
D4V7, multiclass
        clus
vv       PIK3R1 MUTATED PIK3R1 WILD-TYPE
  CLUS_1              7               56
  CLUS_2             15               21
  CLUS_3             28               44
  CLUS_4             31               43
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PIK3R1 MUTATED       13     24     44
  PIK3R1 WILD-TYPE     72     24     68
D4V8, multiclass
        clus
vv       PIK3R1 MUTATED PIK3R1 WILD-TYPE
  CLUS_1             13               72
  CLUS_2             24               24
  CLUS_3             44               68
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PIK3R1 MUTATED        5     29      7      9     31
  PIK3R1 WILD-TYPE     37     49     16     17     40
D4V9, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PIK3R1 MUTATED        1     51     29
  PIK3R1 WILD-TYPE      3     80     76
D4V10, multiclass
        clus
vv       PIK3R1 MUTATED PIK3R1 WILD-TYPE
  CLUS_1              1                3
  CLUS_2             51               80
  CLUS_3             29               76
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  PIK3R1 MUTATED        5      9     23
  PIK3R1 WILD-TYPE     31     17     31
D4V11, multiclass
        clus
vv       PIK3R1 MUTATED PIK3R1 WILD-TYPE
  CLUS_1              5               31
  CLUS_2              9               17
  CLUS_3             23               31
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PIK3R1 MUTATED        4      1     29      3
  PIK3R1 WILD-TYPE     19     21     36      3
D4V12, multiclass
        clus
vv       PIK3R1 MUTATED PIK3R1 WILD-TYPE
  CLUS_1              4               19
  CLUS_2              1               21
  CLUS_3             29               36
  CLUS_4              3                3

Clustering(5) Variable = PRKAR1B MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PRKAR1B MUTATED        0      0      0      0
  PRKAR1B WILD-TYPE     12     18     11     10
D5V1, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PRKAR1B MUTATED        0      0      0
  PRKAR1B WILD-TYPE     17     18     16
D5V2, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PRKAR1B MUTATED        3      0      1      0      0      0
  PRKAR1B WILD-TYPE    154     12     53      8     10      1
D5V3, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PRKAR1B MUTATED        2      0      1
  PRKAR1B WILD-TYPE     41     41     50
D5V4, multiclass
        clus
vv       PRKAR1B MUTATED PRKAR1B WILD-TYPE
  CLUS_1               2                41
  CLUS_2               0                41
  CLUS_3               1                50
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PRKAR1B MUTATED        1      1      1      0      0      1
  PRKAR1B WILD-TYPE     38     35     36     10     40     23
D5V5, multiclass
D5V6, binary
                   cls
clus                  0   1
  PRKAR1B MUTATED     3   1
  PRKAR1B WILD-TYPE 112  70
[1] "tbl2"
                   cls
clus                [,1] [,2]
  PRKAR1B MUTATED      3    1
  PRKAR1B WILD-TYPE  112   70
        clus
vv       PRKAR1B MUTATED PRKAR1B WILD-TYPE
  CLUS_1               3               112
  CLUS_2               1                70
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PRKAR1B MUTATED        2      1      1      0
  PRKAR1B WILD-TYPE     61     35     71     74
D5V7, multiclass
        clus
vv       PRKAR1B MUTATED PRKAR1B WILD-TYPE
  CLUS_1               2                61
  CLUS_2               1                35
  CLUS_3               1                71
  CLUS_4               0                74
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PRKAR1B MUTATED        1      2      1
  PRKAR1B WILD-TYPE     84     46    111
D5V8, multiclass
        clus
vv       PRKAR1B MUTATED PRKAR1B WILD-TYPE
  CLUS_1               1                84
  CLUS_2               2                46
  CLUS_3               1               111
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PRKAR1B MUTATED        1      0      1      0      2
  PRKAR1B WILD-TYPE     41     78     22     26     69
D5V9, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PRKAR1B MUTATED        0      1      3
  PRKAR1B WILD-TYPE      4    130    102
D5V10, multiclass
        clus
vv       PRKAR1B MUTATED PRKAR1B WILD-TYPE
  CLUS_1               0                 4
  CLUS_2               1               130
  CLUS_3               3               102
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  PRKAR1B MUTATED        1      1      1
  PRKAR1B WILD-TYPE     35     25     53
D5V11, multiclass
        clus
vv       PRKAR1B MUTATED PRKAR1B WILD-TYPE
  CLUS_1               1                35
  CLUS_2               1                25
  CLUS_3               1                53
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PRKAR1B MUTATED        1      0      1      1
  PRKAR1B WILD-TYPE     22     22     64      5
D5V12, multiclass
        clus
vv       PRKAR1B MUTATED PRKAR1B WILD-TYPE
  CLUS_1               1                22
  CLUS_2               0                22
  CLUS_3               1                64
  CLUS_4               1                 5

Clustering(6) Variable = PTEN MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PTEN MUTATED       11      6      9      7
  PTEN WILD-TYPE      1     12      2      3
D6V1, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1           11              1
  CLUS_2            6             12
  CLUS_3            9              2
  CLUS_4            7              3
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PTEN MUTATED       15     14      4
  PTEN WILD-TYPE      2      4     12
D6V2, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1           15              2
  CLUS_2           14              4
  CLUS_3            4             12
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PTEN MUTATED      129      7      4      6      9      1
  PTEN WILD-TYPE     28      5     50      2      1      0
D6V3, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PTEN MUTATED        7     30     44
  PTEN WILD-TYPE     36     11      7
D6V4, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1            7             36
  CLUS_2           30             11
  CLUS_3           44              7
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  PTEN MUTATED       26     21     33      9     29     14
  PTEN WILD-TYPE     13     15      4      1     11     10
D6V5, multiclass
D6V6, binary
                cls
clus              0  1
  PTEN MUTATED   86 46
  PTEN WILD-TYPE 29 25
[1] "tbl2"
                cls
clus             [,1] [,2]
  PTEN MUTATED     86   46
  PTEN WILD-TYPE   29   25
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1           86             29
  CLUS_2           46             25
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PTEN MUTATED       10     25     55     68
  PTEN WILD-TYPE     53     11     17      6
D6V7, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1           10             53
  CLUS_2           25             11
  CLUS_3           55             17
  CLUS_4           68              6
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PTEN MUTATED       24     38     96
  PTEN WILD-TYPE     61     10     16
D6V8, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1           24             61
  CLUS_2           38             10
  CLUS_3           96             16
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  PTEN MUTATED        6     72     12     17     51
  PTEN WILD-TYPE     36      6     11      9     20
D6V9, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PTEN MUTATED        4    112     42
  PTEN WILD-TYPE      0     19     63
D6V10, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1            4              0
  CLUS_2          112             19
  CLUS_3           42             63
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  PTEN MUTATED       11     11     48
  PTEN WILD-TYPE     25     15      6
D6V11, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1           11             25
  CLUS_2           11             15
  CLUS_3           48              6
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  PTEN MUTATED        6      2     58      4
  PTEN WILD-TYPE     17     20      7      2
D6V12, multiclass
        clus
vv       PTEN MUTATED PTEN WILD-TYPE
  CLUS_1            6             17
  CLUS_2            2             20
  CLUS_3           58              7
  CLUS_4            4              2

Clustering(7) Variable = KRAS MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KRAS MUTATED        5      2      3      1
  KRAS WILD-TYPE      7     16      8      9
D7V1, multiclass
        clus
vv       KRAS MUTATED KRAS WILD-TYPE
  CLUS_1            5              7
  CLUS_2            2             16
  CLUS_3            3              8
  CLUS_4            1              9
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  KRAS MUTATED        9      1      1
  KRAS WILD-TYPE      8     17     15
D7V2, multiclass
        clus
vv       KRAS MUTATED KRAS WILD-TYPE
  CLUS_1            9              8
  CLUS_2            1             17
  CLUS_3            1             15
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  KRAS MUTATED       43      3      2      0      2      0
  KRAS WILD-TYPE    114      9     52      8      8      1
D7V3, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  KRAS MUTATED        6      8     16
  KRAS WILD-TYPE     37     33     35
D7V4, multiclass
        clus
vv       KRAS MUTATED KRAS WILD-TYPE
  CLUS_1            6             37
  CLUS_2            8             33
  CLUS_3           16             35
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  KRAS MUTATED        6      9     12      3      5      5
  KRAS WILD-TYPE     33     27     25      7     35     19
D7V5, multiclass
D7V6, binary
                cls
clus              0  1
  KRAS MUTATED   24 16
  KRAS WILD-TYPE 91 55
[1] "tbl2"
                cls
clus             [,1] [,2]
  KRAS MUTATED     24   16
  KRAS WILD-TYPE   91   55
        clus
vv       KRAS MUTATED KRAS WILD-TYPE
  CLUS_1           24             91
  CLUS_2           16             55
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KRAS MUTATED        7     14     12     19
  KRAS WILD-TYPE     56     22     60     55
D7V7, multiclass
        clus
vv       KRAS MUTATED KRAS WILD-TYPE
  CLUS_1            7             56
  CLUS_2           14             22
  CLUS_3           12             60
  CLUS_4           19             55
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  KRAS MUTATED       12     16     24
  KRAS WILD-TYPE     73     32     88
D7V8, multiclass
        clus
vv       KRAS MUTATED KRAS WILD-TYPE
  CLUS_1           12             73
  CLUS_2           16             32
  CLUS_3           24             88
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  KRAS MUTATED        3     19      9      0     21
  KRAS WILD-TYPE     39     59     14     26     50
D7V9, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  KRAS MUTATED        0     31     21
  KRAS WILD-TYPE      4    100     84
D7V10, multiclass
        clus
vv       KRAS MUTATED KRAS WILD-TYPE
  CLUS_1            0              4
  CLUS_2           31            100
  CLUS_3           21             84
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  KRAS MUTATED        4      8     13
  KRAS WILD-TYPE     32     18     41
D7V11, multiclass
        clus
vv       KRAS MUTATED KRAS WILD-TYPE
  CLUS_1            4             32
  CLUS_2            8             18
  CLUS_3           13             41
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  KRAS MUTATED        6      3     16      0
  KRAS WILD-TYPE     17     19     49      6
D7V12, multiclass
        clus
vv       KRAS MUTATED KRAS WILD-TYPE
  CLUS_1            6             17
  CLUS_2            3             19
  CLUS_3           16             49
  CLUS_4            0              6

Clustering(8) Variable = TP53 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TP53 MUTATED        2     13      1      0
  TP53 WILD-TYPE     10      5     10     10
D8V1, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1            2             10
  CLUS_2           13              5
  CLUS_3            1             10
  CLUS_4            0             10
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TP53 MUTATED        3      0     13
  TP53 WILD-TYPE     14     18      3
D8V2, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1            3             14
  CLUS_2            0             18
  CLUS_3           13              3
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TP53 MUTATED       11      2     50      3      2      0
  TP53 WILD-TYPE    146     10      4      5      8      1
D8V3, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TP53 MUTATED       31      4      5
  TP53 WILD-TYPE     12     37     46
D8V4, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1           31             12
  CLUS_2            4             37
  CLUS_3            5             46
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TP53 MUTATED        9     19      4      2      2      8
  TP53 WILD-TYPE     30     17     33      8     38     16
D8V5, multiclass
D8V6, binary
                cls
clus              0  1
  TP53 MUTATED   18 26
  TP53 WILD-TYPE 97 45
[1] "tbl2"
                cls
clus             [,1] [,2]
  TP53 MUTATED     18   26
  TP53 WILD-TYPE   97   45
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1           18             97
  CLUS_2           26             45
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TP53 MUTATED       50      8      8      3
  TP53 WILD-TYPE     13     28     64     71
D8V7, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1           50             13
  CLUS_2            8             28
  CLUS_3            8             64
  CLUS_4            3             71
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TP53 MUTATED       56      6      7
  TP53 WILD-TYPE     29     42    105
D8V8, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1           56             29
  CLUS_2            6             42
  CLUS_3            7            105
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TP53 MUTATED       34      5      7      4     14
  TP53 WILD-TYPE      8     73     16     22     57
D8V9, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TP53 MUTATED        2     10     52
  TP53 WILD-TYPE      2    121     53
D8V10, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1            2              2
  CLUS_2           10            121
  CLUS_3           52             53
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  TP53 MUTATED       25      6      5
  TP53 WILD-TYPE     11     20     49
D8V11, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1           25             11
  CLUS_2            6             20
  CLUS_3            5             49
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TP53 MUTATED        9     18      6      3
  TP53 WILD-TYPE     14      4     59      3
D8V12, multiclass
        clus
vv       TP53 MUTATED TP53 WILD-TYPE
  CLUS_1            9             14
  CLUS_2           18              4
  CLUS_3            6             59
  CLUS_4            3              3

Clustering(9) Variable = FBXW7 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FBXW7 MUTATED        3      4      4      0
  FBXW7 WILD-TYPE      9     14      7     10
D9V1, multiclass
        clus
vv       FBXW7 MUTATED FBXW7 WILD-TYPE
  CLUS_1             3               9
  CLUS_2             4              14
  CLUS_3             4               7
  CLUS_4             0              10
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FBXW7 MUTATED        5      3      3
  FBXW7 WILD-TYPE     12     15     13
D9V2, multiclass
        clus
vv       FBXW7 MUTATED FBXW7 WILD-TYPE
  CLUS_1             5              12
  CLUS_2             3              15
  CLUS_3             3              13
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  FBXW7 MUTATED       25      0     12      0      2      0
  FBXW7 WILD-TYPE    132     12     42      8      8      1
D9V3, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FBXW7 MUTATED       11      3      8
  FBXW7 WILD-TYPE     32     38     43
D9V4, multiclass
        clus
vv       FBXW7 MUTATED FBXW7 WILD-TYPE
  CLUS_1            11              32
  CLUS_2             3              38
  CLUS_3             8              43
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  FBXW7 MUTATED       10      5      5      4      3      4
  FBXW7 WILD-TYPE     29     31     32      6     37     20
D9V5, multiclass
D9V6, binary
                 cls
clus                0   1
  FBXW7 MUTATED    15  16
  FBXW7 WILD-TYPE 100  55
[1] "tbl2"
                 cls
clus              [,1] [,2]
  FBXW7 MUTATED     15   16
  FBXW7 WILD-TYPE  100   55
        clus
vv       FBXW7 MUTATED FBXW7 WILD-TYPE
  CLUS_1            15             100
  CLUS_2            16              55
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FBXW7 MUTATED       14     10      6      9
  FBXW7 WILD-TYPE     49     26     66     65
D9V7, multiclass
        clus
vv       FBXW7 MUTATED FBXW7 WILD-TYPE
  CLUS_1            14              49
  CLUS_2            10              26
  CLUS_3             6              66
  CLUS_4             9              65
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FBXW7 MUTATED       20      9     10
  FBXW7 WILD-TYPE     65     39    102
D9V8, multiclass
        clus
vv       FBXW7 MUTATED FBXW7 WILD-TYPE
  CLUS_1            20              65
  CLUS_2             9              39
  CLUS_3            10             102
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FBXW7 MUTATED        9      9      6      1     10
  FBXW7 WILD-TYPE     33     69     17     25     61
D9V9, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FBXW7 MUTATED        1     14     20
  FBXW7 WILD-TYPE      3    117     85
D9V10, multiclass
        clus
vv       FBXW7 MUTATED FBXW7 WILD-TYPE
  CLUS_1             1               3
  CLUS_2            14             117
  CLUS_3            20              85
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FBXW7 MUTATED        8      4      6
  FBXW7 WILD-TYPE     28     22     48
D9V11, multiclass
        clus
vv       FBXW7 MUTATED FBXW7 WILD-TYPE
  CLUS_1             8              28
  CLUS_2             4              22
  CLUS_3             6              48
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FBXW7 MUTATED        4      8      6      0
  FBXW7 WILD-TYPE     19     14     59      6
D9V12, multiclass
        clus
vv       FBXW7 MUTATED FBXW7 WILD-TYPE
  CLUS_1             4              19
  CLUS_2             8              14
  CLUS_3             6              59
  CLUS_4             0               6

Clustering(10) Variable = CTCF MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CTCF MUTATED        3      1      4      1
  CTCF WILD-TYPE      9     17      7      9
D10V1, multiclass
        clus
vv       CTCF MUTATED CTCF WILD-TYPE
  CLUS_1            3              9
  CLUS_2            1             17
  CLUS_3            4              7
  CLUS_4            1              9
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CTCF MUTATED        4      4      1
  CTCF WILD-TYPE     13     14     15
D10V2, multiclass
        clus
vv       CTCF MUTATED CTCF WILD-TYPE
  CLUS_1            4             13
  CLUS_2            4             14
  CLUS_3            1             15
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CTCF MUTATED       38      0      0      0      3      0
  CTCF WILD-TYPE    119     12     54      8      7      1
D10V3, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CTCF MUTATED        3     11      7
  CTCF WILD-TYPE     40     30     44
D10V4, multiclass
        clus
vv       CTCF MUTATED CTCF WILD-TYPE
  CLUS_1            3             40
  CLUS_2           11             30
  CLUS_3            7             44
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CTCF MUTATED        9      3      5      5      9      3
  CTCF WILD-TYPE     30     33     32      5     31     21
D10V5, multiclass
D10V6, binary
                cls
clus              0  1
  CTCF MUTATED   21 13
  CTCF WILD-TYPE 94 58
[1] "tbl2"
                cls
clus             [,1] [,2]
  CTCF MUTATED     21   13
  CTCF WILD-TYPE   94   58
        clus
vv       CTCF MUTATED CTCF WILD-TYPE
  CLUS_1           21             94
  CLUS_2           13             58
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CTCF MUTATED        2      7     15     20
  CTCF WILD-TYPE     61     29     57     54
D10V7, multiclass
        clus
vv       CTCF MUTATED CTCF WILD-TYPE
  CLUS_1            2             61
  CLUS_2            7             29
  CLUS_3           15             57
  CLUS_4           20             54
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CTCF MUTATED        6      8     30
  CTCF WILD-TYPE     79     40     82
D10V8, multiclass
        clus
vv       CTCF MUTATED CTCF WILD-TYPE
  CLUS_1            6             79
  CLUS_2            8             40
  CLUS_3           30             82
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CTCF MUTATED        1     21      2      4     16
  CTCF WILD-TYPE     41     57     21     22     55
D10V9, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CTCF MUTATED        0     34     10
  CTCF WILD-TYPE      4     97     95
D10V10, multiclass
        clus
vv       CTCF MUTATED CTCF WILD-TYPE
  CLUS_1            0              4
  CLUS_2           34             97
  CLUS_3           10             95
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CTCF MUTATED        1      1     12
  CTCF WILD-TYPE     35     25     42
D10V11, multiclass
        clus
vv       CTCF MUTATED CTCF WILD-TYPE
  CLUS_1            1             35
  CLUS_2            1             25
  CLUS_3           12             42
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CTCF MUTATED        2      0     12      0
  CTCF WILD-TYPE     21     22     53      6
D10V12, multiclass
        clus
vv       CTCF MUTATED CTCF WILD-TYPE
  CLUS_1            2             21
  CLUS_2            0             22
  CLUS_3           12             53
  CLUS_4            0              6

Clustering(11) Variable = ARID1A MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ARID1A MUTATED        5      3      4      5
  ARID1A WILD-TYPE      7     15      7      5
D11V1, multiclass
        clus
vv       ARID1A MUTATED ARID1A WILD-TYPE
  CLUS_1              5                7
  CLUS_2              3               15
  CLUS_3              4                7
  CLUS_4              5                5
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ARID1A MUTATED        9      7      1
  ARID1A WILD-TYPE      8     11     15
D11V2, multiclass
        clus
vv       ARID1A MUTATED ARID1A WILD-TYPE
  CLUS_1              9                8
  CLUS_2              7               11
  CLUS_3              1               15
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ARID1A MUTATED       68      2      3      0      6      1
  ARID1A WILD-TYPE     89     10     51      8      4      0
D11V3, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ARID1A MUTATED       10     16     19
  ARID1A WILD-TYPE     33     25     32
D11V4, multiclass
        clus
vv       ARID1A MUTATED ARID1A WILD-TYPE
  CLUS_1             10               33
  CLUS_2             16               25
  CLUS_3             19               32
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ARID1A MUTATED       12     13     18      3     18      2
  ARID1A WILD-TYPE     27     23     19      7     22     22
D11V5, multiclass
D11V6, binary
                  cls
clus                0  1
  ARID1A MUTATED   41 25
  ARID1A WILD-TYPE 74 46
[1] "tbl2"
                  cls
clus               [,1] [,2]
  ARID1A MUTATED     41   25
  ARID1A WILD-TYPE   74   46
        clus
vv       ARID1A MUTATED ARID1A WILD-TYPE
  CLUS_1             41               74
  CLUS_2             25               46
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ARID1A MUTATED       10     11     30     31
  ARID1A WILD-TYPE     53     25     42     43
D11V7, multiclass
        clus
vv       ARID1A MUTATED ARID1A WILD-TYPE
  CLUS_1             10               53
  CLUS_2             11               25
  CLUS_3             30               42
  CLUS_4             31               43
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ARID1A MUTATED       20     20     42
  ARID1A WILD-TYPE     65     28     70
D11V8, multiclass
        clus
vv       ARID1A MUTATED ARID1A WILD-TYPE
  CLUS_1             20               65
  CLUS_2             20               28
  CLUS_3             42               70
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ARID1A MUTATED        6     34      9      7     24
  ARID1A WILD-TYPE     36     44     14     19     47
D11V9, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ARID1A MUTATED        2     51     27
  ARID1A WILD-TYPE      2     80     78
D11V10, multiclass
        clus
vv       ARID1A MUTATED ARID1A WILD-TYPE
  CLUS_1              2                2
  CLUS_2             51               80
  CLUS_3             27               78
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ARID1A MUTATED        7     10     23
  ARID1A WILD-TYPE     29     16     31
D11V11, multiclass
        clus
vv       ARID1A MUTATED ARID1A WILD-TYPE
  CLUS_1              7               29
  CLUS_2             10               16
  CLUS_3             23               31
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ARID1A MUTATED        8      3     29      0
  ARID1A WILD-TYPE     15     19     36      6
D11V12, multiclass
        clus
vv       ARID1A MUTATED ARID1A WILD-TYPE
  CLUS_1              8               15
  CLUS_2              3               19
  CLUS_3             29               36
  CLUS_4              0                6

Clustering(12) Variable = SPOP MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SPOP MUTATED        2      1      0      2
  SPOP WILD-TYPE     10     17     11      8
D12V1, multiclass
        clus
vv       SPOP MUTATED SPOP WILD-TYPE
  CLUS_1            2             10
  CLUS_2            1             17
  CLUS_3            0             11
  CLUS_4            2              8
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SPOP MUTATED        2      2      1
  SPOP WILD-TYPE     15     16     15
D12V2, multiclass
        clus
vv       SPOP MUTATED SPOP WILD-TYPE
  CLUS_1            2             15
  CLUS_2            2             16
  CLUS_3            1             15
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SPOP MUTATED       16      1      3      0      1      0
  SPOP WILD-TYPE    141     11     51      8      9      1
D12V3, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SPOP MUTATED        4      1      5
  SPOP WILD-TYPE     39     40     46
D12V4, multiclass
        clus
vv       SPOP MUTATED SPOP WILD-TYPE
  CLUS_1            4             39
  CLUS_2            1             40
  CLUS_3            5             46
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SPOP MUTATED        5      3      2      1      3      1
  SPOP WILD-TYPE     34     33     35      9     37     23
D12V5, multiclass
D12V6, binary
                cls
clus               0   1
  SPOP MUTATED    11   4
  SPOP WILD-TYPE 104  67
[1] "tbl2"
                cls
clus             [,1] [,2]
  SPOP MUTATED     11    4
  SPOP WILD-TYPE  104   67
        clus
vv       SPOP MUTATED SPOP WILD-TYPE
  CLUS_1           11            104
  CLUS_2            4             67
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SPOP MUTATED        4      5      8      4
  SPOP WILD-TYPE     59     31     64     70
D12V7, multiclass
        clus
vv       SPOP MUTATED SPOP WILD-TYPE
  CLUS_1            4             59
  CLUS_2            5             31
  CLUS_3            8             64
  CLUS_4            4             70
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SPOP MUTATED        8      6      7
  SPOP WILD-TYPE     77     42    105
D12V8, multiclass
        clus
vv       SPOP MUTATED SPOP WILD-TYPE
  CLUS_1            8             77
  CLUS_2            6             42
  CLUS_3            7            105
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SPOP MUTATED        1      4      4      1     11
  SPOP WILD-TYPE     41     74     19     25     60
D12V9, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SPOP MUTATED        0      9     12
  SPOP WILD-TYPE      4    122     93
D12V10, multiclass
        clus
vv       SPOP MUTATED SPOP WILD-TYPE
  CLUS_1            0              4
  CLUS_2            9            122
  CLUS_3           12             93
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SPOP MUTATED        4      2      3
  SPOP WILD-TYPE     32     24     51
D12V11, multiclass
        clus
vv       SPOP MUTATED SPOP WILD-TYPE
  CLUS_1            4             32
  CLUS_2            2             24
  CLUS_3            3             51
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SPOP MUTATED        3      2      4      0
  SPOP WILD-TYPE     20     20     61      6
D12V12, multiclass
        clus
vv       SPOP MUTATED SPOP WILD-TYPE
  CLUS_1            3             20
  CLUS_2            2             20
  CLUS_3            4             61
  CLUS_4            0              6

Clustering(13) Variable = ARID5B MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ARID5B MUTATED        3      3      2      2
  ARID5B WILD-TYPE      9     15      9      8
D13V1, multiclass
        clus
vv       ARID5B MUTATED ARID5B WILD-TYPE
  CLUS_1              3                9
  CLUS_2              3               15
  CLUS_3              2                9
  CLUS_4              2                8
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ARID5B MUTATED        5      3      2
  ARID5B WILD-TYPE     12     15     14
D13V2, multiclass
        clus
vv       ARID5B MUTATED ARID5B WILD-TYPE
  CLUS_1              5               12
  CLUS_2              3               15
  CLUS_3              2               14
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ARID5B MUTATED       25      2      0      0      1      0
  ARID5B WILD-TYPE    132     10     54      8      9      1
D13V3, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ARID5B MUTATED        1      1      6
  ARID5B WILD-TYPE     42     40     45
D13V4, multiclass
        clus
vv       ARID5B MUTATED ARID5B WILD-TYPE
  CLUS_1              1               42
  CLUS_2              1               40
  CLUS_3              6               45
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ARID5B MUTATED        4      5      5      4      3      3
  ARID5B WILD-TYPE     35     31     32      6     37     21
D13V5, multiclass
D13V6, binary
                  cls
clus                0  1
  ARID5B MUTATED   18  6
  ARID5B WILD-TYPE 97 65
[1] "tbl2"
                  cls
clus               [,1] [,2]
  ARID5B MUTATED     18    6
  ARID5B WILD-TYPE   97   65
        clus
vv       ARID5B MUTATED ARID5B WILD-TYPE
  CLUS_1             18               97
  CLUS_2              6               65
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ARID5B MUTATED        3      8      7     11
  ARID5B WILD-TYPE     60     28     65     63
D13V7, multiclass
        clus
vv       ARID5B MUTATED ARID5B WILD-TYPE
  CLUS_1              3               60
  CLUS_2              8               28
  CLUS_3              7               65
  CLUS_4             11               63
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ARID5B MUTATED        6     10     13
  ARID5B WILD-TYPE     79     38     99
D13V8, multiclass
        clus
vv       ARID5B MUTATED ARID5B WILD-TYPE
  CLUS_1              6               79
  CLUS_2             10               38
  CLUS_3             13               99
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ARID5B MUTATED        0     11      3      1     12
  ARID5B WILD-TYPE     42     67     20     25     59
D13V9, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ARID5B MUTATED        1     16     10
  ARID5B WILD-TYPE      3    115     95
D13V10, multiclass
        clus
vv       ARID5B MUTATED ARID5B WILD-TYPE
  CLUS_1              1                3
  CLUS_2             16              115
  CLUS_3             10               95
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  ARID5B MUTATED        1      0      5
  ARID5B WILD-TYPE     35     26     49
D13V11, multiclass
        clus
vv       ARID5B MUTATED ARID5B WILD-TYPE
  CLUS_1              1               35
  CLUS_2              0               26
  CLUS_3              5               49
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ARID5B MUTATED        1      0      5      0
  ARID5B WILD-TYPE     22     22     60      6
D13V12, multiclass
        clus
vv       ARID5B MUTATED ARID5B WILD-TYPE
  CLUS_1              1               22
  CLUS_2              0               22
  CLUS_3              5               60
  CLUS_4              0                6

Clustering(14) Variable = FGFR2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FGFR2 MUTATED        3      2      1      0
  FGFR2 WILD-TYPE      9     16     10     10
D14V1, multiclass
        clus
vv       FGFR2 MUTATED FGFR2 WILD-TYPE
  CLUS_1             3               9
  CLUS_2             2              16
  CLUS_3             1              10
  CLUS_4             0              10
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FGFR2 MUTATED        4      1      1
  FGFR2 WILD-TYPE     13     17     15
D14V2, multiclass
        clus
vv       FGFR2 MUTATED FGFR2 WILD-TYPE
  CLUS_1             4              13
  CLUS_2             1              17
  CLUS_3             1              15
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  FGFR2 MUTATED       22      2      3      1      2      0
  FGFR2 WILD-TYPE    135     10     51      7      8      1
D14V3, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FGFR2 MUTATED        5      6      6
  FGFR2 WILD-TYPE     38     35     45
D14V4, multiclass
        clus
vv       FGFR2 MUTATED FGFR2 WILD-TYPE
  CLUS_1             5              38
  CLUS_2             6              35
  CLUS_3             6              45
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  FGFR2 MUTATED        6      5      6      1      4      3
  FGFR2 WILD-TYPE     33     31     31      9     36     21
D14V5, multiclass
D14V6, binary
                 cls
clus                0   1
  FGFR2 MUTATED    15  10
  FGFR2 WILD-TYPE 100  61
[1] "tbl2"
                 cls
clus              [,1] [,2]
  FGFR2 MUTATED     15   10
  FGFR2 WILD-TYPE  100   61
        clus
vv       FGFR2 MUTATED FGFR2 WILD-TYPE
  CLUS_1            15             100
  CLUS_2            10              61
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FGFR2 MUTATED        6      7      8      9
  FGFR2 WILD-TYPE     57     29     64     65
D14V7, multiclass
        clus
vv       FGFR2 MUTATED FGFR2 WILD-TYPE
  CLUS_1             6              57
  CLUS_2             7              29
  CLUS_3             8              64
  CLUS_4             9              65
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FGFR2 MUTATED        9      8     13
  FGFR2 WILD-TYPE     76     40     99
D14V8, multiclass
        clus
vv       FGFR2 MUTATED FGFR2 WILD-TYPE
  CLUS_1             9              76
  CLUS_2             8              40
  CLUS_3            13              99
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FGFR2 MUTATED        5     11      2      2     10
  FGFR2 WILD-TYPE     37     67     21     24     61
D14V9, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FGFR2 MUTATED        1     16     13
  FGFR2 WILD-TYPE      3    115     92
D14V10, multiclass
        clus
vv       FGFR2 MUTATED FGFR2 WILD-TYPE
  CLUS_1             1               3
  CLUS_2            16             115
  CLUS_3            13              92
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FGFR2 MUTATED        6      2      8
  FGFR2 WILD-TYPE     30     24     46
D14V11, multiclass
        clus
vv       FGFR2 MUTATED FGFR2 WILD-TYPE
  CLUS_1             6              30
  CLUS_2             2              24
  CLUS_3             8              46
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FGFR2 MUTATED        3      4      8      1
  FGFR2 WILD-TYPE     20     18     57      5
D14V12, multiclass
        clus
vv       FGFR2 MUTATED FGFR2 WILD-TYPE
  CLUS_1             3              20
  CLUS_2             4              18
  CLUS_3             8              57
  CLUS_4             1               5

Clustering(15) Variable = NFE2L2 MUTATION ANALYSIS
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NFE2L2 MUTATED        0      1      3      0
  NFE2L2 WILD-TYPE     12     17      8     10
D15V1, multiclass
        clus
vv       NFE2L2 MUTATED NFE2L2 WILD-TYPE
  CLUS_1              0               12
  CLUS_2              1               17
  CLUS_3              3                8
  CLUS_4              0               10
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  NFE2L2 MUTATED        2      1      1
  NFE2L2 WILD-TYPE     15     17     15
D15V2, multiclass
        clus
vv       NFE2L2 MUTATED NFE2L2 WILD-TYPE
  CLUS_1              2               15
  CLUS_2              1               17
  CLUS_3              1               15
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  NFE2L2 MUTATED       10      2      0      0      3      0
  NFE2L2 WILD-TYPE    147     10     54      8      7      1
D15V3, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  NFE2L2 MUTATED        1      3      3
  NFE2L2 WILD-TYPE     42     38     48
D15V4, multiclass
        clus
vv       NFE2L2 MUTATED NFE2L2 WILD-TYPE
  CLUS_1              1               42
  CLUS_2              3               38
  CLUS_3              3               48
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  NFE2L2 MUTATED        3      2      4      2      0      2
  NFE2L2 WILD-TYPE     36     34     33      8     40     22
D15V5, multiclass
D15V6, binary
                  cls
clus                 0   1
  NFE2L2 MUTATED     8   5
  NFE2L2 WILD-TYPE 107  66
[1] "tbl2"
                  cls
clus               [,1] [,2]
  NFE2L2 MUTATED      8    5
  NFE2L2 WILD-TYPE  107   66
        clus
vv       NFE2L2 MUTATED NFE2L2 WILD-TYPE
  CLUS_1              8              107
  CLUS_2              5               66
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NFE2L2 MUTATED        1      4      1      8
  NFE2L2 WILD-TYPE     62     32     71     66
D15V7, multiclass
        clus
vv       NFE2L2 MUTATED NFE2L2 WILD-TYPE
  CLUS_1              1               62
  CLUS_2              4               32
  CLUS_3              1               71
  CLUS_4              8               66
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  NFE2L2 MUTATED        3      3      8
  NFE2L2 WILD-TYPE     82     45    104
D15V8, multiclass
        clus
vv       NFE2L2 MUTATED NFE2L2 WILD-TYPE
  CLUS_1              3               82
  CLUS_2              3               45
  CLUS_3              8              104
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NFE2L2 MUTATED        1      7      2      0      5
  NFE2L2 WILD-TYPE     41     71     21     26     66
D15V9, multiclass
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  NFE2L2 MUTATED        0      9      6
  NFE2L2 WILD-TYPE      4    122     99
D15V10, multiclass
        clus
vv       NFE2L2 MUTATED NFE2L2 WILD-TYPE
  CLUS_1              0                4
  CLUS_2              9              122
  CLUS_3              6               99
                  vv
clus               CLUS_1 CLUS_2 CLUS_3
  NFE2L2 MUTATED        1      0      5
  NFE2L2 WILD-TYPE     35     26     49
D15V11, multiclass
        clus
vv       NFE2L2 MUTATED NFE2L2 WILD-TYPE
  CLUS_1              1               35
  CLUS_2              0               26
  CLUS_3              5               49
                  vv
clus               CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NFE2L2 MUTATED        1      0      5      0
  NFE2L2 WILD-TYPE     22     22     60      6
D15V12, multiclass
        clus
vv       NFE2L2 MUTATED NFE2L2 WILD-TYPE
  CLUS_1              1               22
  CLUS_2              0               22
  CLUS_3              5               60
  CLUS_4              0                6

Clustering(16) Variable = CCND1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CCND1 MUTATED        2      1      0      1
  CCND1 WILD-TYPE     10     17     11      9
D16V1, multiclass
        clus
vv       CCND1 MUTATED CCND1 WILD-TYPE
  CLUS_1             2              10
  CLUS_2             1              17
  CLUS_3             0              11
  CLUS_4             1               9
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CCND1 MUTATED        2      1      1
  CCND1 WILD-TYPE     15     17     15
D16V2, multiclass
        clus
vv       CCND1 MUTATED CCND1 WILD-TYPE
  CLUS_1             2              15
  CLUS_2             1              17
  CLUS_3             1              15
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CCND1 MUTATED       14      0      0      0      0      0
  CCND1 WILD-TYPE    143     12     54      8     10      1
D16V3, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CCND1 MUTATED        1      2      4
  CCND1 WILD-TYPE     42     39     47
D16V4, multiclass
        clus
vv       CCND1 MUTATED CCND1 WILD-TYPE
  CLUS_1             1              42
  CLUS_2             2              39
  CLUS_3             4              47
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CCND1 MUTATED        4      3      1      0      1      1
  CCND1 WILD-TYPE     35     33     36     10     39     23
D16V5, multiclass
D16V6, binary
                 cls
clus                0   1
  CCND1 MUTATED     5   5
  CCND1 WILD-TYPE 110  66
[1] "tbl2"
                 cls
clus              [,1] [,2]
  CCND1 MUTATED      5    5
  CCND1 WILD-TYPE  110   66
        clus
vv       CCND1 MUTATED CCND1 WILD-TYPE
  CLUS_1             5             110
  CLUS_2             5              66
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CCND1 MUTATED        2      2      6      4
  CCND1 WILD-TYPE     61     34     66     70
D16V7, multiclass
        clus
vv       CCND1 MUTATED CCND1 WILD-TYPE
  CLUS_1             2              61
  CLUS_2             2              34
  CLUS_3             6              66
  CLUS_4             4              70
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CCND1 MUTATED        3      5      6
  CCND1 WILD-TYPE     82     43    106
D16V8, multiclass
        clus
vv       CCND1 MUTATED CCND1 WILD-TYPE
  CLUS_1             3              82
  CLUS_2             5              43
  CLUS_3             6             106
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CCND1 MUTATED        0      3      1      2      8
  CCND1 WILD-TYPE     42     75     22     24     63
D16V9, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CCND1 MUTATED        0      9      5
  CCND1 WILD-TYPE      4    122    100
D16V10, multiclass
        clus
vv       CCND1 MUTATED CCND1 WILD-TYPE
  CLUS_1             0               4
  CLUS_2             9             122
  CLUS_3             5             100
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CCND1 MUTATED        0      1      3
  CCND1 WILD-TYPE     36     25     51
D16V11, multiclass
        clus
vv       CCND1 MUTATED CCND1 WILD-TYPE
  CLUS_1             0              36
  CLUS_2             1              25
  CLUS_3             3              51
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CCND1 MUTATED        1      0      3      0
  CCND1 WILD-TYPE     22     22     62      6
D16V12, multiclass
        clus
vv       CCND1 MUTATED CCND1 WILD-TYPE
  CLUS_1             1              22
  CLUS_2             0              22
  CLUS_3             3              62
  CLUS_4             0               6

Clustering(17) Variable = CHD4 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CHD4 MUTATED        1      6      0      2
  CHD4 WILD-TYPE     11     12     11      8
D17V1, multiclass
        clus
vv       CHD4 MUTATED CHD4 WILD-TYPE
  CLUS_1            1             11
  CLUS_2            6             12
  CLUS_3            0             11
  CLUS_4            2              8
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CHD4 MUTATED        2      2      5
  CHD4 WILD-TYPE     15     16     11
D17V2, multiclass
        clus
vv       CHD4 MUTATED CHD4 WILD-TYPE
  CLUS_1            2             15
  CLUS_2            2             16
  CLUS_3            5             11
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CHD4 MUTATED       25      1      7      0      2      0
  CHD4 WILD-TYPE    132     11     47      8      8      1
D17V3, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CHD4 MUTATED        7      5      7
  CHD4 WILD-TYPE     36     36     44
D17V4, multiclass
        clus
vv       CHD4 MUTATED CHD4 WILD-TYPE
  CLUS_1            7             36
  CLUS_2            5             36
  CLUS_3            7             44
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CHD4 MUTATED        7      6      5      1      5      3
  CHD4 WILD-TYPE     32     30     32      9     35     21
D17V5, multiclass
D17V6, binary
                cls
clus               0   1
  CHD4 MUTATED    14  13
  CHD4 WILD-TYPE 101  58
[1] "tbl2"
                cls
clus             [,1] [,2]
  CHD4 MUTATED     14   13
  CHD4 WILD-TYPE  101   58
        clus
vv       CHD4 MUTATED CHD4 WILD-TYPE
  CLUS_1           14            101
  CLUS_2           13             58
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CHD4 MUTATED       10      6     10      9
  CHD4 WILD-TYPE     53     30     62     65
D17V7, multiclass
        clus
vv       CHD4 MUTATED CHD4 WILD-TYPE
  CLUS_1           10             53
  CLUS_2            6             30
  CLUS_3           10             62
  CLUS_4            9             65
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CHD4 MUTATED       15      7     13
  CHD4 WILD-TYPE     70     41     99
D17V8, multiclass
        clus
vv       CHD4 MUTATED CHD4 WILD-TYPE
  CLUS_1           15             70
  CLUS_2            7             41
  CLUS_3           13             99
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CHD4 MUTATED        4      8      3      3     12
  CHD4 WILD-TYPE     38     70     20     23     59
D17V9, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CHD4 MUTATED        1     16     13
  CHD4 WILD-TYPE      3    115     92
D17V10, multiclass
        clus
vv       CHD4 MUTATED CHD4 WILD-TYPE
  CLUS_1            1              3
  CLUS_2           16            115
  CLUS_3           13             92
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  CHD4 MUTATED        4      2     10
  CHD4 WILD-TYPE     32     24     44
D17V11, multiclass
        clus
vv       CHD4 MUTATED CHD4 WILD-TYPE
  CLUS_1            4             32
  CLUS_2            2             24
  CLUS_3           10             44
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CHD4 MUTATED        3      3     10      0
  CHD4 WILD-TYPE     20     19     55      6
D17V12, multiclass
        clus
vv       CHD4 MUTATED CHD4 WILD-TYPE
  CLUS_1            3             20
  CLUS_2            3             19
  CLUS_3           10             55
  CLUS_4            0              6

Clustering(18) Variable = FAM9A MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FAM9A MUTATED        0      0      1      0
  FAM9A WILD-TYPE     12     18     10     10
D18V1, multiclass
[1] "Remove cluster labels:" "FAM9A MUTATED"         
clus
  FAM9A MUTATED FAM9A WILD-TYPE 
              1              50 
     TCGA-A5-A0G3      TCGA-A5-A0G5      TCGA-A5-A0GA      TCGA-A5-A0GB 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
     TCGA-A5-A0GE      TCGA-A5-A0GH      TCGA-A5-A0GM      TCGA-A5-A0GP 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
     TCGA-A5-A0GU      TCGA-AP-A051      TCGA-AP-A052      TCGA-AP-A053 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
     TCGA-AP-A054      TCGA-AP-A056      TCGA-AP-A05A      TCGA-AP-A05D 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
     TCGA-AP-A05H      TCGA-AP-A05J      TCGA-AP-A05N      TCGA-AP-A05P 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
     TCGA-AP-A0L8      TCGA-AP-A0L9      TCGA-AP-A0LD      TCGA-AP-A0LG 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
     TCGA-AP-A0LH      TCGA-AP-A0LJ      TCGA-AP-A0LN      TCGA-AP-A0LT 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
     TCGA-AP-A0LV      TCGA-AX-A05S      TCGA-AX-A05T      TCGA-AX-A05U 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
     TCGA-AX-A05W      TCGA-AX-A05Y      TCGA-AX-A05Z      TCGA-AX-A060 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
     TCGA-AX-A062      TCGA-AX-A063      TCGA-AX-A064      TCGA-AX-A06B 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
     TCGA-AX-A0IW      TCGA-AX-A0J1      TCGA-B5-A0JR      TCGA-B5-A0JZ 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
     TCGA-B5-A0K0      TCGA-B5-A0K4      TCGA-BG-A0LW      TCGA-BG-A0MI 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
     TCGA-BK-A0C9      TCGA-BK-A0CC 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FAM9A MUTATED        0      1      0
  FAM9A WILD-TYPE     17     17     16
D18V2, multiclass
[1] "Remove cluster labels:" "FAM9A MUTATED"         
clus
  FAM9A MUTATED FAM9A WILD-TYPE 
              1              50 
     TCGA-A5-A0G3      TCGA-A5-A0G5      TCGA-A5-A0GA      TCGA-A5-A0GB 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
     TCGA-A5-A0GE      TCGA-A5-A0GH      TCGA-A5-A0GM      TCGA-A5-A0GP 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
     TCGA-A5-A0GU      TCGA-AP-A051      TCGA-AP-A052      TCGA-AP-A053 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
     TCGA-AP-A054      TCGA-AP-A056      TCGA-AP-A05A      TCGA-AP-A05D 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
     TCGA-AP-A05H      TCGA-AP-A05J      TCGA-AP-A05N      TCGA-AP-A05P 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
     TCGA-AP-A0L8      TCGA-AP-A0L9      TCGA-AP-A0LD      TCGA-AP-A0LG 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
     TCGA-AP-A0LH      TCGA-AP-A0LJ      TCGA-AP-A0LN      TCGA-AP-A0LT 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
     TCGA-AP-A0LV      TCGA-AX-A05S      TCGA-AX-A05T      TCGA-AX-A05U 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
     TCGA-AX-A05W      TCGA-AX-A05Y      TCGA-AX-A05Z      TCGA-AX-A060 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
     TCGA-AX-A062      TCGA-AX-A063      TCGA-AX-A064      TCGA-AX-A06B 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
     TCGA-AX-A0IW      TCGA-AX-A0J1      TCGA-B5-A0JR      TCGA-B5-A0JZ 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
     TCGA-B5-A0K0      TCGA-B5-A0K4      TCGA-BG-A0LW      TCGA-BG-A0MI 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
     TCGA-BK-A0C9      TCGA-BK-A0CC 
"FAM9A WILD-TYPE" "FAM9A WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  FAM9A MUTATED       10      0      3      0      1      0
  FAM9A WILD-TYPE    147     12     51      8      9      1
D18V3, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FAM9A MUTATED        5      1      4
  FAM9A WILD-TYPE     38     40     47
D18V4, multiclass
        clus
vv       FAM9A MUTATED FAM9A WILD-TYPE
  CLUS_1             5              38
  CLUS_2             1              40
  CLUS_3             4              47
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  FAM9A MUTATED        3      5      2      0      0      1
  FAM9A WILD-TYPE     36     31     35     10     40     23
D18V5, multiclass
D18V6, binary
                 cls
clus                0   1
  FAM9A MUTATED     3   8
  FAM9A WILD-TYPE 112  63
[1] "tbl2"
                 cls
clus              [,1] [,2]
  FAM9A MUTATED      3    8
  FAM9A WILD-TYPE  112   63
        clus
vv       FAM9A MUTATED FAM9A WILD-TYPE
  CLUS_1             3             112
  CLUS_2             8              63
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FAM9A MUTATED        3      5      5      1
  FAM9A WILD-TYPE     60     31     67     73
D18V7, multiclass
        clus
vv       FAM9A MUTATED FAM9A WILD-TYPE
  CLUS_1             3              60
  CLUS_2             5              31
  CLUS_3             5              67
  CLUS_4             1              73
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FAM9A MUTATED        9      2      3
  FAM9A WILD-TYPE     76     46    109
D18V8, multiclass
        clus
vv       FAM9A MUTATED FAM9A WILD-TYPE
  CLUS_1             9              76
  CLUS_2             2              46
  CLUS_3             3             109
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FAM9A MUTATED        5      2      1      1      5
  FAM9A WILD-TYPE     37     76     22     25     66
D18V9, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FAM9A MUTATED        1      4      9
  FAM9A WILD-TYPE      3    127     96
D18V10, multiclass
        clus
vv       FAM9A MUTATED FAM9A WILD-TYPE
  CLUS_1             1               3
  CLUS_2             4             127
  CLUS_3             9              96
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FAM9A MUTATED        6      0      2
  FAM9A WILD-TYPE     30     26     52
D18V11, multiclass
        clus
vv       FAM9A MUTATED FAM9A WILD-TYPE
  CLUS_1             6              30
  CLUS_2             0              26
  CLUS_3             2              52
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FAM9A MUTATED        3      3      2      0
  FAM9A WILD-TYPE     20     19     63      6
D18V12, multiclass
        clus
vv       FAM9A MUTATED FAM9A WILD-TYPE
  CLUS_1             3              20
  CLUS_2             3              19
  CLUS_3             2              63
  CLUS_4             0               6

Clustering(19) Variable = MORC4 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MORC4 MUTATED        1      3      0      1
  MORC4 WILD-TYPE     11     15     11      9
D19V1, multiclass
        clus
vv       MORC4 MUTATED MORC4 WILD-TYPE
  CLUS_1             1              11
  CLUS_2             3              15
  CLUS_3             0              11
  CLUS_4             1               9
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MORC4 MUTATED        3      0      2
  MORC4 WILD-TYPE     14     18     14
D19V2, multiclass
        clus
vv       MORC4 MUTATED MORC4 WILD-TYPE
  CLUS_1             3              14
  CLUS_2             0              18
  CLUS_3             2              14
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MORC4 MUTATED       16      2      1      0      1      0
  MORC4 WILD-TYPE    141     10     53      8      9      1
D19V3, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MORC4 MUTATED        2      6      4
  MORC4 WILD-TYPE     41     35     47
D19V4, multiclass
        clus
vv       MORC4 MUTATED MORC4 WILD-TYPE
  CLUS_1             2              41
  CLUS_2             6              35
  CLUS_3             4              47
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  MORC4 MUTATED        6      5      1      1      4      0
  MORC4 WILD-TYPE     33     31     36      9     36     24
D19V5, multiclass
D19V6, binary
                 cls
clus                0   1
  MORC4 MUTATED     6  11
  MORC4 WILD-TYPE 109  60
[1] "tbl2"
                 cls
clus              [,1] [,2]
  MORC4 MUTATED      6   11
  MORC4 WILD-TYPE  109   60
        clus
vv       MORC4 MUTATED MORC4 WILD-TYPE
  CLUS_1             6             109
  CLUS_2            11              60
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MORC4 MUTATED        2      6     10      2
  MORC4 WILD-TYPE     61     30     62     72
D19V7, multiclass
        clus
vv       MORC4 MUTATED MORC4 WILD-TYPE
  CLUS_1             2              61
  CLUS_2             6              30
  CLUS_3            10              62
  CLUS_4             2              72
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MORC4 MUTATED        8      6      6
  MORC4 WILD-TYPE     77     42    106
D19V8, multiclass
        clus
vv       MORC4 MUTATED MORC4 WILD-TYPE
  CLUS_1             8              77
  CLUS_2             6              42
  CLUS_3             6             106
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  MORC4 MUTATED        2      3      3      3      8
  MORC4 WILD-TYPE     40     75     20     23     63
D19V9, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MORC4 MUTATED        0      7     12
  MORC4 WILD-TYPE      4    124     93
D19V10, multiclass
        clus
vv       MORC4 MUTATED MORC4 WILD-TYPE
  CLUS_1             0               4
  CLUS_2             7             124
  CLUS_3            12              93
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  MORC4 MUTATED        2      4      3
  MORC4 WILD-TYPE     34     22     51
D19V11, multiclass
        clus
vv       MORC4 MUTATED MORC4 WILD-TYPE
  CLUS_1             2              34
  CLUS_2             4              22
  CLUS_3             3              51
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  MORC4 MUTATED        5      0      4      0
  MORC4 WILD-TYPE     18     22     61      6
D19V12, multiclass
        clus
vv       MORC4 MUTATED MORC4 WILD-TYPE
  CLUS_1             5              18
  CLUS_2             0              22
  CLUS_3             4              61
  CLUS_4             0               6

Clustering(20) Variable = CASP8 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CASP8 MUTATED        2      1      0      0
  CASP8 WILD-TYPE     10     17     11     10
D20V1, multiclass
        clus
vv       CASP8 MUTATED CASP8 WILD-TYPE
  CLUS_1             2              10
  CLUS_2             1              17
  CLUS_3             0              11
  CLUS_4             0              10
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CASP8 MUTATED        3      0      0
  CASP8 WILD-TYPE     14     18     16
D20V2, multiclass
        clus
vv       CASP8 MUTATED CASP8 WILD-TYPE
  CLUS_1             3              14
  CLUS_2             0              18
  CLUS_3             0              16
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CASP8 MUTATED       14      0      1      0      2      0
  CASP8 WILD-TYPE    143     12     53      8      8      1
D20V3, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CASP8 MUTATED        2      2      5
  CASP8 WILD-TYPE     41     39     46
D20V4, multiclass
        clus
vv       CASP8 MUTATED CASP8 WILD-TYPE
  CLUS_1             2              41
  CLUS_2             2              39
  CLUS_3             5              46
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  CASP8 MUTATED        3      6      2      2      1      1
  CASP8 WILD-TYPE     36     30     35      8     39     23
D20V5, multiclass
D20V6, binary
                 cls
clus                0   1
  CASP8 MUTATED     7   8
  CASP8 WILD-TYPE 108  63
[1] "tbl2"
                 cls
clus              [,1] [,2]
  CASP8 MUTATED      7    8
  CASP8 WILD-TYPE  108   63
        clus
vv       CASP8 MUTATED CASP8 WILD-TYPE
  CLUS_1             7             108
  CLUS_2             8              63
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CASP8 MUTATED        3      5      5      4
  CASP8 WILD-TYPE     60     31     67     70
D20V7, multiclass
        clus
vv       CASP8 MUTATED CASP8 WILD-TYPE
  CLUS_1             3              60
  CLUS_2             5              31
  CLUS_3             5              67
  CLUS_4             4              70
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CASP8 MUTATED        9      4      4
  CASP8 WILD-TYPE     76     44    108
D20V8, multiclass
        clus
vv       CASP8 MUTATED CASP8 WILD-TYPE
  CLUS_1             9              76
  CLUS_2             4              44
  CLUS_3             4             108
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  CASP8 MUTATED        2      4      1      0      9
  CASP8 WILD-TYPE     40     74     22     26     62
D20V9, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CASP8 MUTATED        1      7      8
  CASP8 WILD-TYPE      3    124     97
D20V10, multiclass
        clus
vv       CASP8 MUTATED CASP8 WILD-TYPE
  CLUS_1             1               3
  CLUS_2             7             124
  CLUS_3             8              97
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  CASP8 MUTATED        3      0      4
  CASP8 WILD-TYPE     33     26     50
D20V11, multiclass
        clus
vv       CASP8 MUTATED CASP8 WILD-TYPE
  CLUS_1             3              33
  CLUS_2             0              26
  CLUS_3             4              50
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  CASP8 MUTATED        2      1      4      0
  CASP8 WILD-TYPE     21     21     61      6
D20V12, multiclass
        clus
vv       CASP8 MUTATED CASP8 WILD-TYPE
  CLUS_1             2              21
  CLUS_2             1              21
  CLUS_3             4              61
  CLUS_4             0               6

Clustering(21) Variable = FOXA2 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FOXA2 MUTATED        0      1      1      0
  FOXA2 WILD-TYPE     12     17     10     10
D21V1, multiclass
[1] "Remove cluster labels:" "FOXA2 MUTATED"         
clus
  FOXA2 MUTATED FOXA2 WILD-TYPE 
              2              49 
     TCGA-A5-A0G3      TCGA-A5-A0G5      TCGA-A5-A0GA      TCGA-A5-A0GB 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-A5-A0GE      TCGA-A5-A0GH      TCGA-A5-A0GM      TCGA-A5-A0GP 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-A5-A0GU      TCGA-AP-A051      TCGA-AP-A052      TCGA-AP-A053 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-AP-A054      TCGA-AP-A056      TCGA-AP-A05A      TCGA-AP-A05H 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-AP-A05J      TCGA-AP-A05N      TCGA-AP-A05P      TCGA-AP-A0L8 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-AP-A0L9      TCGA-AP-A0LD      TCGA-AP-A0LG      TCGA-AP-A0LH 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-AP-A0LJ      TCGA-AP-A0LN      TCGA-AP-A0LT      TCGA-AP-A0LV 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-AX-A05S      TCGA-AX-A05T      TCGA-AX-A05U      TCGA-AX-A05W 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-AX-A05Y      TCGA-AX-A05Z      TCGA-AX-A060      TCGA-AX-A062 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-AX-A063      TCGA-AX-A064      TCGA-AX-A06B      TCGA-AX-A0IW 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-AX-A0J1      TCGA-B5-A0JR      TCGA-B5-A0JZ      TCGA-B5-A0K0 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-B5-A0K1      TCGA-B5-A0K4      TCGA-BG-A0LW      TCGA-BG-A0MI 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-BK-A0CC 
"FOXA2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FOXA2 MUTATED        0      1      1
  FOXA2 WILD-TYPE     17     17     15
D21V2, multiclass
[1] "Remove cluster labels:" "FOXA2 MUTATED"         
clus
  FOXA2 MUTATED FOXA2 WILD-TYPE 
              2              49 
     TCGA-A5-A0G3      TCGA-A5-A0G5      TCGA-A5-A0GA      TCGA-A5-A0GB 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-A5-A0GE      TCGA-A5-A0GH      TCGA-A5-A0GM      TCGA-A5-A0GP 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-A5-A0GU      TCGA-AP-A051      TCGA-AP-A052      TCGA-AP-A053 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-AP-A054      TCGA-AP-A056      TCGA-AP-A05A      TCGA-AP-A05H 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-AP-A05J      TCGA-AP-A05N      TCGA-AP-A05P      TCGA-AP-A0L8 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-AP-A0L9      TCGA-AP-A0LD      TCGA-AP-A0LG      TCGA-AP-A0LH 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-AP-A0LJ      TCGA-AP-A0LN      TCGA-AP-A0LT      TCGA-AP-A0LV 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-AX-A05S      TCGA-AX-A05T      TCGA-AX-A05U      TCGA-AX-A05W 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-AX-A05Y      TCGA-AX-A05Z      TCGA-AX-A060      TCGA-AX-A062 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-AX-A063      TCGA-AX-A064      TCGA-AX-A06B      TCGA-AX-A0IW 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-AX-A0J1      TCGA-B5-A0JR      TCGA-B5-A0JZ      TCGA-B5-A0K0 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-B5-A0K1      TCGA-B5-A0K4      TCGA-BG-A0LW      TCGA-BG-A0MI 
"FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" "FOXA2 WILD-TYPE" 
     TCGA-BK-A0CC 
"FOXA2 WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  FOXA2 MUTATED        7      0      3      0      2      0
  FOXA2 WILD-TYPE    150     12     51      8      8      1
D21V3, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FOXA2 MUTATED        2      3      2
  FOXA2 WILD-TYPE     41     38     49
D21V4, multiclass
        clus
vv       FOXA2 MUTATED FOXA2 WILD-TYPE
  CLUS_1             2              41
  CLUS_2             3              38
  CLUS_3             2              49
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  FOXA2 MUTATED        0      4      2      2      2      0
  FOXA2 WILD-TYPE     39     32     35      8     38     24
D21V5, multiclass
D21V6, binary
                 cls
clus                0   1
  FOXA2 MUTATED     7   3
  FOXA2 WILD-TYPE 108  68
[1] "tbl2"
                 cls
clus              [,1] [,2]
  FOXA2 MUTATED      7    3
  FOXA2 WILD-TYPE  108   68
        clus
vv       FOXA2 MUTATED FOXA2 WILD-TYPE
  CLUS_1             7             108
  CLUS_2             3              68
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FOXA2 MUTATED        3      0      4      5
  FOXA2 WILD-TYPE     60     36     68     69
D21V7, multiclass
        clus
vv       FOXA2 MUTATED FOXA2 WILD-TYPE
  CLUS_1             3              60
  CLUS_2             0              36
  CLUS_3             4              68
  CLUS_4             5              69
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FOXA2 MUTATED        4      1      7
  FOXA2 WILD-TYPE     81     47    105
D21V8, multiclass
        clus
vv       FOXA2 MUTATED FOXA2 WILD-TYPE
  CLUS_1             4              81
  CLUS_2             1              47
  CLUS_3             7             105
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  FOXA2 MUTATED        2      6      0      3      0
  FOXA2 WILD-TYPE     40     72     23     23     71
D21V9, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FOXA2 MUTATED        0      7      4
  FOXA2 WILD-TYPE      4    124    101
D21V10, multiclass
        clus
vv       FOXA2 MUTATED FOXA2 WILD-TYPE
  CLUS_1             0               4
  CLUS_2             7             124
  CLUS_3             4             101
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  FOXA2 MUTATED        1      2      4
  FOXA2 WILD-TYPE     35     24     50
D21V11, multiclass
        clus
vv       FOXA2 MUTATED FOXA2 WILD-TYPE
  CLUS_1             1              35
  CLUS_2             2              24
  CLUS_3             4              50
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  FOXA2 MUTATED        1      0      5      1
  FOXA2 WILD-TYPE     22     22     60      5
D21V12, multiclass
        clus
vv       FOXA2 MUTATED FOXA2 WILD-TYPE
  CLUS_1             1              22
  CLUS_2             0              22
  CLUS_3             5              60
  CLUS_4             1               5

Clustering(22) Variable = ABI1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ABI1 MUTATED        1      0      0      0
  ABI1 WILD-TYPE     11     18     11     10
D22V1, multiclass
[1] "Remove cluster labels:" "ABI1 MUTATED"          
clus
  ABI1 MUTATED ABI1 WILD-TYPE 
             1             50 
    TCGA-A5-A0G3     TCGA-A5-A0G5     TCGA-A5-A0GA     TCGA-A5-A0GB 
"ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" 
    TCGA-A5-A0GE     TCGA-A5-A0GH     TCGA-A5-A0GM     TCGA-A5-A0GP 
"ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" 
    TCGA-A5-A0GU     TCGA-AP-A051     TCGA-AP-A052     TCGA-AP-A053 
"ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" 
    TCGA-AP-A054     TCGA-AP-A056     TCGA-AP-A05A     TCGA-AP-A05D 
"ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" 
    TCGA-AP-A05H     TCGA-AP-A05J     TCGA-AP-A05N     TCGA-AP-A05P 
"ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" 
    TCGA-AP-A0L8     TCGA-AP-A0L9     TCGA-AP-A0LD     TCGA-AP-A0LG 
"ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" 
    TCGA-AP-A0LH     TCGA-AP-A0LJ     TCGA-AP-A0LN     TCGA-AP-A0LT 
"ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" 
    TCGA-AP-A0LV     TCGA-AX-A05S     TCGA-AX-A05T     TCGA-AX-A05U 
"ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" 
    TCGA-AX-A05W     TCGA-AX-A05Y     TCGA-AX-A060     TCGA-AX-A062 
"ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" 
    TCGA-AX-A063     TCGA-AX-A064     TCGA-AX-A06B     TCGA-AX-A0IW 
"ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" 
    TCGA-AX-A0J1     TCGA-B5-A0JR     TCGA-B5-A0JZ     TCGA-B5-A0K0 
"ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" 
    TCGA-B5-A0K1     TCGA-B5-A0K4     TCGA-BG-A0LW     TCGA-BG-A0MI 
"ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" 
    TCGA-BK-A0C9     TCGA-BK-A0CC 
"ABI1 WILD-TYPE" "ABI1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ABI1 MUTATED        1      0      0
  ABI1 WILD-TYPE     16     18     16
D22V2, multiclass
[1] "Remove cluster labels:" "ABI1 MUTATED"          
clus
  ABI1 MUTATED ABI1 WILD-TYPE 
             1             50 
    TCGA-A5-A0G3     TCGA-A5-A0G5     TCGA-A5-A0GA     TCGA-A5-A0GB 
"ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" 
    TCGA-A5-A0GE     TCGA-A5-A0GH     TCGA-A5-A0GM     TCGA-A5-A0GP 
"ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" 
    TCGA-A5-A0GU     TCGA-AP-A051     TCGA-AP-A052     TCGA-AP-A053 
"ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" 
    TCGA-AP-A054     TCGA-AP-A056     TCGA-AP-A05A     TCGA-AP-A05D 
"ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" 
    TCGA-AP-A05H     TCGA-AP-A05J     TCGA-AP-A05N     TCGA-AP-A05P 
"ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" 
    TCGA-AP-A0L8     TCGA-AP-A0L9     TCGA-AP-A0LD     TCGA-AP-A0LG 
"ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" 
    TCGA-AP-A0LH     TCGA-AP-A0LJ     TCGA-AP-A0LN     TCGA-AP-A0LT 
"ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" 
    TCGA-AP-A0LV     TCGA-AX-A05S     TCGA-AX-A05T     TCGA-AX-A05U 
"ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" 
    TCGA-AX-A05W     TCGA-AX-A05Y     TCGA-AX-A060     TCGA-AX-A062 
"ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" 
    TCGA-AX-A063     TCGA-AX-A064     TCGA-AX-A06B     TCGA-AX-A0IW 
"ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" 
    TCGA-AX-A0J1     TCGA-B5-A0JR     TCGA-B5-A0JZ     TCGA-B5-A0K0 
"ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" 
    TCGA-B5-A0K1     TCGA-B5-A0K4     TCGA-BG-A0LW     TCGA-BG-A0MI 
"ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" 
    TCGA-BK-A0C9     TCGA-BK-A0CC 
"ABI1 WILD-TYPE" "ABI1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ABI1 MUTATED        4      0      0      0      0      0
  ABI1 WILD-TYPE    153     12     54      8     10      1
D22V3, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ABI1 MUTATED        0      1      1
  ABI1 WILD-TYPE     43     40     50
D22V4, multiclass
[1] "Remove cluster labels:" "ABI1 MUTATED"          
clus
  ABI1 MUTATED ABI1 WILD-TYPE 
             2            133 
    TCGA-A5-A0GQ     TCGA-A5-A0VO     TCGA-AJ-A23M     TCGA-AP-A059 
"ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" 
    TCGA-AP-A0LF     TCGA-AP-A0LM     TCGA-AP-A1DQ     TCGA-AX-A06H 
"ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" 
    TCGA-AX-A06L     TCGA-AX-A0IS     TCGA-AX-A0J0     TCGA-AX-A1C7 
"ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" 
    TCGA-AX-A1C8     TCGA-AX-A1CP     TCGA-AX-A2H5     TCGA-AX-A2HF 
"ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" 
    TCGA-B5-A0JT     TCGA-B5-A0K8     TCGA-B5-A11E     TCGA-B5-A11F 
"ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" 
    TCGA-B5-A11G     TCGA-B5-A11H     TCGA-B5-A11I     TCGA-B5-A11J 
"ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" 
    TCGA-B5-A11M     TCGA-B5-A11N     TCGA-B5-A11O     TCGA-B5-A11Q 
"ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" 
    TCGA-B5-A11R     TCGA-B5-A11S     TCGA-B5-A11U     TCGA-B5-A11V 
"ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" 
    TCGA-B5-A11W     TCGA-B5-A11X     TCGA-B5-A11Y     TCGA-B5-A11Z 
"ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" 
    TCGA-B5-A121     TCGA-B5-A1MU     TCGA-B5-A1MY     TCGA-BG-A0VT 
"ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" 
    TCGA-BG-A0VV     TCGA-BG-A0VW     TCGA-BG-A0VX     TCGA-BG-A0VZ 
"ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" 
    TCGA-BG-A0W1     TCGA-BG-A0W2     TCGA-BG-A0YU     TCGA-BG-A0YV 
"ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" 
    TCGA-BG-A186     TCGA-BG-A187     TCGA-BG-A18A     TCGA-BG-A18B 
"ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" 
    TCGA-BG-A18C     TCGA-BG-A2AE     TCGA-BK-A0CA     TCGA-BK-A0CC 
"ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" 
    TCGA-BK-A139     TCGA-BK-A13C     TCGA-BS-A0T9     TCGA-BS-A0U5 
"ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" 
    TCGA-BS-A0U9     TCGA-BS-A0UA     TCGA-BS-A0UL     TCGA-BS-A0V6 
"ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" 
    TCGA-BS-A0V7     TCGA-BS-A0V8     TCGA-BS-A0WQ     TCGA-D1-A0ZN 
"ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" 
    TCGA-D1-A0ZO     TCGA-D1-A0ZP     TCGA-D1-A0ZQ     TCGA-D1-A0ZR 
"ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" 
    TCGA-D1-A0ZS     TCGA-D1-A0ZU     TCGA-D1-A0ZV     TCGA-D1-A0ZZ 
"ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" 
    TCGA-D1-A101     TCGA-D1-A102     TCGA-D1-A103     TCGA-D1-A15V 
"ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" 
    TCGA-D1-A15W     TCGA-D1-A15X     TCGA-D1-A15Z     TCGA-D1-A160 
"ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" 
    TCGA-D1-A161     TCGA-D1-A163     TCGA-D1-A165     TCGA-D1-A167 
"ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" 
    TCGA-D1-A168     TCGA-D1-A169     TCGA-D1-A16B     TCGA-D1-A16D 
"ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" 
    TCGA-D1-A16E     TCGA-D1-A16F     TCGA-D1-A16G     TCGA-D1-A16I 
"ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" 
    TCGA-D1-A16J     TCGA-D1-A16N     TCGA-D1-A16O     TCGA-D1-A16Q 
"ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" 
    TCGA-D1-A16R     TCGA-D1-A16S     TCGA-D1-A16Y     TCGA-D1-A174 
"ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" 
    TCGA-D1-A176     TCGA-D1-A177     TCGA-D1-A17A     TCGA-D1-A17B 
"ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" 
    TCGA-D1-A17C     TCGA-D1-A17D     TCGA-D1-A17F     TCGA-D1-A17H 
"ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" 
    TCGA-D1-A17K     TCGA-D1-A17L     TCGA-D1-A17M     TCGA-D1-A17N 
"ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" 
    TCGA-D1-A17R     TCGA-D1-A17S     TCGA-D1-A17T     TCGA-D1-A17U 
"ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" 
    TCGA-D1-A1NU     TCGA-D1-A1NX     TCGA-DI-A0WH     TCGA-DI-A1NN 
"ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" 
    TCGA-E6-A1LZ     TCGA-EO-A1Y5     TCGA-EO-A1Y8     TCGA-EY-A1GS 
"ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" 
    TCGA-EY-A212     TCGA-FI-A2D2     TCGA-FI-A2EW     TCGA-FI-A2EX 
"ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" 
    TCGA-FI-A2F8 
"ABI1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ABI1 MUTATED        2      1      1      0      0      0
  ABI1 WILD-TYPE     37     35     36     10     40     24
D22V5, multiclass
D22V6, binary
                cls
clus               0   1
  ABI1 MUTATED     2   2
  ABI1 WILD-TYPE 113  69
[1] "tbl2"
                cls
clus             [,1] [,2]
  ABI1 MUTATED      2    2
  ABI1 WILD-TYPE  113   69
        clus
vv       ABI1 MUTATED ABI1 WILD-TYPE
  CLUS_1            2            113
  CLUS_2            2             69
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ABI1 MUTATED        0      1      1      2
  ABI1 WILD-TYPE     63     35     71     72
D22V7, multiclass
        clus
vv       ABI1 MUTATED ABI1 WILD-TYPE
  CLUS_1            0             63
  CLUS_2            1             35
  CLUS_3            1             71
  CLUS_4            2             72
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ABI1 MUTATED        1      2      1
  ABI1 WILD-TYPE     84     46    111
D22V8, multiclass
        clus
vv       ABI1 MUTATED ABI1 WILD-TYPE
  CLUS_1            1             84
  CLUS_2            2             46
  CLUS_3            1            111
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ABI1 MUTATED        0      2      0      1      1
  ABI1 WILD-TYPE     42     76     23     25     70
D22V9, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ABI1 MUTATED        0      3      1
  ABI1 WILD-TYPE      4    128    104
D22V10, multiclass
        clus
vv       ABI1 MUTATED ABI1 WILD-TYPE
  CLUS_1            0              4
  CLUS_2            3            128
  CLUS_3            1            104
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  ABI1 MUTATED        0      0      2
  ABI1 WILD-TYPE     36     26     52
D22V11, multiclass
[1] "Remove cluster labels:" "ABI1 MUTATED"          
clus
  ABI1 MUTATED ABI1 WILD-TYPE 
             2            114 
    TCGA-A5-A0GB     TCGA-A5-A0GN     TCGA-A5-A0GQ     TCGA-AJ-A23M 
"ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" 
    TCGA-AP-A059     TCGA-AP-A0LF     TCGA-AP-A0LM     TCGA-AP-A0LO 
"ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" 
    TCGA-AP-A1DQ     TCGA-AX-A064     TCGA-AX-A06H     TCGA-AX-A06L 
"ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" 
    TCGA-AX-A1C7     TCGA-AX-A1C8     TCGA-AX-A1CP     TCGA-AX-A2H5 
"ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" 
    TCGA-AX-A2HF     TCGA-B5-A0JR     TCGA-B5-A0JT     TCGA-B5-A0K8 
"ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" 
    TCGA-B5-A11G     TCGA-B5-A11H     TCGA-B5-A11J     TCGA-B5-A11M 
"ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" 
    TCGA-B5-A11N     TCGA-B5-A11O     TCGA-B5-A11Q     TCGA-B5-A11R 
"ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" 
    TCGA-B5-A11S     TCGA-B5-A11U     TCGA-B5-A11W     TCGA-B5-A11Z 
"ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" 
    TCGA-B5-A121     TCGA-B5-A1MU     TCGA-B5-A1MY     TCGA-BG-A0VV 
"ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" 
    TCGA-BG-A0VW     TCGA-BG-A0VX     TCGA-BG-A0YV     TCGA-BG-A186 
"ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" 
    TCGA-BG-A187     TCGA-BG-A18A     TCGA-BG-A18B     TCGA-BG-A18C 
"ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" 
    TCGA-BG-A2AE     TCGA-BK-A0CA     TCGA-BK-A0CC     TCGA-BK-A139 
"ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" 
    TCGA-BK-A13C     TCGA-BS-A0T9     TCGA-BS-A0UA     TCGA-BS-A0V6 
"ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" 
    TCGA-BS-A0V7     TCGA-BS-A0V8     TCGA-D1-A0ZN     TCGA-D1-A0ZO 
"ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" 
    TCGA-D1-A0ZQ     TCGA-D1-A0ZS     TCGA-D1-A102     TCGA-D1-A103 
"ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" 
    TCGA-D1-A15V     TCGA-D1-A15W     TCGA-D1-A15X     TCGA-D1-A15Z 
"ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" 
    TCGA-D1-A160     TCGA-D1-A161     TCGA-D1-A163     TCGA-D1-A165 
"ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" 
    TCGA-D1-A167     TCGA-D1-A168     TCGA-D1-A169     TCGA-D1-A16B 
"ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" 
    TCGA-D1-A16D     TCGA-D1-A16E     TCGA-D1-A16F     TCGA-D1-A16G 
"ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" 
    TCGA-D1-A16I     TCGA-D1-A16J     TCGA-D1-A16N     TCGA-D1-A16O 
"ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" 
    TCGA-D1-A16Q     TCGA-D1-A16R     TCGA-D1-A16S     TCGA-D1-A16Y 
"ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" 
    TCGA-D1-A174     TCGA-D1-A176     TCGA-D1-A177     TCGA-D1-A17A 
"ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" 
    TCGA-D1-A17B     TCGA-D1-A17C     TCGA-D1-A17D     TCGA-D1-A17F 
"ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" 
    TCGA-D1-A17H     TCGA-D1-A17K     TCGA-D1-A17L     TCGA-D1-A17M 
"ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" 
    TCGA-D1-A17N     TCGA-D1-A17R     TCGA-D1-A17S     TCGA-D1-A17T 
"ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" 
    TCGA-D1-A17U     TCGA-D1-A1NU     TCGA-D1-A1NX     TCGA-DI-A0WH 
"ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" 
    TCGA-DI-A1NN     TCGA-E6-A1LZ     TCGA-EO-A1Y5     TCGA-EO-A1Y8 
"ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" 
    TCGA-EY-A1GS     TCGA-EY-A212     TCGA-FI-A2D2     TCGA-FI-A2EW 
"ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" 
    TCGA-FI-A2EX     TCGA-FI-A2F8 
"ABI1 WILD-TYPE" "ABI1 WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ABI1 MUTATED        0      0      2      0
  ABI1 WILD-TYPE     23     22     63      6
D22V12, multiclass
[1] "Remove cluster labels:" "ABI1 MUTATED"          
clus
  ABI1 MUTATED ABI1 WILD-TYPE 
             2            114 
    TCGA-A5-A0GB     TCGA-A5-A0GN     TCGA-A5-A0GQ     TCGA-AJ-A23M 
"ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" 
    TCGA-AP-A059     TCGA-AP-A0LF     TCGA-AP-A0LM     TCGA-AP-A0LO 
"ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" 
    TCGA-AP-A1DQ     TCGA-AX-A064     TCGA-AX-A06H     TCGA-AX-A06L 
"ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" 
    TCGA-AX-A1C7     TCGA-AX-A1C8     TCGA-AX-A1CP     TCGA-AX-A2H5 
"ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" 
    TCGA-AX-A2HF     TCGA-B5-A0JR     TCGA-B5-A0JT     TCGA-B5-A0K8 
"ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" 
    TCGA-B5-A11G     TCGA-B5-A11H     TCGA-B5-A11J     TCGA-B5-A11M 
"ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" 
    TCGA-B5-A11N     TCGA-B5-A11O     TCGA-B5-A11Q     TCGA-B5-A11R 
"ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" 
    TCGA-B5-A11S     TCGA-B5-A11U     TCGA-B5-A11W     TCGA-B5-A11Z 
"ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" 
    TCGA-B5-A121     TCGA-B5-A1MU     TCGA-B5-A1MY     TCGA-BG-A0VV 
"ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" 
    TCGA-BG-A0VW     TCGA-BG-A0VX     TCGA-BG-A0YV     TCGA-BG-A186 
"ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" 
    TCGA-BG-A187     TCGA-BG-A18A     TCGA-BG-A18B     TCGA-BG-A18C 
"ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" 
    TCGA-BG-A2AE     TCGA-BK-A0CA     TCGA-BK-A0CC     TCGA-BK-A139 
"ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" 
    TCGA-BK-A13C     TCGA-BS-A0T9     TCGA-BS-A0UA     TCGA-BS-A0V6 
"ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" 
    TCGA-BS-A0V7     TCGA-BS-A0V8     TCGA-D1-A0ZN     TCGA-D1-A0ZO 
"ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" 
    TCGA-D1-A0ZQ     TCGA-D1-A0ZS     TCGA-D1-A102     TCGA-D1-A103 
"ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" 
    TCGA-D1-A15V     TCGA-D1-A15W     TCGA-D1-A15X     TCGA-D1-A15Z 
"ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" 
    TCGA-D1-A160     TCGA-D1-A161     TCGA-D1-A163     TCGA-D1-A165 
"ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" 
    TCGA-D1-A167     TCGA-D1-A168     TCGA-D1-A169     TCGA-D1-A16B 
"ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" 
    TCGA-D1-A16D     TCGA-D1-A16E     TCGA-D1-A16F     TCGA-D1-A16G 
"ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" 
    TCGA-D1-A16I     TCGA-D1-A16J     TCGA-D1-A16N     TCGA-D1-A16O 
"ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" 
    TCGA-D1-A16Q     TCGA-D1-A16R     TCGA-D1-A16S     TCGA-D1-A16Y 
"ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" 
    TCGA-D1-A174     TCGA-D1-A176     TCGA-D1-A177     TCGA-D1-A17A 
"ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" 
    TCGA-D1-A17B     TCGA-D1-A17C     TCGA-D1-A17D     TCGA-D1-A17F 
"ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" 
    TCGA-D1-A17H     TCGA-D1-A17K     TCGA-D1-A17L     TCGA-D1-A17M 
"ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" 
    TCGA-D1-A17N     TCGA-D1-A17R     TCGA-D1-A17S     TCGA-D1-A17T 
"ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" 
    TCGA-D1-A17U     TCGA-D1-A1NU     TCGA-D1-A1NX     TCGA-DI-A0WH 
"ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" 
    TCGA-DI-A1NN     TCGA-E6-A1LZ     TCGA-EO-A1Y5     TCGA-EO-A1Y8 
"ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" 
    TCGA-EY-A1GS     TCGA-EY-A212     TCGA-FI-A2D2     TCGA-FI-A2EW 
"ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" "ABI1 WILD-TYPE" 
    TCGA-FI-A2EX     TCGA-FI-A2F8 
"ABI1 WILD-TYPE" "ABI1 WILD-TYPE" 

Clustering(23) Variable = DNER MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DNER MUTATED        3      2      0      0
  DNER WILD-TYPE      9     16     11     10
D23V1, multiclass
        clus
vv       DNER MUTATED DNER WILD-TYPE
  CLUS_1            3              9
  CLUS_2            2             16
  CLUS_3            0             11
  CLUS_4            0             10
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  DNER MUTATED        4      0      1
  DNER WILD-TYPE     13     18     15
D23V2, multiclass
        clus
vv       DNER MUTATED DNER WILD-TYPE
  CLUS_1            4             13
  CLUS_2            0             18
  CLUS_3            1             15
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  DNER MUTATED       15      0      0      0      3      0
  DNER WILD-TYPE    142     12     54      8      7      1
D23V3, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  DNER MUTATED        3      1      4
  DNER WILD-TYPE     40     40     47
D23V4, multiclass
        clus
vv       DNER MUTATED DNER WILD-TYPE
  CLUS_1            3             40
  CLUS_2            1             40
  CLUS_3            4             47
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  DNER MUTATED        4      4      4      3      0      0
  DNER WILD-TYPE     35     32     33      7     40     24
D23V5, multiclass
D23V6, binary
                cls
clus               0   1
  DNER MUTATED     8   7
  DNER WILD-TYPE 107  64
[1] "tbl2"
                cls
clus             [,1] [,2]
  DNER MUTATED      8    7
  DNER WILD-TYPE  107   64
        clus
vv       DNER MUTATED DNER WILD-TYPE
  CLUS_1            8            107
  CLUS_2            7             64
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DNER MUTATED        2      6      5      5
  DNER WILD-TYPE     61     30     67     69
D23V7, multiclass
        clus
vv       DNER MUTATED DNER WILD-TYPE
  CLUS_1            2             61
  CLUS_2            6             30
  CLUS_3            5             67
  CLUS_4            5             69
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  DNER MUTATED        6      7      5
  DNER WILD-TYPE     79     41    107
D23V8, multiclass
        clus
vv       DNER MUTATED DNER WILD-TYPE
  CLUS_1            6             79
  CLUS_2            7             41
  CLUS_3            5            107
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  DNER MUTATED        2      5      2      1      7
  DNER WILD-TYPE     40     73     21     25     64
D23V9, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  DNER MUTATED        1      7      9
  DNER WILD-TYPE      3    124     96
D23V10, multiclass
        clus
vv       DNER MUTATED DNER WILD-TYPE
  CLUS_1            1              3
  CLUS_2            7            124
  CLUS_3            9             96
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  DNER MUTATED        1      2      4
  DNER WILD-TYPE     35     24     50
D23V11, multiclass
        clus
vv       DNER MUTATED DNER WILD-TYPE
  CLUS_1            1             35
  CLUS_2            2             24
  CLUS_3            4             50
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  DNER MUTATED        2      1      4      0
  DNER WILD-TYPE     21     21     61      6
D23V12, multiclass
        clus
vv       DNER MUTATED DNER WILD-TYPE
  CLUS_1            2             21
  CLUS_2            1             21
  CLUS_3            4             61
  CLUS_4            0              6

Clustering(24) Variable = BCOR MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  BCOR MUTATED        1      2      0      0
  BCOR WILD-TYPE     11     16     11     10
D24V1, multiclass
        clus
vv       BCOR MUTATED BCOR WILD-TYPE
  CLUS_1            1             11
  CLUS_2            2             16
  CLUS_3            0             11
  CLUS_4            0             10
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  BCOR MUTATED        2      0      1
  BCOR WILD-TYPE     15     18     15
D24V2, multiclass
        clus
vv       BCOR MUTATED BCOR WILD-TYPE
  CLUS_1            2             15
  CLUS_2            0             18
  CLUS_3            1             15
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  BCOR MUTATED       26      0      0      0      3      0
  BCOR WILD-TYPE    131     12     54      8      7      1
D24V3, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  BCOR MUTATED        1      4     10
  BCOR WILD-TYPE     42     37     41
D24V4, multiclass
        clus
vv       BCOR MUTATED BCOR WILD-TYPE
  CLUS_1            1             42
  CLUS_2            4             37
  CLUS_3           10             41
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  BCOR MUTATED        5      6      3      3      5      2
  BCOR WILD-TYPE     34     30     34      7     35     22
D24V5, multiclass
D24V6, binary
                cls
clus               0   1
  BCOR MUTATED    13  11
  BCOR WILD-TYPE 102  60
[1] "tbl2"
                cls
clus             [,1] [,2]
  BCOR MUTATED     13   11
  BCOR WILD-TYPE  102   60
        clus
vv       BCOR MUTATED BCOR WILD-TYPE
  CLUS_1           13            102
  CLUS_2           11             60
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  BCOR MUTATED        2      8     15      5
  BCOR WILD-TYPE     61     28     57     69
D24V7, multiclass
        clus
vv       BCOR MUTATED BCOR WILD-TYPE
  CLUS_1            2             61
  CLUS_2            8             28
  CLUS_3           15             57
  CLUS_4            5             69
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  BCOR MUTATED        9      9     12
  BCOR WILD-TYPE     76     39    100
D24V8, multiclass
        clus
vv       BCOR MUTATED BCOR WILD-TYPE
  CLUS_1            9             76
  CLUS_2            9             39
  CLUS_3           12            100
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BCOR MUTATED        2      8      3      1     15
  BCOR WILD-TYPE     40     70     20     25     56
D24V9, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  BCOR MUTATED        2     14     13
  BCOR WILD-TYPE      2    117     92
D24V10, multiclass
        clus
vv       BCOR MUTATED BCOR WILD-TYPE
  CLUS_1            2              2
  CLUS_2           14            117
  CLUS_3           13             92
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  BCOR MUTATED        3      3      7
  BCOR WILD-TYPE     33     23     47
D24V11, multiclass
        clus
vv       BCOR MUTATED BCOR WILD-TYPE
  CLUS_1            3             33
  CLUS_2            3             23
  CLUS_3            7             47
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  BCOR MUTATED        2      0     10      1
  BCOR WILD-TYPE     21     22     55      5
D24V12, multiclass
        clus
vv       BCOR MUTATED BCOR WILD-TYPE
  CLUS_1            2             21
  CLUS_2            0             22
  CLUS_3           10             55
  CLUS_4            1              5

Clustering(25) Variable = BRS3 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  BRS3 MUTATED        2      2      0      0
  BRS3 WILD-TYPE     10     16     11     10
D25V1, multiclass
        clus
vv       BRS3 MUTATED BRS3 WILD-TYPE
  CLUS_1            2             10
  CLUS_2            2             16
  CLUS_3            0             11
  CLUS_4            0             10
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  BRS3 MUTATED        3      0      1
  BRS3 WILD-TYPE     14     18     15
D25V2, multiclass
        clus
vv       BRS3 MUTATED BRS3 WILD-TYPE
  CLUS_1            3             14
  CLUS_2            0             18
  CLUS_3            1             15
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  BRS3 MUTATED       13      1      0      0      1      0
  BRS3 WILD-TYPE    144     11     54      8      9      1
D25V3, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  BRS3 MUTATED        3      1      1
  BRS3 WILD-TYPE     40     40     50
D25V4, multiclass
        clus
vv       BRS3 MUTATED BRS3 WILD-TYPE
  CLUS_1            3             40
  CLUS_2            1             40
  CLUS_3            1             50
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  BRS3 MUTATED        4      4      2      1      1      0
  BRS3 WILD-TYPE     35     32     35      9     39     24
D25V5, multiclass
D25V6, binary
                cls
clus               0   1
  BRS3 MUTATED     6   6
  BRS3 WILD-TYPE 109  65
[1] "tbl2"
                cls
clus             [,1] [,2]
  BRS3 MUTATED      6    6
  BRS3 WILD-TYPE  109   65
        clus
vv       BRS3 MUTATED BRS3 WILD-TYPE
  CLUS_1            6            109
  CLUS_2            6             65
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  BRS3 MUTATED        3      3      7      1
  BRS3 WILD-TYPE     60     33     65     73
D25V7, multiclass
        clus
vv       BRS3 MUTATED BRS3 WILD-TYPE
  CLUS_1            3             60
  CLUS_2            3             33
  CLUS_3            7             65
  CLUS_4            1             73
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  BRS3 MUTATED        7      6      1
  BRS3 WILD-TYPE     78     42    111
D25V8, multiclass
        clus
vv       BRS3 MUTATED BRS3 WILD-TYPE
  CLUS_1            7             78
  CLUS_2            6             42
  CLUS_3            1            111
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  BRS3 MUTATED        1      3      2      1      7
  BRS3 WILD-TYPE     41     75     21     25     64
D25V9, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  BRS3 MUTATED        2      4      8
  BRS3 WILD-TYPE      2    127     97
D25V10, multiclass
        clus
vv       BRS3 MUTATED BRS3 WILD-TYPE
  CLUS_1            2              2
  CLUS_2            4            127
  CLUS_3            8             97
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  BRS3 MUTATED        2      1      1
  BRS3 WILD-TYPE     34     25     53
D25V11, multiclass
        clus
vv       BRS3 MUTATED BRS3 WILD-TYPE
  CLUS_1            2             34
  CLUS_2            1             25
  CLUS_3            1             53
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  BRS3 MUTATED        2      1      1      0
  BRS3 WILD-TYPE     21     21     64      6
D25V12, multiclass
        clus
vv       BRS3 MUTATED BRS3 WILD-TYPE
  CLUS_1            2             21
  CLUS_2            1             21
  CLUS_3            1             64
  CLUS_4            0              6

Clustering(26) Variable = SGK1 MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SGK1 MUTATED        2      1      0      0
  SGK1 WILD-TYPE     10     17     11     10
D26V1, multiclass
        clus
vv       SGK1 MUTATED SGK1 WILD-TYPE
  CLUS_1            2             10
  CLUS_2            1             17
  CLUS_3            0             11
  CLUS_4            0             10
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SGK1 MUTATED        3      0      0
  SGK1 WILD-TYPE     14     18     16
D26V2, multiclass
        clus
vv       SGK1 MUTATED SGK1 WILD-TYPE
  CLUS_1            3             14
  CLUS_2            0             18
  CLUS_3            0             16
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SGK1 MUTATED       10      2      1      1      1      0
  SGK1 WILD-TYPE    147     10     53      7      9      1
D26V3, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SGK1 MUTATED        1      1      3
  SGK1 WILD-TYPE     42     40     48
D26V4, multiclass
        clus
vv       SGK1 MUTATED SGK1 WILD-TYPE
  CLUS_1            1             42
  CLUS_2            1             40
  CLUS_3            3             48
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SGK1 MUTATED        4      5      1      2      1      2
  SGK1 WILD-TYPE     35     31     36      8     39     22
D26V5, multiclass
D26V6, binary
                cls
clus               0   1
  SGK1 MUTATED     6   9
  SGK1 WILD-TYPE 109  62
[1] "tbl2"
                cls
clus             [,1] [,2]
  SGK1 MUTATED      6    9
  SGK1 WILD-TYPE  109   62
        clus
vv       SGK1 MUTATED SGK1 WILD-TYPE
  CLUS_1            6            109
  CLUS_2            9             62
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SGK1 MUTATED        1      6      5      3
  SGK1 WILD-TYPE     62     30     67     71
D26V7, multiclass
        clus
vv       SGK1 MUTATED SGK1 WILD-TYPE
  CLUS_1            1             62
  CLUS_2            6             30
  CLUS_3            5             67
  CLUS_4            3             71
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SGK1 MUTATED        6      3      6
  SGK1 WILD-TYPE     79     45    106
D26V8, multiclass
        clus
vv       SGK1 MUTATED SGK1 WILD-TYPE
  CLUS_1            6             79
  CLUS_2            3             45
  CLUS_3            6            106
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SGK1 MUTATED        1      3      1      2      7
  SGK1 WILD-TYPE     41     75     22     24     64
D26V9, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SGK1 MUTATED        0      8      6
  SGK1 WILD-TYPE      4    123     99
D26V10, multiclass
        clus
vv       SGK1 MUTATED SGK1 WILD-TYPE
  CLUS_1            0              4
  CLUS_2            8            123
  CLUS_3            6             99
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  SGK1 MUTATED        1      0      3
  SGK1 WILD-TYPE     35     26     51
D26V11, multiclass
        clus
vv       SGK1 MUTATED SGK1 WILD-TYPE
  CLUS_1            1             35
  CLUS_2            0             26
  CLUS_3            3             51
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SGK1 MUTATED        1      0      3      0
  SGK1 WILD-TYPE     22     22     62      6
D26V12, multiclass
        clus
vv       SGK1 MUTATED SGK1 WILD-TYPE
  CLUS_1            1             22
  CLUS_2            0             22
  CLUS_3            3             62
  CLUS_4            0              6

Clustering(27) Variable = NRAS MUTATION ANALYSIS
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NRAS MUTATED        0      2      0      0
  NRAS WILD-TYPE     12     16     11     10
D27V1, multiclass
[1] "Remove cluster labels:" "NRAS MUTATED"          
clus
  NRAS MUTATED NRAS WILD-TYPE 
             2             49 
    TCGA-A5-A0G3     TCGA-A5-A0G5     TCGA-A5-A0GA     TCGA-A5-A0GB 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-A5-A0GE     TCGA-A5-A0GM     TCGA-A5-A0GP     TCGA-A5-A0GU 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-AP-A051     TCGA-AP-A052     TCGA-AP-A053     TCGA-AP-A054 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-AP-A056     TCGA-AP-A05A     TCGA-AP-A05D     TCGA-AP-A05H 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-AP-A05J     TCGA-AP-A05N     TCGA-AP-A05P     TCGA-AP-A0L8 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-AP-A0LD     TCGA-AP-A0LG     TCGA-AP-A0LH     TCGA-AP-A0LJ 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-AP-A0LN     TCGA-AP-A0LT     TCGA-AP-A0LV     TCGA-AX-A05S 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-AX-A05T     TCGA-AX-A05U     TCGA-AX-A05W     TCGA-AX-A05Y 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-AX-A05Z     TCGA-AX-A060     TCGA-AX-A062     TCGA-AX-A063 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-AX-A064     TCGA-AX-A06B     TCGA-AX-A0IW     TCGA-AX-A0J1 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-B5-A0JR     TCGA-B5-A0JZ     TCGA-B5-A0K0     TCGA-B5-A0K1 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-B5-A0K4     TCGA-BG-A0LW     TCGA-BG-A0MI     TCGA-BK-A0C9 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-BK-A0CC 
"NRAS WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NRAS MUTATED        0      0      2
  NRAS WILD-TYPE     17     18     14
D27V2, multiclass
[1] "Remove cluster labels:" "NRAS MUTATED"          
clus
  NRAS MUTATED NRAS WILD-TYPE 
             2             49 
    TCGA-A5-A0G3     TCGA-A5-A0G5     TCGA-A5-A0GA     TCGA-A5-A0GB 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-A5-A0GE     TCGA-A5-A0GM     TCGA-A5-A0GP     TCGA-A5-A0GU 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-AP-A051     TCGA-AP-A052     TCGA-AP-A053     TCGA-AP-A054 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-AP-A056     TCGA-AP-A05A     TCGA-AP-A05D     TCGA-AP-A05H 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-AP-A05J     TCGA-AP-A05N     TCGA-AP-A05P     TCGA-AP-A0L8 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-AP-A0LD     TCGA-AP-A0LG     TCGA-AP-A0LH     TCGA-AP-A0LJ 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-AP-A0LN     TCGA-AP-A0LT     TCGA-AP-A0LV     TCGA-AX-A05S 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-AX-A05T     TCGA-AX-A05U     TCGA-AX-A05W     TCGA-AX-A05Y 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-AX-A05Z     TCGA-AX-A060     TCGA-AX-A062     TCGA-AX-A063 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-AX-A064     TCGA-AX-A06B     TCGA-AX-A0IW     TCGA-AX-A0J1 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-B5-A0JR     TCGA-B5-A0JZ     TCGA-B5-A0K0     TCGA-B5-A0K1 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-B5-A0K4     TCGA-BG-A0LW     TCGA-BG-A0MI     TCGA-BK-A0C9 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-BK-A0CC 
"NRAS WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  NRAS MUTATED        7      0      1      0      1      0
  NRAS WILD-TYPE    150     12     53      8      9      1
D27V3, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NRAS MUTATED        0      1      1
  NRAS WILD-TYPE     43     40     50
D27V4, multiclass
[1] "Remove cluster labels:" "NRAS MUTATED"          
clus
  NRAS MUTATED NRAS WILD-TYPE 
             2            133 
    TCGA-A5-A0GQ     TCGA-A5-A0VO     TCGA-AJ-A23M     TCGA-AP-A059 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-AP-A0LF     TCGA-AP-A0LM     TCGA-AP-A1DQ     TCGA-AX-A06H 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-AX-A06L     TCGA-AX-A0IS     TCGA-AX-A1C7     TCGA-AX-A1C8 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-AX-A1CP     TCGA-AX-A2H5     TCGA-AX-A2HF     TCGA-B5-A0JT 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-B5-A0K8     TCGA-B5-A11E     TCGA-B5-A11F     TCGA-B5-A11G 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-B5-A11H     TCGA-B5-A11I     TCGA-B5-A11J     TCGA-B5-A11M 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-B5-A11N     TCGA-B5-A11O     TCGA-B5-A11Q     TCGA-B5-A11R 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-B5-A11S     TCGA-B5-A11U     TCGA-B5-A11V     TCGA-B5-A11W 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-B5-A11X     TCGA-B5-A11Y     TCGA-B5-A11Z     TCGA-B5-A121 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-B5-A1MU     TCGA-B5-A1MY     TCGA-BG-A0VT     TCGA-BG-A0VV 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-BG-A0VW     TCGA-BG-A0VX     TCGA-BG-A0VZ     TCGA-BG-A0W1 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-BG-A0W2     TCGA-BG-A0YU     TCGA-BG-A0YV     TCGA-BG-A186 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-BG-A187     TCGA-BG-A18A     TCGA-BG-A18B     TCGA-BG-A18C 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-BG-A2AE     TCGA-BK-A0CA     TCGA-BK-A0CC     TCGA-BK-A139 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-BK-A13C     TCGA-BS-A0T9     TCGA-BS-A0U5     TCGA-BS-A0U9 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-BS-A0UA     TCGA-BS-A0UL     TCGA-BS-A0V6     TCGA-BS-A0V7 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-BS-A0V8     TCGA-BS-A0WQ     TCGA-D1-A0ZN     TCGA-D1-A0ZO 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-D1-A0ZP     TCGA-D1-A0ZQ     TCGA-D1-A0ZR     TCGA-D1-A0ZS 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-D1-A0ZU     TCGA-D1-A0ZV     TCGA-D1-A0ZZ     TCGA-D1-A101 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-D1-A102     TCGA-D1-A103     TCGA-D1-A15V     TCGA-D1-A15W 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-D1-A15X     TCGA-D1-A15Z     TCGA-D1-A160     TCGA-D1-A161 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-D1-A163     TCGA-D1-A165     TCGA-D1-A167     TCGA-D1-A168 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-D1-A169     TCGA-D1-A16B     TCGA-D1-A16D     TCGA-D1-A16E 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-D1-A16F     TCGA-D1-A16G     TCGA-D1-A16I     TCGA-D1-A16J 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-D1-A16N     TCGA-D1-A16O     TCGA-D1-A16Q     TCGA-D1-A16R 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-D1-A16S     TCGA-D1-A16X     TCGA-D1-A16Y     TCGA-D1-A174 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-D1-A176     TCGA-D1-A177     TCGA-D1-A17A     TCGA-D1-A17B 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-D1-A17C     TCGA-D1-A17D     TCGA-D1-A17H     TCGA-D1-A17K 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-D1-A17L     TCGA-D1-A17M     TCGA-D1-A17N     TCGA-D1-A17Q 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-D1-A17R     TCGA-D1-A17S     TCGA-D1-A17T     TCGA-D1-A17U 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-D1-A1NU     TCGA-D1-A1NX     TCGA-DI-A0WH     TCGA-DI-A1NN 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-E6-A1LZ     TCGA-EO-A1Y5     TCGA-EO-A1Y8     TCGA-EY-A1GS 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-EY-A212     TCGA-FI-A2D2     TCGA-FI-A2EW     TCGA-FI-A2EX 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-FI-A2F8 
"NRAS WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  NRAS MUTATED        0      2      0      0      2      2
  NRAS WILD-TYPE     39     34     37     10     38     22
D27V5, multiclass
D27V6, binary
                cls
clus               0   1
  NRAS MUTATED     4   2
  NRAS WILD-TYPE 111  69
[1] "tbl2"
                cls
clus             [,1] [,2]
  NRAS MUTATED      4    2
  NRAS WILD-TYPE  111   69
        clus
vv       NRAS MUTATED NRAS WILD-TYPE
  CLUS_1            4            111
  CLUS_2            2             69
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NRAS MUTATED        3      0      4      2
  NRAS WILD-TYPE     60     36     68     72
D27V7, multiclass
        clus
vv       NRAS MUTATED NRAS WILD-TYPE
  CLUS_1            3             60
  CLUS_2            0             36
  CLUS_3            4             68
  CLUS_4            2             72
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NRAS MUTATED        3      1      5
  NRAS WILD-TYPE     82     47    107
D27V8, multiclass
        clus
vv       NRAS MUTATED NRAS WILD-TYPE
  CLUS_1            3             82
  CLUS_2            1             47
  CLUS_3            5            107
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  NRAS MUTATED        2      3      0      0      4
  NRAS WILD-TYPE     40     75     23     26     67
D27V9, multiclass
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NRAS MUTATED        1      4      4
  NRAS WILD-TYPE      3    127    101
D27V10, multiclass
        clus
vv       NRAS MUTATED NRAS WILD-TYPE
  CLUS_1            1              3
  CLUS_2            4            127
  CLUS_3            4            101
                vv
clus             CLUS_1 CLUS_2 CLUS_3
  NRAS MUTATED        0      0      1
  NRAS WILD-TYPE     36     26     53
D27V11, multiclass
[1] "Remove cluster labels:" "NRAS MUTATED"          
clus
  NRAS MUTATED NRAS WILD-TYPE 
             1            115 
    TCGA-A5-A0GB     TCGA-A5-A0GN     TCGA-A5-A0GQ     TCGA-AJ-A23M 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-AP-A059     TCGA-AP-A0LF     TCGA-AP-A0LM     TCGA-AP-A0LO 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-AP-A1DQ     TCGA-AX-A064     TCGA-AX-A06H     TCGA-AX-A06L 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-AX-A1C7     TCGA-AX-A1C8     TCGA-AX-A1CP     TCGA-AX-A2H5 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-AX-A2HF     TCGA-B5-A0JR     TCGA-B5-A0JT     TCGA-B5-A0K8 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-B5-A11G     TCGA-B5-A11H     TCGA-B5-A11J     TCGA-B5-A11M 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-B5-A11N     TCGA-B5-A11O     TCGA-B5-A11Q     TCGA-B5-A11R 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-B5-A11S     TCGA-B5-A11U     TCGA-B5-A11W     TCGA-B5-A11Z 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-B5-A121     TCGA-B5-A1MU     TCGA-B5-A1MY     TCGA-BG-A0VV 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-BG-A0VW     TCGA-BG-A0VX     TCGA-BG-A0YV     TCGA-BG-A186 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-BG-A187     TCGA-BG-A18A     TCGA-BG-A18B     TCGA-BG-A18C 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-BG-A2AE     TCGA-BK-A0CA     TCGA-BK-A0CC     TCGA-BK-A139 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-BK-A13C     TCGA-BS-A0T9     TCGA-BS-A0UA     TCGA-BS-A0V6 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-BS-A0V7     TCGA-BS-A0V8     TCGA-D1-A0ZN     TCGA-D1-A0ZO 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-D1-A0ZQ     TCGA-D1-A0ZS     TCGA-D1-A102     TCGA-D1-A103 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-D1-A15V     TCGA-D1-A15W     TCGA-D1-A15X     TCGA-D1-A15Z 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-D1-A160     TCGA-D1-A161     TCGA-D1-A163     TCGA-D1-A165 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-D1-A167     TCGA-D1-A168     TCGA-D1-A169     TCGA-D1-A16B 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-D1-A16D     TCGA-D1-A16E     TCGA-D1-A16F     TCGA-D1-A16G 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-D1-A16I     TCGA-D1-A16J     TCGA-D1-A16N     TCGA-D1-A16O 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-D1-A16Q     TCGA-D1-A16R     TCGA-D1-A16S     TCGA-D1-A16X 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-D1-A16Y     TCGA-D1-A174     TCGA-D1-A176     TCGA-D1-A177 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-D1-A17A     TCGA-D1-A17B     TCGA-D1-A17C     TCGA-D1-A17D 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-D1-A17H     TCGA-D1-A17K     TCGA-D1-A17L     TCGA-D1-A17M 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-D1-A17N     TCGA-D1-A17Q     TCGA-D1-A17R     TCGA-D1-A17S 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-D1-A17T     TCGA-D1-A17U     TCGA-D1-A1NU     TCGA-D1-A1NX 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-DI-A0WH     TCGA-DI-A1NN     TCGA-E6-A1LZ     TCGA-EO-A1Y5 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-EO-A1Y8     TCGA-EY-A1GS     TCGA-EY-A212     TCGA-FI-A2D2 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-FI-A2EW     TCGA-FI-A2EX     TCGA-FI-A2F8 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
                vv
clus             CLUS_1 CLUS_2 CLUS_3 CLUS_4
  NRAS MUTATED        0      0      1      0
  NRAS WILD-TYPE     23     22     64      6
D27V12, multiclass
[1] "Remove cluster labels:" "NRAS MUTATED"          
clus
  NRAS MUTATED NRAS WILD-TYPE 
             1            115 
    TCGA-A5-A0GB     TCGA-A5-A0GN     TCGA-A5-A0GQ     TCGA-AJ-A23M 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-AP-A059     TCGA-AP-A0LF     TCGA-AP-A0LM     TCGA-AP-A0LO 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-AP-A1DQ     TCGA-AX-A064     TCGA-AX-A06H     TCGA-AX-A06L 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-AX-A1C7     TCGA-AX-A1C8     TCGA-AX-A1CP     TCGA-AX-A2H5 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-AX-A2HF     TCGA-B5-A0JR     TCGA-B5-A0JT     TCGA-B5-A0K8 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-B5-A11G     TCGA-B5-A11H     TCGA-B5-A11J     TCGA-B5-A11M 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-B5-A11N     TCGA-B5-A11O     TCGA-B5-A11Q     TCGA-B5-A11R 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-B5-A11S     TCGA-B5-A11U     TCGA-B5-A11W     TCGA-B5-A11Z 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-B5-A121     TCGA-B5-A1MU     TCGA-B5-A1MY     TCGA-BG-A0VV 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-BG-A0VW     TCGA-BG-A0VX     TCGA-BG-A0YV     TCGA-BG-A186 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-BG-A187     TCGA-BG-A18A     TCGA-BG-A18B     TCGA-BG-A18C 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-BG-A2AE     TCGA-BK-A0CA     TCGA-BK-A0CC     TCGA-BK-A139 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-BK-A13C     TCGA-BS-A0T9     TCGA-BS-A0UA     TCGA-BS-A0V6 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-BS-A0V7     TCGA-BS-A0V8     TCGA-D1-A0ZN     TCGA-D1-A0ZO 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-D1-A0ZQ     TCGA-D1-A0ZS     TCGA-D1-A102     TCGA-D1-A103 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-D1-A15V     TCGA-D1-A15W     TCGA-D1-A15X     TCGA-D1-A15Z 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-D1-A160     TCGA-D1-A161     TCGA-D1-A163     TCGA-D1-A165 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-D1-A167     TCGA-D1-A168     TCGA-D1-A169     TCGA-D1-A16B 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-D1-A16D     TCGA-D1-A16E     TCGA-D1-A16F     TCGA-D1-A16G 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-D1-A16I     TCGA-D1-A16J     TCGA-D1-A16N     TCGA-D1-A16O 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-D1-A16Q     TCGA-D1-A16R     TCGA-D1-A16S     TCGA-D1-A16X 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-D1-A16Y     TCGA-D1-A174     TCGA-D1-A176     TCGA-D1-A177 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-D1-A17A     TCGA-D1-A17B     TCGA-D1-A17C     TCGA-D1-A17D 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-D1-A17H     TCGA-D1-A17K     TCGA-D1-A17L     TCGA-D1-A17M 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-D1-A17N     TCGA-D1-A17Q     TCGA-D1-A17R     TCGA-D1-A17S 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-D1-A17T     TCGA-D1-A17U     TCGA-D1-A1NU     TCGA-D1-A1NX 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-DI-A0WH     TCGA-DI-A1NN     TCGA-E6-A1LZ     TCGA-EO-A1Y5 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-EO-A1Y8     TCGA-EY-A1GS     TCGA-EY-A212     TCGA-FI-A2D2 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 
    TCGA-FI-A2EW     TCGA-FI-A2EX     TCGA-FI-A2F8 
"NRAS WILD-TYPE" "NRAS WILD-TYPE" "NRAS WILD-TYPE" 

Clustering(28) Variable = TIAL1 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TIAL1 MUTATED        2      1      0      0
  TIAL1 WILD-TYPE     10     17     11     10
D28V1, multiclass
        clus
vv       TIAL1 MUTATED TIAL1 WILD-TYPE
  CLUS_1             2              10
  CLUS_2             1              17
  CLUS_3             0              11
  CLUS_4             0              10
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TIAL1 MUTATED        2      0      1
  TIAL1 WILD-TYPE     15     18     15
D28V2, multiclass
        clus
vv       TIAL1 MUTATED TIAL1 WILD-TYPE
  CLUS_1             2              15
  CLUS_2             0              18
  CLUS_3             1              15
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TIAL1 MUTATED       10      0      0      0      1      0
  TIAL1 WILD-TYPE    147     12     54      8      9      1
D28V3, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TIAL1 MUTATED        1      0      5
  TIAL1 WILD-TYPE     42     41     46
D28V4, multiclass
        clus
vv       TIAL1 MUTATED TIAL1 WILD-TYPE
  CLUS_1             1              42
  CLUS_2             0              41
  CLUS_3             5              46
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  TIAL1 MUTATED        1      2      4      1      1      1
  TIAL1 WILD-TYPE     38     34     33      9     39     23
D28V5, multiclass
D28V6, binary
                 cls
clus                0   1
  TIAL1 MUTATED     7   3
  TIAL1 WILD-TYPE 108  68
[1] "tbl2"
                 cls
clus              [,1] [,2]
  TIAL1 MUTATED      7    3
  TIAL1 WILD-TYPE  108   68
        clus
vv       TIAL1 MUTATED TIAL1 WILD-TYPE
  CLUS_1             7             108
  CLUS_2             3              68
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TIAL1 MUTATED        0      4      6      1
  TIAL1 WILD-TYPE     63     32     66     73
D28V7, multiclass
        clus
vv       TIAL1 MUTATED TIAL1 WILD-TYPE
  CLUS_1             0              63
  CLUS_2             4              32
  CLUS_3             6              66
  CLUS_4             1              73
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TIAL1 MUTATED        5      5      1
  TIAL1 WILD-TYPE     80     43    111
D28V8, multiclass
        clus
vv       TIAL1 MUTATED TIAL1 WILD-TYPE
  CLUS_1             5              80
  CLUS_2             5              43
  CLUS_3             1             111
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  TIAL1 MUTATED        1      3      1      1      5
  TIAL1 WILD-TYPE     41     75     22     25     66
D28V9, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TIAL1 MUTATED        0      6      5
  TIAL1 WILD-TYPE      4    125    100
D28V10, multiclass
        clus
vv       TIAL1 MUTATED TIAL1 WILD-TYPE
  CLUS_1             0               4
  CLUS_2             6             125
  CLUS_3             5             100
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  TIAL1 MUTATED        2      0      4
  TIAL1 WILD-TYPE     34     26     50
D28V11, multiclass
        clus
vv       TIAL1 MUTATED TIAL1 WILD-TYPE
  CLUS_1             2              34
  CLUS_2             0              26
  CLUS_3             4              50
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  TIAL1 MUTATED        1      0      5      0
  TIAL1 WILD-TYPE     22     22     60      6
D28V12, multiclass
        clus
vv       TIAL1 MUTATED TIAL1 WILD-TYPE
  CLUS_1             1              22
  CLUS_2             0              22
  CLUS_3             5              60
  CLUS_4             0               6

Clustering(29) Variable = SIN3A MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SIN3A MUTATED        1      1      0      0
  SIN3A WILD-TYPE     11     17     11     10
D29V1, multiclass
[1] "Remove cluster labels:" "SIN3A MUTATED"         
clus
  SIN3A MUTATED SIN3A WILD-TYPE 
              2              49 
     TCGA-A5-A0G3      TCGA-A5-A0G5      TCGA-A5-A0GA      TCGA-A5-A0GB 
"SIN3A WILD-TYPE" "SIN3A WILD-TYPE" "SIN3A WILD-TYPE" "SIN3A WILD-TYPE" 
     TCGA-A5-A0GE      TCGA-A5-A0GH      TCGA-A5-A0GM      TCGA-A5-A0GP 
"SIN3A WILD-TYPE" "SIN3A WILD-TYPE" "SIN3A WILD-TYPE" "SIN3A WILD-TYPE" 
     TCGA-A5-A0GU      TCGA-AP-A051      TCGA-AP-A052      TCGA-AP-A053 
"SIN3A WILD-TYPE" "SIN3A WILD-TYPE" "SIN3A WILD-TYPE" "SIN3A WILD-TYPE" 
     TCGA-AP-A054      TCGA-AP-A056      TCGA-AP-A05A      TCGA-AP-A05D 
"SIN3A WILD-TYPE" "SIN3A WILD-TYPE" "SIN3A WILD-TYPE" "SIN3A WILD-TYPE" 
     TCGA-AP-A05H      TCGA-AP-A05J      TCGA-AP-A05N      TCGA-AP-A05P 
"SIN3A WILD-TYPE" "SIN3A WILD-TYPE" "SIN3A WILD-TYPE" "SIN3A WILD-TYPE" 
     TCGA-AP-A0L8      TCGA-AP-A0L9      TCGA-AP-A0LD      TCGA-AP-A0LG 
"SIN3A WILD-TYPE" "SIN3A WILD-TYPE" "SIN3A WILD-TYPE" "SIN3A WILD-TYPE" 
     TCGA-AP-A0LH      TCGA-AP-A0LJ      TCGA-AP-A0LN      TCGA-AP-A0LT 
"SIN3A WILD-TYPE" "SIN3A WILD-TYPE" "SIN3A WILD-TYPE" "SIN3A WILD-TYPE" 
     TCGA-AP-A0LV      TCGA-AX-A05S      TCGA-AX-A05T      TCGA-AX-A05U 
"SIN3A WILD-TYPE" "SIN3A WILD-TYPE" "SIN3A WILD-TYPE" "SIN3A WILD-TYPE" 
     TCGA-AX-A05W      TCGA-AX-A05Y      TCGA-AX-A05Z      TCGA-AX-A062 
"SIN3A WILD-TYPE" "SIN3A WILD-TYPE" "SIN3A WILD-TYPE" "SIN3A WILD-TYPE" 
     TCGA-AX-A063      TCGA-AX-A064      TCGA-AX-A06B      TCGA-AX-A0IW 
"SIN3A WILD-TYPE" "SIN3A WILD-TYPE" "SIN3A WILD-TYPE" "SIN3A WILD-TYPE" 
     TCGA-B5-A0JR      TCGA-B5-A0JZ      TCGA-B5-A0K0      TCGA-B5-A0K1 
"SIN3A WILD-TYPE" "SIN3A WILD-TYPE" "SIN3A WILD-TYPE" "SIN3A WILD-TYPE" 
     TCGA-B5-A0K4      TCGA-BG-A0LW      TCGA-BG-A0MI      TCGA-BK-A0C9 
"SIN3A WILD-TYPE" "SIN3A WILD-TYPE" "SIN3A WILD-TYPE" "SIN3A WILD-TYPE" 
     TCGA-BK-A0CC 
"SIN3A WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SIN3A MUTATED        1      0      1
  SIN3A WILD-TYPE     16     18     15
D29V2, multiclass
[1] "Remove cluster labels:" "SIN3A MUTATED"         
clus
  SIN3A MUTATED SIN3A WILD-TYPE 
              2              49 
     TCGA-A5-A0G3      TCGA-A5-A0G5      TCGA-A5-A0GA      TCGA-A5-A0GB 
"SIN3A WILD-TYPE" "SIN3A WILD-TYPE" "SIN3A WILD-TYPE" "SIN3A WILD-TYPE" 
     TCGA-A5-A0GE      TCGA-A5-A0GH      TCGA-A5-A0GM      TCGA-A5-A0GP 
"SIN3A WILD-TYPE" "SIN3A WILD-TYPE" "SIN3A WILD-TYPE" "SIN3A WILD-TYPE" 
     TCGA-A5-A0GU      TCGA-AP-A051      TCGA-AP-A052      TCGA-AP-A053 
"SIN3A WILD-TYPE" "SIN3A WILD-TYPE" "SIN3A WILD-TYPE" "SIN3A WILD-TYPE" 
     TCGA-AP-A054      TCGA-AP-A056      TCGA-AP-A05A      TCGA-AP-A05D 
"SIN3A WILD-TYPE" "SIN3A WILD-TYPE" "SIN3A WILD-TYPE" "SIN3A WILD-TYPE" 
     TCGA-AP-A05H      TCGA-AP-A05J      TCGA-AP-A05N      TCGA-AP-A05P 
"SIN3A WILD-TYPE" "SIN3A WILD-TYPE" "SIN3A WILD-TYPE" "SIN3A WILD-TYPE" 
     TCGA-AP-A0L8      TCGA-AP-A0L9      TCGA-AP-A0LD      TCGA-AP-A0LG 
"SIN3A WILD-TYPE" "SIN3A WILD-TYPE" "SIN3A WILD-TYPE" "SIN3A WILD-TYPE" 
     TCGA-AP-A0LH      TCGA-AP-A0LJ      TCGA-AP-A0LN      TCGA-AP-A0LT 
"SIN3A WILD-TYPE" "SIN3A WILD-TYPE" "SIN3A WILD-TYPE" "SIN3A WILD-TYPE" 
     TCGA-AP-A0LV      TCGA-AX-A05S      TCGA-AX-A05T      TCGA-AX-A05U 
"SIN3A WILD-TYPE" "SIN3A WILD-TYPE" "SIN3A WILD-TYPE" "SIN3A WILD-TYPE" 
     TCGA-AX-A05W      TCGA-AX-A05Y      TCGA-AX-A05Z      TCGA-AX-A062 
"SIN3A WILD-TYPE" "SIN3A WILD-TYPE" "SIN3A WILD-TYPE" "SIN3A WILD-TYPE" 
     TCGA-AX-A063      TCGA-AX-A064      TCGA-AX-A06B      TCGA-AX-A0IW 
"SIN3A WILD-TYPE" "SIN3A WILD-TYPE" "SIN3A WILD-TYPE" "SIN3A WILD-TYPE" 
     TCGA-B5-A0JR      TCGA-B5-A0JZ      TCGA-B5-A0K0      TCGA-B5-A0K1 
"SIN3A WILD-TYPE" "SIN3A WILD-TYPE" "SIN3A WILD-TYPE" "SIN3A WILD-TYPE" 
     TCGA-B5-A0K4      TCGA-BG-A0LW      TCGA-BG-A0MI      TCGA-BK-A0C9 
"SIN3A WILD-TYPE" "SIN3A WILD-TYPE" "SIN3A WILD-TYPE" "SIN3A WILD-TYPE" 
     TCGA-BK-A0CC 
"SIN3A WILD-TYPE" 
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SIN3A MUTATED       16      1      0      0      3      0
  SIN3A WILD-TYPE    141     11     54      8      7      1
D29V3, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SIN3A MUTATED        4      3      7
  SIN3A WILD-TYPE     39     38     44
D29V4, multiclass
        clus
vv       SIN3A MUTATED SIN3A WILD-TYPE
  CLUS_1             4              39
  CLUS_2             3              38
  CLUS_3             7              44
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SIN3A MUTATED        3      9      3      2      0      1
  SIN3A WILD-TYPE     36     27     34      8     40     23
D29V5, multiclass
D29V6, binary
                 cls
clus                0   1
  SIN3A MUTATED     8  10
  SIN3A WILD-TYPE 107  61
[1] "tbl2"
                 cls
clus              [,1] [,2]
  SIN3A MUTATED      8   10
  SIN3A WILD-TYPE  107   61
        clus
vv       SIN3A MUTATED SIN3A WILD-TYPE
  CLUS_1             8             107
  CLUS_2            10              61
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SIN3A MUTATED        3      5     12      1
  SIN3A WILD-TYPE     60     31     60     73
D29V7, multiclass
        clus
vv       SIN3A MUTATED SIN3A WILD-TYPE
  CLUS_1             3              60
  CLUS_2             5              31
  CLUS_3            12              60
  CLUS_4             1              73
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SIN3A MUTATED       10      7      4
  SIN3A WILD-TYPE     75     41    108
D29V8, multiclass
        clus
vv       SIN3A MUTATED SIN3A WILD-TYPE
  CLUS_1            10              75
  CLUS_2             7              41
  CLUS_3             4             108
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SIN3A MUTATED        4      2      2      4      9
  SIN3A WILD-TYPE     38     76     21     22     62
D29V9, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SIN3A MUTATED        1      5     15
  SIN3A WILD-TYPE      3    126     90
D29V10, multiclass
        clus
vv       SIN3A MUTATED SIN3A WILD-TYPE
  CLUS_1             1               3
  CLUS_2             5             126
  CLUS_3            15              90
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  SIN3A MUTATED        4      3      3
  SIN3A WILD-TYPE     32     23     51
D29V11, multiclass
        clus
vv       SIN3A MUTATED SIN3A WILD-TYPE
  CLUS_1             4              32
  CLUS_2             3              23
  CLUS_3             3              51
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SIN3A MUTATED        3      2      4      1
  SIN3A WILD-TYPE     20     20     61      5
D29V12, multiclass
        clus
vv       SIN3A MUTATED SIN3A WILD-TYPE
  CLUS_1             3              20
  CLUS_2             2              20
  CLUS_3             4              61
  CLUS_4             1               5

Clustering(30) Variable = SLC48A1 MUTATION ANALYSIS
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SLC48A1 MUTATED        0      0      0      0
  SLC48A1 WILD-TYPE     12     18     11     10
D30V1, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC48A1 MUTATED        0      0      0
  SLC48A1 WILD-TYPE     17     18     16
D30V2, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SLC48A1 MUTATED        5      0      0      0      0      0
  SLC48A1 WILD-TYPE    152     12     54      8     10      1
D30V3, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC48A1 MUTATED        0      1      2
  SLC48A1 WILD-TYPE     43     40     49
D30V4, multiclass
        clus
vv       SLC48A1 MUTATED SLC48A1 WILD-TYPE
  CLUS_1               0                43
  CLUS_2               1                40
  CLUS_3               2                49
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  SLC48A1 MUTATED        1      1      0      0      2      1
  SLC48A1 WILD-TYPE     38     35     37     10     38     23
D30V5, multiclass
D30V6, binary
                   cls
clus                  0   1
  SLC48A1 MUTATED     2   3
  SLC48A1 WILD-TYPE 113  68
[1] "tbl2"
                   cls
clus                [,1] [,2]
  SLC48A1 MUTATED      2    3
  SLC48A1 WILD-TYPE  113   68
        clus
vv       SLC48A1 MUTATED SLC48A1 WILD-TYPE
  CLUS_1               2               113
  CLUS_2               3                68
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SLC48A1 MUTATED        1      1      2      1
  SLC48A1 WILD-TYPE     62     35     70     73
D30V7, multiclass
        clus
vv       SLC48A1 MUTATED SLC48A1 WILD-TYPE
  CLUS_1               1                62
  CLUS_2               1                35
  CLUS_3               2                70
  CLUS_4               1                73
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC48A1 MUTATED        1      1      3
  SLC48A1 WILD-TYPE     84     47    109
D30V8, multiclass
        clus
vv       SLC48A1 MUTATED SLC48A1 WILD-TYPE
  CLUS_1               1                84
  CLUS_2               1                47
  CLUS_3               3               109
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  SLC48A1 MUTATED        0      2      0      1      2
  SLC48A1 WILD-TYPE     42     76     23     25     69
D30V9, multiclass
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC48A1 MUTATED        0      2      3
  SLC48A1 WILD-TYPE      4    129    102
D30V10, multiclass
        clus
vv       SLC48A1 MUTATED SLC48A1 WILD-TYPE
  CLUS_1               0                 4
  CLUS_2               2               129
  CLUS_3               3               102
                   vv
clus                CLUS_1 CLUS_2 CLUS_3
  SLC48A1 MUTATED        1      1      1
  SLC48A1 WILD-TYPE     35     25     53
D30V11, multiclass
        clus
vv       SLC48A1 MUTATED SLC48A1 WILD-TYPE
  CLUS_1               1                35
  CLUS_2               1                25
  CLUS_3               1                53
                   vv
clus                CLUS_1 CLUS_2 CLUS_3 CLUS_4
  SLC48A1 MUTATED        1      1      1      0
  SLC48A1 WILD-TYPE     22     21     64      6
D30V12, multiclass
        clus
vv       SLC48A1 MUTATED SLC48A1 WILD-TYPE
  CLUS_1               1                22
  CLUS_2               1                21
  CLUS_3               1                64
  CLUS_4               0                 6

Clustering(31) Variable = RNF43 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RNF43 MUTATED        3      1      0      0
  RNF43 WILD-TYPE      9     17     11     10
D31V1, multiclass
        clus
vv       RNF43 MUTATED RNF43 WILD-TYPE
  CLUS_1             3               9
  CLUS_2             1              17
  CLUS_3             0              11
  CLUS_4             0              10
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RNF43 MUTATED        3      0      1
  RNF43 WILD-TYPE     14     18     15
D31V2, multiclass
        clus
vv       RNF43 MUTATED RNF43 WILD-TYPE
  CLUS_1             3              14
  CLUS_2             0              18
  CLUS_3             1              15
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  RNF43 MUTATED       10      1      0      0      1      0
  RNF43 WILD-TYPE    147     11     54      8      9      1
D31V3, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RNF43 MUTATED        2      0      3
  RNF43 WILD-TYPE     41     41     48
D31V4, multiclass
        clus
vv       RNF43 MUTATED RNF43 WILD-TYPE
  CLUS_1             2              41
  CLUS_2             0              41
  CLUS_3             3              48
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  RNF43 MUTATED        3      2      5      1      1      0
  RNF43 WILD-TYPE     36     34     32      9     39     24
D31V5, multiclass
D31V6, binary
                 cls
clus                0   1
  RNF43 MUTATED     8   4
  RNF43 WILD-TYPE 107  67
[1] "tbl2"
                 cls
clus              [,1] [,2]
  RNF43 MUTATED      8    4
  RNF43 WILD-TYPE  107   67
        clus
vv       RNF43 MUTATED RNF43 WILD-TYPE
  CLUS_1             8             107
  CLUS_2             4              67
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RNF43 MUTATED        1      4      6      1
  RNF43 WILD-TYPE     62     32     66     73
D31V7, multiclass
        clus
vv       RNF43 MUTATED RNF43 WILD-TYPE
  CLUS_1             1              62
  CLUS_2             4              32
  CLUS_3             6              66
  CLUS_4             1              73
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RNF43 MUTATED        2      9      1
  RNF43 WILD-TYPE     83     39    111
D31V8, multiclass
        clus
vv       RNF43 MUTATED RNF43 WILD-TYPE
  CLUS_1             2              83
  CLUS_2             9              39
  CLUS_3             1             111
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RNF43 MUTATED        1      1      2      1      7
  RNF43 WILD-TYPE     41     77     21     25     64
D31V9, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RNF43 MUTATED        0      5      7
  RNF43 WILD-TYPE      4    126     98
D31V10, multiclass
        clus
vv       RNF43 MUTATED RNF43 WILD-TYPE
  CLUS_1             0               4
  CLUS_2             5             126
  CLUS_3             7              98
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  RNF43 MUTATED        1      2      1
  RNF43 WILD-TYPE     35     24     53
D31V11, multiclass
        clus
vv       RNF43 MUTATED RNF43 WILD-TYPE
  CLUS_1             1              35
  CLUS_2             2              24
  CLUS_3             1              53
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RNF43 MUTATED        2      0      2      0
  RNF43 WILD-TYPE     21     22     63      6
D31V12, multiclass
        clus
vv       RNF43 MUTATED RNF43 WILD-TYPE
  CLUS_1             2              21
  CLUS_2             0              22
  CLUS_3             2              63
  CLUS_4             0               6

Clustering(32) Variable = ZFHX3 MUTATION ANALYSIS
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZFHX3 MUTATED        6      6      2      2
  ZFHX3 WILD-TYPE      6     12      9      8
D32V1, multiclass
        clus
vv       ZFHX3 MUTATED ZFHX3 WILD-TYPE
  CLUS_1             6               6
  CLUS_2             6              12
  CLUS_3             2               9
  CLUS_4             2               8
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ZFHX3 MUTATED        9      2      5
  ZFHX3 WILD-TYPE      8     16     11
D32V2, multiclass
        clus
vv       ZFHX3 MUTATED ZFHX3 WILD-TYPE
  CLUS_1             9               8
  CLUS_2             2              16
  CLUS_3             5              11
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ZFHX3 MUTATED       34      1      3      1      3      0
  ZFHX3 WILD-TYPE    123     11     51      7      7      1
D32V3, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ZFHX3 MUTATED        5      2     11
  ZFHX3 WILD-TYPE     38     39     40
D32V4, multiclass
        clus
vv       ZFHX3 MUTATED ZFHX3 WILD-TYPE
  CLUS_1             5              38
  CLUS_2             2              39
  CLUS_3            11              40
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  ZFHX3 MUTATED        7     11      5      3      5      4
  ZFHX3 WILD-TYPE     32     25     32      7     35     20
D32V5, multiclass
D32V6, binary
                 cls
clus               0  1
  ZFHX3 MUTATED   18 17
  ZFHX3 WILD-TYPE 97 54
[1] "tbl2"
                 cls
clus              [,1] [,2]
  ZFHX3 MUTATED     18   17
  ZFHX3 WILD-TYPE   97   54
        clus
vv       ZFHX3 MUTATED ZFHX3 WILD-TYPE
  CLUS_1            18              97
  CLUS_2            17              54
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZFHX3 MUTATED        9      9     12     13
  ZFHX3 WILD-TYPE     54     27     60     61
D32V7, multiclass
        clus
vv       ZFHX3 MUTATED ZFHX3 WILD-TYPE
  CLUS_1             9              54
  CLUS_2             9              27
  CLUS_3            12              60
  CLUS_4            13              61
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ZFHX3 MUTATED       15     13     15
  ZFHX3 WILD-TYPE     70     35     97
D32V8, multiclass
        clus
vv       ZFHX3 MUTATED ZFHX3 WILD-TYPE
  CLUS_1            15              70
  CLUS_2            13              35
  CLUS_3            15              97
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  ZFHX3 MUTATED        3     14      4      3     17
  ZFHX3 WILD-TYPE     39     64     19     23     54
D32V9, multiclass
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ZFHX3 MUTATED        1     21     19
  ZFHX3 WILD-TYPE      3    110     86
D32V10, multiclass
        clus
vv       ZFHX3 MUTATED ZFHX3 WILD-TYPE
  CLUS_1             1               3
  CLUS_2            21             110
  CLUS_3            19              86
                 vv
clus              CLUS_1 CLUS_2 CLUS_3
  ZFHX3 MUTATED        4      4      8
  ZFHX3 WILD-TYPE     32     22     46
D32V11, multiclass
        clus
vv       ZFHX3 MUTATED ZFHX3 WILD-TYPE
  CLUS_1             4              32
  CLUS_2             4              22
  CLUS_3             8              46
                 vv
clus              CLUS_1 CLUS_2 CLUS_3 CLUS_4
  ZFHX3 MUTATED        4      1     10      1
  ZFHX3 WILD-TYPE     19     21     55      5
D32V12, multiclass
        clus
vv       ZFHX3 MUTATED ZFHX3 WILD-TYPE
  CLUS_1             4              19
  CLUS_2             1              21
  CLUS_3            10              55
  CLUS_4             1               5

Clustering(33) Variable = RB1 MUTATION ANALYSIS
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RB1 MUTATED        1      3      2      0
  RB1 WILD-TYPE     11     15      9     10
D33V1, multiclass
        clus
vv       RB1 MUTATED RB1 WILD-TYPE
  CLUS_1           1            11
  CLUS_2           3            15
  CLUS_3           2             9
  CLUS_4           0            10
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  RB1 MUTATED        2      2      2
  RB1 WILD-TYPE     15     16     14
D33V2, multiclass
        clus
vv       RB1 MUTATED RB1 WILD-TYPE
  CLUS_1           2            15
  CLUS_2           2            16
  CLUS_3           2            14
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  RB1 MUTATED       16      0      2      0      2      0
  RB1 WILD-TYPE    141     12     52      8      8      1
D33V3, multiclass
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  RB1 MUTATED        2      2      5
  RB1 WILD-TYPE     41     39     46
D33V4, multiclass
        clus
vv       RB1 MUTATED RB1 WILD-TYPE
  CLUS_1           2            41
  CLUS_2           2            39
  CLUS_3           5            46
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5 CLUS_6
  RB1 MUTATED        3      6      2      3      3      1
  RB1 WILD-TYPE     36     30     35      7     37     23
D33V5, multiclass
D33V6, binary
               cls
clus              0   1
  RB1 MUTATED     9   9
  RB1 WILD-TYPE 106  62
[1] "tbl2"
               cls
clus            [,1] [,2]
  RB1 MUTATED      9    9
  RB1 WILD-TYPE  106   62
        clus
vv       RB1 MUTATED RB1 WILD-TYPE
  CLUS_1           9           106
  CLUS_2           9            62
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RB1 MUTATED        6      2      8      4
  RB1 WILD-TYPE     57     34     64     70
D33V7, multiclass
        clus
vv       RB1 MUTATED RB1 WILD-TYPE
  CLUS_1           6            57
  CLUS_2           2            34
  CLUS_3           8            64
  CLUS_4           4            70
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  RB1 MUTATED       10      4      6
  RB1 WILD-TYPE     75     44    106
D33V8, multiclass
        clus
vv       RB1 MUTATED RB1 WILD-TYPE
  CLUS_1          10            75
  CLUS_2           4            44
  CLUS_3           6           106
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4 CLUS_5
  RB1 MUTATED        3      5      2      2      7
  RB1 WILD-TYPE     39     73     21     24     64
D33V9, multiclass
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  RB1 MUTATED        3      7      9
  RB1 WILD-TYPE      1    124     96
D33V10, multiclass
        clus
vv       RB1 MUTATED RB1 WILD-TYPE
  CLUS_1           3             1
  CLUS_2           7           124
  CLUS_3           9            96
               vv
clus            CLUS_1 CLUS_2 CLUS_3
  RB1 MUTATED        1      1      3
  RB1 WILD-TYPE     35     25     51
D33V11, multiclass
        clus
vv       RB1 MUTATED RB1 WILD-TYPE
  CLUS_1           1            35
  CLUS_2           1            25
  CLUS_3           3            51
               vv
clus            CLUS_1 CLUS_2 CLUS_3 CLUS_4
  RB1 MUTATED        1      1      3      0
  RB1 WILD-TYPE     22     21     62      6
D33V12, multiclass
        clus
vv       RB1 MUTATED RB1 WILD-TYPE
  CLUS_1           1            22
  CLUS_2           1            21
  CLUS_3           3            62
  CLUS_4           0             6
> q(save="no")
